[{"hash":"307378887931501691","title":"RNA processing and translational control","description":"The cluster is dominated by GO terms tied to post-transcriptional RNA regulation: miRNA-mediated silencing, regulation of mRNA stability under stress, mRNA modification, spliceosome-driven splicing (including alternative splicing and the small-subunit processome), IRES-dependent translation, and general regulation of translational initiation and mRNA stabilization. This points to a cohesive group of proteins involved in RNA maturation and control of gene expression at the translational level, rather than transcriptional regulation, with some developmental context (blastocyst formation) possibly reflecting timing of such regulation.","confidence":"High","size":29,"edges":341,"triangles":2643,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0035278","count":8},{"id":"GO:0010610","count":8},{"id":"GO:0001825","count":7},{"id":"GO:0016556","count":7},{"id":"GO:0075522","count":7}]},{"hash":"917850341935029170","title":"Developmental vascular and immune regulation","description":"This cluster centers on developmental processes and vascular signaling, with terms like lung development, VEGF production, and regulation of angiogenesis, along with proteolysis and components of the complement system (membrane attack complex activation). The presence of axis specification and cell growth regulation further supports a broad developmental theme, while some terms like nematode pharyngeal pumping or motor learning may reflect broader conserved pathways across species. Overall, the common thread appears to be developmental control of tissue growth and vascular/immune signaling. ","confidence":"Medium","size":29,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:0001970","count":3},{"id":"GO:0010751","count":3},{"id":"GO:0030324","count":3},{"id":"GO:0001558","count":3}]},{"hash":"1496364842724274808","title":"Neuroendocrine Embryonic Development","description":"The terms point to early embryogenesis and tissue-specific development, with strong signals for neural lineage (peripheral nervous system neuron development, motor neuron axon guidance, hypothalamus differentiation) and endocrine organs (pituitary gland development), plus general transcriptional regulation during development (RNA Pol II transcription and its negative regulation). Together they suggest a cohesive theme of neuroendocrine development during embryogenesis, rather than a single pathway.","confidence":"High","size":29,"edges":30,"triangles":0,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":20},{"id":"GO:0021983","count":16},{"id":"GO:0090009","count":16},{"id":"GO:0048935","count":16},{"id":"GO:0006366","count":14}]},{"hash":"1122338913640120311","title":"Neural development and synaptic signaling","description":"This cluster is dominated by neural-related functions: axonogenesis, long-term synaptic potentiation, visual perception, and excitatory postsynaptic potential point to neural development and synaptic activity. The presence of mitotic cell cycle terms may reflect pleiotropic or annotation-related overlaps, but the strongest signal aligns with neuronal development and synaptic signaling.","confidence":"Medium","size":29,"edges":8,"triangles":1,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":13},{"id":"GO:0007507","count":13},{"id":"GO:0043065","count":12},{"id":"GO:0060291","count":12},{"id":"GO:0000278","count":12}]},{"hash":"41129621742834929","title":"Translation and ribosome biogenesis with nucleotide metabolism","description":"The cluster is dominated by GO terms related to protein synthesis and ribosome function, including translation, mitochondrial translation, and ribosome biogenesis, suggesting a core theme around the protein synthesis machinery. Additional enrichment for nucleotide metabolism (GTP metabolic process, AMP salvage, nucleoside monophosphate phosphorylation) fits with the energetic and substrate requirements of translation and ribosome assembly. There are also mentions of antibiotic biosynthesis and response to antibiotic, which may reflect broader metabolic or regulatory links in this set, but the strongest signal remains translation and ribosome-related processes.","confidence":"High","size":29,"edges":218,"triangles":1006,"max_degree":23,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0017000","count":4},{"id":"GO:0032147","count":3},{"id":"GO:0032543","count":3},{"id":"GO:0042254","count":3}]},{"hash":"1275113212273258621","title":"Developmental transcriptional regulation","description":"This cluster centers on GO terms related to DNA-templated transcription and transcriptional regulation, alongside several differentiation and morphogenesis processes across diverse tissues (muscle, spermatid, oligodendrocyte, heart, ear, kidney). The shared theme appears to be regulation of gene expression during development and tissue differentiation, making this label a concise, representative summary. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0034720","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0007289","count":2}]},{"hash":"2278731463633214787","title":"RNA processing and translation regulation","description":"The cluster is dominated by GO terms related to RNA processing and splicing (spliceosome assembly, alternative splicing, small-subunit processome) as well as control of translation initiation and mRNA stability, including IRES-dependent viral translation. This points to a cohesive module around RNA maturation and translation control, rather than a single other function. Blastocyst formation appears marginal by comparison.","confidence":"High","size":29,"edges":232,"triangles":746,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001825","count":3},{"id":"GO:0016556","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0034462","count":3}]},{"hash":"1010141702448994186","title":"Mechanotransduction and Stress Signaling","description":"This cluster centers on GO terms related to signal transduction in response to mechanical cues (integrin-mediated signaling, cellular response to mechanical stimulus) and stress-related pathways (JNK cascade regulation, apoptotic process), with supporting roles for ubiquitin-dependent protein turnover and broader transcriptional regulation. The mix suggests a cohesive theme around mechanical signaling and cellular stress responses rather than a single isolated pathway.","confidence":"Medium","size":29,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006511","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0090307","count":3}]},{"hash":"2220009746267185260","title":"Embryonic morphogenesis and sensory neuron development","description":"Top GO terms point to developmental and morphogenetic processes, notably cochlea/ear morphogenesis and sensory perception, along with neural differentiation and cell movement. While several organ-specific terms (heart, digits, gonads) appear, the unifying theme is embryonic morphogenesis coupled with sensory/neural development and cytoskeletal dynamics.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":5},{"id":"GO:0007507","count":3},{"id":"GO:0090103","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0051017","count":3}]},{"hash":"535837791537413355","title":"Prostaglandin and sex hormone biosynthesis","description":"Top GO terms indicate strong enrichment for prostaglandin biosynthesis and testosterone biosynthetic processes, along with developmental roles in female gonad and mammary gland formation, pointing to a cluster centered on lipid hormone production and reproductive development. Some glycosaminoglycan biosynthesis terms and plant hormone-related notes may reflect broader lipid modification signals, but the dominant theme is lipid hormone biosynthesis and reproductive development.","confidence":"Medium","size":29,"edges":121,"triangles":241,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":13},{"id":"GO:0015015","count":9},{"id":"GO:0030206","count":9},{"id":"GO:0019383","count":8},{"id":"GO:0061370","count":8}]},{"hash":"2223312674625536071","title":"Ion Transport and Membrane Potential Regulation","description":"These proteins share strong signals for potassium and sodium transport, potassium homeostasis, and membrane potential stabilization/hyperpolarization, indicating a core role in maintaining ion gradients and cellular excitability. The presence of cAMP response and pain perception terms likely reflects neuronal signaling contexts, but the dominant theme is ion transport and membrane potential control.","confidence":"High","size":29,"edges":20,"triangles":2,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071805","count":17},{"id":"GO:0097623","count":16},{"id":"GO:0030007","count":16},{"id":"GO:0060081","count":15},{"id":"GO:0098719","count":14}]},{"hash":"1502705111780617185","title":"GTPase-Driven Cell Migration and Polarity","description":"The cluster is dominated by GO terms tied to small GTPase signaling (Rho/Ras), cytoskeletal dynamics, and cell movement, including cell migration, establishment of epithelial cell polarity, podosome assembly, and regulation of GTPase activity. Immune-related terms (NK T cell differentiation, B cell maturation) and myelin maintenance may reflect broader roles of GTPase pathways in immune and nervous system contexts, but the core theme is GTPase-mediated motility and polarity.","confidence":"High","size":29,"edges":33,"triangles":4,"max_degree":9,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0016477","count":19},{"id":"GO:0007264","count":18},{"id":"GO:0090162","count":16},{"id":"GO:0043547","count":16},{"id":"GO:0071803","count":14}]},{"hash":"1069345900435200958","title":"Pain and Neuroinflammatory Signaling","description":"This cluster centers on nociception and pain modulation (sensory perception of pain, regulation of pain), along with temperature-related and thermogenic responses, and immune/inflammatory processes (LPS response, inflammatory response). The inclusion of synaptic transmission modulation and sensorimotor gating hints at central nervous system involvement in integrating pain with immune and metabolic signals. Altogether, it points to a coherent theme of neural pain signaling intertwined with inflammatory and thermogenic regulation.","confidence":"High","size":29,"edges":193,"triangles":328,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":25},{"id":"GO:0071502","count":24},{"id":"GO:0002024","count":24},{"id":"GO:0032496","count":20},{"id":"GO:0060134","count":20}]},{"hash":"128644475703591023","title":"Developmental signaling and cell cycle regulation","description":"This cluster centers on signaling regulation and developmental processes, including protein heterotrimerization and GTPase activity regulation, serine/threonine kinase activity and autophosphorylation, and processes linked to the mitotic cell cycle and proliferation. Additional terms like multicellular organism development, skin development, hypoxia response, and mRNA transport suggest a coordinated regulatory program governing growth, differentiation, and tissue maturation. Overall, the terms point to a cohesive developmental signaling and proliferation-control theme.","confidence":"Medium","size":29,"edges":28,"triangles":8,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070208","count":10},{"id":"GO:0043547","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0071902","count":8},{"id":"GO:0071456","count":8}]},{"hash":"925114097300341917","title":"Photoreceptor maintenance and actin dynamics","description":"This cluster features retina photoreceptor\u2013related terms (retina development in camera-type eye; photoreceptor cell maintenance) and actin filament bundle assembly, suggesting a shared role in photoreceptor cell structure and cytoskeletal organization. Other terms (GTPase regulation, ubiquitination, mRNA processing, spindle assembly) are more disparate and do not define a single cohesive function, so the core theme centers on photoreceptor maintenance with cytoskeletal dynamics.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0060041","count":2}]},{"hash":"1759754911505347555","title":"Platelet Activation and Blood Coagulation","description":"The top GO terms are dominated by hemostasis-related processes: blood coagulation, platelet activation, and cell adhesion, with supporting signaling via ERK and GTPase pathways and vasoconstriction regulation. A couple of odd terms (fear response, visual perception) appear as noise. Overall, the cluster centers on platelet-driven coagulation and vascular signaling.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0030168","count":3},{"id":"GO:0048012","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0035025","count":2}]},{"hash":"1541113116934052752","title":"Neuronal axon guidance and synaptic adhesion","description":"Top GO terms cluster around neuronal development, axon domain organization (paranode/juxtaparanode), synaptic potentiation, cell-matrix adhesion, and signaling pathways (integrin and semaphorin-plexin), plus Rho-mediated cytoskeletal regulation. This converges on axon structure, guidance, and synaptic adhesion/regulation.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0060291","count":7},{"id":"GO:0007229","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0007160","count":5},{"id":"GO:0031581","count":5}]},{"hash":"1988547800466983714","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":45,"triangles":5,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043588","count":5},{"id":"GO:0000209","count":5},{"id":"GO:0000132","count":5},{"id":"GO:0070208","count":4},{"id":"GO:0000480","count":4}]},{"hash":"2134252832848870171","title":"Pain and Thermoregulation with Immune Signaling","description":"The cluster is enriched for nociception and temperature-related terms (sensory pain, cellular response to temperature, diet-induced thermogenesis) alongside immune-related terms (lipopolysaccharide response, dendritic cell differentiation, astrocyte chemotaxis) and neural signaling components (regulation of membrane potential, dopamine receptor signaling). This points to a cohesive theme at the interface of neural processing of thermal/pain stimuli and immune communication, in both CNS and peripheral contexts.","confidence":"High","size":29,"edges":87,"triangles":28,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":25},{"id":"GO:0071502","count":25},{"id":"GO:0002024","count":25},{"id":"GO:0042391","count":23},{"id":"GO:0033861","count":23}]},{"hash":"1446335785724184617","title":"Unknown","description":"The GO terms span lipid biosynthesis, responses to xenobiotics (cocaine, ethanol), inflammatory signaling, complement activation, extrinsic apoptosis, GI epithelium maintenance, and neurogenesis, indicating a highly diverse set with no single cohesive function. This suggests a heterogeneous cluster rather than a unified biological role.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006656","count":2},{"id":"GO:0042220","count":2},{"id":"GO:1900016","count":2},{"id":"GO:0097192","count":2},{"id":"GO:0045471","count":2}]},{"hash":"2289339011050044852","title":"Lipid and carbohydrate metabolism","description":"The cluster's top GO terms are dominated by broad metabolic processes, especially lipid-related catabolism (triglyceride, choline, arachidonate metabolism) and carbohydrate metabolism (glycolysis, glucose-6-phosphate). There is also an association with lipid signaling via regulation of endocannabinoid pathways. This pattern points to a group of proteins broadly involved in energy extraction and lipid-centered metabolism, with a few terms representing other metabolic roles or annotation noise (sporulation, biotin/antibiotic biosynthesis). Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":4},{"id":"GO:2000124","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0042426","count":3},{"id":"GO:0030435","count":3}]},{"hash":"521635842822984403","title":"Innate immune signaling and antiviral defense","description":"The cluster is enriched for innate immune and antiviral defense functions, with terms like innate immune response, defense response to virus, and inflammatory response, plus the NOD2 signaling pathway and a connection to NF-kappaB regulation. Ubiquitin-dependent protein catabolic process aligns with immune signaling and protein turnover during activation. Some terms related to mechanosensation or vitamin D response may reflect pleiotropic proteins or broader stress-responsive roles, but the dominant theme is innate immune signaling and inflammation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0051607","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0032088","count":5}]},{"hash":"74922466375123347","title":"Neuronal development and synaptic signaling","description":"This cluster is enriched for GO terms related to brain and nervous system development, together with signaling and synaptic processes (ERK/JNK cascades, regulation of synaptic vesicle exocytosis) and mechanosensory response, suggesting a cohesive theme around neural development and neuronal signaling. A few terms (spermatid development, mating projection growth) are less aligned and may reflect multifunctional proteins or annotation noise, but the dominant signal is neuronal development and synaptic function.","confidence":"High","size":29,"edges":19,"triangles":2,"max_degree":5,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0010796","count":6},{"id":"GO:0031384","count":6}]},{"hash":"1281141979860707707","title":"Vascular Inflammation and Coagulation","description":"This cluster is enriched for GO terms that tie together blood coagulation, inflammatory response, and vascular regulation (e.g., LPS response, vasoconstriction, smooth muscle contraction), pointing to innate immune activation affecting vascular tone. Although a few terms touch on development or neural plasticity, the dominant signal is inflammation-coagulation-vasculature.","confidence":"High","size":29,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0032496","count":5},{"id":"GO:0006954","count":5},{"id":"GO:0045907","count":5}]},{"hash":"485217509306981515","title":"Embryonic Development and Cell Adhesion","description":"The cluster centers on developmental processes and adhesion signaling: integrin-mediated signaling, cell adhesion, skin and lung development, and in utero embryonic development are prominent. While a few terms touch on fibrinolysis or NO signaling, the dominant pattern is embryonic tissue development tied to adhesion. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007229","count":6},{"id":"GO:0007205","count":5},{"id":"GO:0051918","count":5},{"id":"GO:0007155","count":5},{"id":"GO:0043588","count":5}]},{"hash":"722675094184724081","title":"Cell Cycle Signaling and Immune Response Regulation","description":"The top GO terms cluster around cell division and the regulation of key signaling pathways (Rho, ERK, NF-kappaB, PI3K) along with immune-related functions (adaptive immune response, IL-6 production) and ubiquitination. This suggests proteins that coordinate cell-cycle progression with modulation of inflammatory/immune signaling, rather than a single isolated process.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0045737","count":3}]},{"hash":"2051039393156700168","title":"Rho GTPase\u2013driven actin cytoskeleton regulation","description":"The top terms cluster around actin cytoskeleton dynamics and Rho-family GTPase signaling (regulation of Rho protein signal transduction; positive regulation of GTPase activity; actin crosslink formation; terminal web assembly; axonogenesis). Some terms are fungal-specific fusion processes (karyogamy, ascospore formation) or GPCR signaling (thrombin-activated receptor), but they still connect through cytoskeletal remodeling and signaling pathways. Overall, the cluster reflects cytoskeleton regulation mediated by Rho GTPases.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0070493","count":3},{"id":"GO:0000742","count":3},{"id":"GO:0051661","count":3},{"id":"GO:0030437","count":3}]},{"hash":"438458325800205520","title":"Regulatory Signaling and Gene Expression","description":"This cluster centers on regulatory processes rather than a single metabolic pathway: signaling pathways (e.g., NOD2 signaling), post-translational modification (protein ubiquitination), and RNA processing, alongside broader control of differentiation and mechanosensitive responses. The diverse terms suggest a broader regulatory role in cell function and gene expression, rather than a cohesive, specific pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2001275","count":8},{"id":"GO:0016477","count":8},{"id":"GO:0032212","count":8},{"id":"GO:1904355","count":8},{"id":"GO:0035994","count":8}]},{"hash":"1058515416471243683","title":"Purine and urate transport across plasma membrane","description":"Most of the top GO terms describe transport of nucleobases and related compounds (urate, uracil, hypoxanthine, adenine, xanthine, guanine) across the plasma membrane, suggesting a cluster of nucleobase/nucleotide transporters. Some terms about lipid signaling or actin cytoskeleton are present but appear ancillary to the main transport theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015747","count":2},{"id":"GO:1903825","count":2},{"id":"GO:0070904","count":2},{"id":"GO:0098721","count":2},{"id":"GO:0035344","count":2}]},{"hash":"2077706631635599869","title":"Organ Development and Transcriptional Regulation","description":"The top GO terms are dominated by organ development signals (heart development, angiogenesis, kidney collecting duct development, lung epithelial differentiation) and core transcriptional activity (DNA-templated transcription, regulation of transcription by RNA Pol II). While some terms refer to general signaling and cell cycle, the overarching theme is developmental programs tied to transcriptional control, so this label, though broad, best captures the cluster's representative function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0007507","count":4},{"id":"GO:0001525","count":3},{"id":"GO:0072205","count":3},{"id":"GO:0060487","count":3}]},{"hash":"100485104597820024","title":"Vertebrate neural and sensory organ development","description":"The top GO terms cluster around nervous system and sensory structure development (brain, inner ear, peripheral nervous system neurons) along with embryonic processes (primitive streak, multicellular organism development, pituitary). Although there are broad terms like transcription regulation and immune response, the dominant theme is vertebrate neural and sensory organ formation.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0055114","count":6},{"id":"GO:0007338","count":6},{"id":"GO:0090009","count":6},{"id":"GO:0048935","count":6}]},{"hash":"17366849853859678","title":"Vertebrate embryonic development","description":"The top GO terms point to broad vertebrate embryogenesis and organogenesis, spanning midbrain development, odontogenesis, pituitary gland formation, pharyngeal system development, cartilage formation, semicircular canal development, and primitive streak formation, indicating a coherent theme of developmental patterning and tissue formation; the negative regulation of transcription by RNA polymerase II likely reflects regulatory control during development as well.","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":17},{"id":"GO:0030901","count":13},{"id":"GO:0042475","count":11},{"id":"GO:0021983","count":10},{"id":"GO:0045617","count":10}]},{"hash":"1787518870323736488","title":"Actin-regulated synaptic vesicle trafficking and spine morphogenesis","description":"This cluster centers on neuronal cytoskeletal remodeling and membrane trafficking, with strong signals for regulation of synaptic vesicle exocytosis/endocytosis, actin filament polymerization, formin-nucleated actin structures, and dendritic spine morphogenesis, plus brain development and Golgi-to-plasma membrane transport, indicating coordinated actin-driven synaptic function and spine formation.","confidence":"High","size":28,"edges":96,"triangles":75,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":15},{"id":"GO:0090338","count":14},{"id":"GO:0030838","count":14},{"id":"GO:1900242","count":14},{"id":"GO:0051496","count":14}]},{"hash":"2197922924666161626","title":"Deubiquitination and trafficking regulators","description":"This cluster centers on protein deubiquitination and broader regulation of membrane trafficking and signaling, as shown by GO terms for deubiquitination, negative regulation of endocytosis and TLR3 signaling, ER membrane insertion, and regulation of organelle dynamics (mitochondrial fusion, calcium channels). The proteins appear to function as regulators coordinating protein turnover with intracellular trafficking and signaling processes.","confidence":"Medium","size":28,"edges":294,"triangles":2017,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":14},{"id":"GO:0034140","count":9},{"id":"GO:1900186","count":9},{"id":"GO:0014070","count":8},{"id":"GO:1901340","count":8}]},{"hash":"1266883134034222423","title":"Developmental morphogenesis and neural differentiation","description":"The cluster shows enrichment in broad developmental terms (multicellular organism development, mitotic cell cycle) alongside neural-specific processes (dendrite morphogenesis, regulation of axonogenesis). There are also organogenesis-related terms (kidney development, ossification), suggesting a general developmental/morphogenesis theme with a notable emphasis on neural morphology. Confidence: Medium.","confidence":"","size":28,"edges":35,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0043931","count":5},{"id":"GO:0050771","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1215398836426153445","title":"Unknown","description":"The top GO terms cover a wide, disparate mix of processes (proteolysis, sensory and behavioral traits, molting/cuticle, heart development, coagulation, GPCR trafficking, viral release, bacterial cell wall metabolism, and mucus secretion) with no clear shared function linking all proteins, suggesting no single cohesive cluster theme.","confidence":"","size":28,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":5},{"id":"GO:0007605","count":4},{"id":"GO:0018996","count":4},{"id":"GO:0001662","count":3},{"id":"GO:0007596","count":3}]},{"hash":"745294351159460865","title":"Amino acid catabolism and central metabolism","description":"This cluster is mainly enriched for amino acid catabolic and biosynthetic processes (L-alanine, L-lysine, L-kynurenine) and core energy/metabolic pathways (TCA cycle, glyoxylate cycle) along with biosynthesis of porphyrin/heme precursors and quinolinate (NAD) pathways. The presence of Notch signaling and DNA-templated transcription terms likely reflects multifunctional proteins or annotations, but the dominant theme across the terms is metabolic processing and energy production. ","confidence":"Medium","size":28,"edges":99,"triangles":319,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007219","count":6},{"id":"GO:0042853","count":6},{"id":"GO:0019878","count":6},{"id":"GO:0097053","count":6},{"id":"GO:0006099","count":6}]},{"hash":"2281504195194907016","title":"Nuclear transcription and RNA processing","description":"This cluster's top terms group around nuclear gene expression: DNA-templated transcription, transcription elongation, mRNA splicing and capping, ribosome biogenesis and ribosomal export, rRNA processing, and nuclear pore assembly, indicating a cohesive role in RNA synthesis and ribosome production within the nucleus.","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:0042254","count":3},{"id":"GO:0006354","count":3},{"id":"GO:0000055","count":3},{"id":"GO:0051567","count":3}]},{"hash":"88460671627961494","title":"Germline development and gametogenesis","description":"This cluster is dominated by GO terms for oocyte maturation, fertilization, oocyte karyosome formation, and spermatid development, alongside P granule organization and germline RNA processes like mRNA processing and transposable element silencing. Together these indicate a cohesive theme of germline development and gametogenesis with RNA-based regulation and genome defense in germ cells; ionic transport and renin-angiotensin regulation appear ancillary rather than defining the core function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001556","count":2},{"id":"GO:0009566","count":2},{"id":"GO:0003081","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0071805","count":2}]},{"hash":"2128337717588428185","title":"Potassium-Driven Membrane Potential and Sensory Signaling","description":"These proteins cluster around electrophysiology and sensory signaling: detection of mechanical stimuli and pain, membrane repolarization in cardiac tissues, potassium transport and resting membrane potential, and related development, indicating a group of ion-channel\u2013related components governing sensory perception and membrane excitability.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050976","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0098914","count":11},{"id":"GO:0071805","count":10},{"id":"GO:0060075","count":10}]},{"hash":"1135938548001731247","title":"Neuroimmune Pain and Thermoregulation","description":"The cluster combines genes linked to pain perception and temperature responses with immune- and glial-related processes (LPS response, astrocyte chemotaxis, dendritic cell differentiation, GDNF regulation, and dopamine signaling modulation). This pattern points to a coordinated neuroimmune program where neural sensing of pain/temperature intersects with immune signaling and glial activity, potentially affecting neuroinflammation and metabolic regulation.","confidence":"Medium","size":28,"edges":5,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":25},{"id":"GO:0071502","count":25},{"id":"GO:0002024","count":25},{"id":"GO:2000458","count":23},{"id":"GO:0014829","count":23}]},{"hash":"1353192167206032307","title":"Mitotic Ubiquitination Inflammatory Signaling Cluster","description":"This cluster combines strong signals for mitotic spindle assembly with ubiquitin-proteasome\u2013related processes and robust innate immune/inflammatory terms (MyD88-dependent TLR signaling, IL-6 regulation, pyroptosis, apoptosis). The overlap suggests a coordinated stress-response module where ubiquitin-mediated proteolysis links cell-cycle control to immune signaling and inflammatory outcomes. While the proteins span several processes, the common theme appears to be regulation by ubiquitination affecting both mitosis and inflammatory pathways.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":12},{"id":"GO:0045087","count":12},{"id":"GO:0016567","count":11},{"id":"GO:0031146","count":10},{"id":"GO:0070269","count":10}]},{"hash":"1556654257308054141","title":"Neural development and tissue remodeling","description":"This cluster is driven by neural development signals (midbrain development, Wnt pathway, transcriptional regulation) complemented by processes of extracellular matrix remodeling and vascularization (tissue remodeling, plasminogen activation/fibrinolysis, angiogenesis). The presence of complement pathway terms may reflect immune-modulatory roles during development or remodeling. Together, these terms point to a coordinated program of neural development with ECM turnover and vascular changes rather than a single isolated function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":16},{"id":"GO:0030901","count":14},{"id":"GO:0045944","count":10},{"id":"GO:0048771","count":9},{"id":"GO:0031639","count":9}]},{"hash":"980972512758933453","title":"Brain sensory and dopaminergic signaling","description":"The cluster's top GO terms cluster around neural processes: sensory perception (pain and vision), dopaminergic synaptic transmission, visual learning, cocaine-related behavioral response, and ERK signaling, plus brain-related regulatory pathways like the brain renin-angiotensin system. While a few terms such as heart development and macrophage chemotaxis appear, the dominant signal is brain/neural signaling and sensory-reward processing, suggesting these proteins function together in neural signaling networks.","confidence":"High","size":28,"edges":335,"triangles":2362,"max_degree":27,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":24},{"id":"GO:0007507","count":24},{"id":"GO:0001963","count":23},{"id":"GO:0010759","count":23},{"id":"GO:0008542","count":23}]},{"hash":"2054809806081086245","title":"CNS Neuroimmune GPCR Signaling","description":"This cluster centers on neural-immune interactions and GPCR regulation: regulation of astrocyte chemotaxis, LPS response, dopamine receptor signaling modulation, GPCR internalization, and neurotrophic factor production. The inclusion of dendritic cell differentiation hints at broader immune activation, but the dominant pattern ties CNS-related immune signaling to GPCR dynamics.","confidence":"Medium","size":28,"edges":225,"triangles":765,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":25},{"id":"GO:0014829","count":25},{"id":"GO:0097029","count":25},{"id":"GO:0060160","count":25},{"id":"GO:0032496","count":25}]},{"hash":"764034380272134522","title":"Cofactor biosynthesis and tRNA/protein modification","description":"The cluster shows enrichment for cofactor biosynthesis (biotin, menaquinone, ubiquinone) and antibiotic biosynthetic processes, plus RNA and protein modification terms (tRNA wobble uridine modification, N-terminal methylation), indicating a cohesive focus on biosynthesis and post-transcriptional/post-translational modification. Some xenobiotic response and senescence terms appear as less-connected signals.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":7},{"id":"GO:0009102","count":7},{"id":"GO:0035690","count":6},{"id":"GO:0009234","count":6},{"id":"GO:0018013","count":6}]},{"hash":"362241660730973824","title":"Neuroimmune GPCR Signaling and Vascular Regulation","description":"The top GO terms emphasize GPCR signaling (adenylate cyclase activation), dopamine receptor modulation, and immune processes (lipopolysaccharide response, dendritic cell differentiation), along with vascular functions (blood pressure regulation, smooth muscle contraction) and astrocyte chemotaxis. Together these suggest a module where neural signaling, immune responses, and vascular regulation are coordinated, with GPCR pathways as a central connector. The electron transport chain term may reflect shared metabolic components rather than a specific cluster function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":23},{"id":"GO:0045777","count":23},{"id":"GO:0035025","count":23},{"id":"GO:0010579","count":23},{"id":"GO:2000458","count":21}]},{"hash":"960431890772714384","title":"Neuronal signaling and light-responsive behavior","description":"The GO terms point to ion transport across membranes (K+, Na+, Ca2+), excitatory and inhibitory synaptic signaling (EPSP, GABA pathway), and overall neuronal excitability, which underpin neural communication. The additional terms\u2014startle and locomotory behavior, conditioned taste aversion, and light/dark perception and circadian regulation\u2014suggest that this cluster governs sensory processing and behavior in response to light and other stimuli. Altogether, this cluster reflects neural signaling with light- and sensory-driven behavioral outputs.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":23},{"id":"GO:0001661","count":20},{"id":"GO:0035725","count":20},{"id":"GO:0060079","count":20},{"id":"GO:0007214","count":20}]},{"hash":"1174962223850747632","title":"Broad-spectrum solute transmembrane transporters","description":"The top GO terms are all variations of transmembrane transport across membranes for a wide range of substrates (ions like Na+, K+, phosphate, nitrate/nitrite; sugars like galactose; vitamins; xenobiotics), indicating a cluster of membrane transporter proteins with broad substrate specificity rather than a single-substrate function.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":24},{"id":"GO:0035461","count":24},{"id":"GO:0006855","count":24},{"id":"GO:0042891","count":23},{"id":"GO:0015757","count":22}]},{"hash":"1934056149992864258","title":"DNA repair and nucleotide signaling","description":"The cluster is dominated by GO terms related to DNA maintenance, including DNA repair and positive regulation of double-strand break repair, with DNA integration also appearing. The presence of diadenosine tetraphosphate/pentaphosphate catabolic processes and dGDP catabolic processes suggests nucleotide turnover/signaling linked to stress responses, which complements the DNA damage repair theme. A few terms like negative regulation of rRNA processing are peripheral but not central to the main motif. Overall, the set points to genome maintenance and nucleotide signaling as the core function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0055114","count":2},{"id":"GO:1901907","count":2},{"id":"GO:0046067","count":2},{"id":"GO:2000781","count":2}]},{"hash":"736614639796381121","title":"Transmembrane ion and metabolite transport","description":"The top terms are dominated by various transmembrane transport processes (sodium, potassium, nitrate/nitrite, phosphate, galactose, fucose) and even neurotransmitter loading into synaptic vesicles, with a supplementary GO term on regulation of Rho signaling. This points to a cluster enriched for membrane transporters/channels moving ions and small metabolites, with a minor signaling regulation aspect, hence the chosen label. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0015757","count":4},{"id":"GO:0006004","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0015706","count":4}]},{"hash":"814551817912335073","title":"Blood coagulation and vascular remodeling","description":"The top GO terms point to coagulation and plasminogen activation (fibrinolysis), complemented by cell-matrix adhesion and smooth muscle cell migration/proliferation, indicating a cohesive theme of coagulation intertwined with vascular remodeling and vessel-wall dynamics. Some broader terms may reflect shared remodeling processes, but the dominant signal is coagulation with vascular/smooth muscle regulation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":17},{"id":"GO:0051919","count":12},{"id":"GO:0031639","count":12},{"id":"GO:0014909","count":11},{"id":"GO:0019800","count":10}]},{"hash":"1081951089281659021","title":"Axon guidance and synapse assembly","description":"The top GO terms cluster around neuronal development, focusing on axon extension, guidance, fasciculation, and synapse assembly, along with cell adhesion processes that support pathfinding. While there are some vascular and skeletal development terms included, the dominant signal is neuronal connectivity formation and adhesion, pointing to axon guidance and synapse formation as the core function of this cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":10},{"id":"GO:0048846","count":9},{"id":"GO:0002042","count":8},{"id":"GO:0060982","count":8},{"id":"GO:0007275","count":8}]},{"hash":"2169225578332032111","title":"Unknown","description":"The supplied GO terms span immune signaling (TNF production, IL-1 response), development, chromatin remodeling, RNA and protein modification, metabolism, and even antibiotic biosynthesis, with no single dominant function connecting the proteins. This scattered mix makes it difficult to assign a coherent, specific cluster label, so I\u2019m labeling it Unknown. ","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032760","count":3},{"id":"GO:0045815","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0000154","count":2},{"id":"GO:0070555","count":2}]},{"hash":"1298009491952225344","title":"Virus-Host Entry and Proviral Latency","description":"The cluster\u2019s top terms cluster around pathogen interaction with host cells: viral entry into the nucleus, DNA integration and proviral latency, and symbiont-mediated host effects, including apoptosis and cell entry. Immune modulation and hepatocyte apoptosis add to a cohesive theme of host-pathogen interaction and genetic material integration. A few mechanical-stimulus terms appear less related and may reflect broader GO coverage or noise. This suggests the core label should reflect pathogen-driven host manipulation and genome integration.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035994","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0075732","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4}]},{"hash":"1020178647916616359","title":"Vertebrate neural development","description":"The top GO terms are centered on neural development (midbrain development, PNS neuron development, dorsal spinal cord development, locomotory behavior), with additional embryonic patterning terms (primitive streak formation, roof of mouth development, pituitary/pancreatic differentiation). This suggests a cluster of proteins involved in vertebrate neurodevelopment and associated embryogenesis, so a label focusing on neural development best captures the core function. The transcriptional regulation term indicates regulatory control during development, reinforcing this theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0030901","count":12},{"id":"GO:0060021","count":9},{"id":"GO:0090009","count":8},{"id":"GO:0048935","count":8}]},{"hash":"1052436349407128039","title":"Cell-cycle and developmental signaling regulators","description":"The terms cluster around mitosis (mitotic cell cycle, G2/M transition) and kinase activity regulation, with additional developmental (retina layer formation, metanephric collecting duct development) and signaling-related processes (synaptic vesicle endocytosis, long-term potentiation, apoptotic regulation, cardiac contraction). This suggests a set of proteins that broadly regulate cell division and developmental signaling across tissues rather than a single tissue-specific function.","confidence":"Medium","size":27,"edges":8,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":9},{"id":"GO:0097274","count":7},{"id":"GO:0000086","count":6},{"id":"GO:0060048","count":6},{"id":"GO:0043065","count":6}]},{"hash":"1941727661817491380","title":"Auditory system development and neural signaling","description":"The cluster is enriched for terms tied to hearing and neural communication: detection of sound, cochlea development, postsynaptic membrane organization, dopaminergic synaptic transmission, membrane depolarization, and neuron survival, with related zinc response and vesicle-related processes. This points to proteins involved in auditory system development and synaptic signaling, with broader roles in neural signaling and membrane dynamics. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043524","count":8},{"id":"GO:0050910","count":8},{"id":"GO:0007340","count":8},{"id":"GO:0090102","count":8},{"id":"GO:0048630","count":8}]},{"hash":"290918432034728512","title":"Vascular remodeling and bone formation","description":"The top GO terms cluster around blood vessel maturation, collagen catabolic processes, wound healing, intramembranous ossification, and bone trabecula formation, with some vascular-associated signaling. This suggests a cohesive theme of tissue remodeling involving vascular development and skeletogenic matrix formation during healing, rather than unrelated functions.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001955","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0071230","count":2},{"id":"GO:1904707","count":2},{"id":"GO:1900122","count":2}]},{"hash":"2214843243312321265","title":"Spliceosome Regulation and Stress Granule Localization","description":"This cluster is dominated by RNA processing terms: positive regulation of mRNA splicing via the spliceosome and mRNA splicing via the spliceosome, along with regulatory ncRNA-mediated gene silencing and protein localization to cytoplasmic stress granules. While there are also terms for DNA replication and developmental processes, the strongest signal centers on spliceosome-mediated RNA processing and stress-granule\u2013related regulation, suggesting a coherent theme around RNA maturation and stress response.","confidence":"High","size":27,"edges":114,"triangles":388,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10},{"id":"GO:0006378","count":7},{"id":"GO:1903608","count":7},{"id":"GO:0006260","count":7}]},{"hash":"1930357714141450779","title":"Angiogenesis and vascular remodeling","description":"The terms are dominated by angiogenesis-related processes (angiogenesis, endothelial cell migration, positive/negative regulation of angiogenesis) and associated ECM interactions (cell-matrix adhesion, collagen fibril organization, vascular regulation), plus signaling via ERK. This indicates a cohesive cluster focused on blood vessel formation and remodeling.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043536","count":5},{"id":"GO:0007160","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0016525","count":5}]},{"hash":"165719963321374964","title":"Developmental Signaling and Cell Adhesion","description":"The cluster is enriched for terms related to development (heart and thymus development), signaling pathways (PDGF, Wnt), and cell-matrix interactions (integrin signaling, cell-matrix adhesion), plus related processes like axon guidance and apoptosis. This suggests a cohesive theme of coordinating development through signaling and adhesion rather than a single enzyme function.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0048538","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0010641","count":4}]},{"hash":"1284015335289403819","title":"DNA replication and cell cycle regulators","description":"Most GO terms in this cluster relate to nuclear processes tied to DNA replication, the G1/S transition, meiotic cell cycle, chromatin binding regulation, and kinetochore localization. The presence of terms like DNA replication, G1/S transition of mitotic cell cycle, meiotic cell cycle, and negative regulation of chromatin binding suggests a common theme of cell cycle control and chromosomal maintenance. A few terms (response to cocaine, excitatory postsynaptic potential, Schwann cell development, B cell receptor signaling) appear as peripheral associations, possibly reflecting multifunctional or context-specific roles of shared proteins.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0048741","count":4},{"id":"GO:0051321","count":3},{"id":"GO:0035562","count":3},{"id":"GO:0034501","count":3}]},{"hash":"1176026915265187816","title":"Cardiovascular-immune signaling module","description":"Based on the top GO terms, the cluster centers on heart/vascular-related processes (heart development, platelet activation, vasoconstriction) and immune/inflammatory responses (immune response, defense against bacterium, IL-8 production), with additional signaling through GPCR and phosphoinositide pathways (dopamine receptor signaling, phosphatidylinositol biosynthesis). The presence of xenobiotic response and phototransduction hints at shared signaling machinery across tissues rather than a single tissue-specific function, suggesting a module that coordinates cardiovascular signals with immune responses via GPCR-driven pathways.","confidence":"Medium","size":27,"edges":323,"triangles":2299,"max_degree":26,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":23},{"id":"GO:0010513","count":22},{"id":"GO:0042742","count":22},{"id":"GO:0042493","count":22},{"id":"GO:0006955","count":22}]},{"hash":"10932087364635871","title":"Translation initiation and trafficking regulators","description":"This cluster is dominated by GO terms tied to translation initiation (formation of translation preinitiation complex; regulation of translational initiation; translation reinitiation) and vesicle trafficking (ER to Golgi transport), with supporting roles in GTPase regulation and protein turnover (proteasome assembly, deneddylation). While there are a few outlier terms like pigmentation and transcriptional control, the core theme ties protein synthesis initiation to intracellular transport and proteostasis, suggesting a group of regulators coordinating translation with protein trafficking and turnover.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0043473","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006446","count":2}]},{"hash":"1275808022320764822","title":"Developmental Signaling and Vesicle Trafficking","description":"The cluster combines terms tied to developmental signaling (ERK cascade, Wnt signaling, nervous system and spermatid development) with intracellular transport processes (Golgi to plasma membrane, endosome to Golgi, Cvt pathway). This suggests proteins that coordinate signal transduction with vesicle trafficking during development, despite some obsolete terms present.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0007399","count":5},{"id":"GO:0007286","count":5},{"id":"GO:0031532","count":4},{"id":"GO:0043552","count":4}]},{"hash":"550845921925471509","title":"Cytoskeleton Remodeling and Morphogenesis","description":"This cluster centers on actin cytoskeleton organization and regulation of GTPase activity, which drive dynamic cytoskeletal remodeling. Additional GO terms for cell adhesion, morphogenesis across tissues, axon guidance, and matrix remodeling (plasminogen activation) suggest a cohesive theme where cytoskeletal dynamics underlie cell shape changes, adhesion, and tissue morphogenesis.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0060665","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0030036","count":3},{"id":"GO:0072499","count":3}]},{"hash":"668892560978675910","title":"Multicellular development and neural projection formation","description":"Most top GO terms describe developmental processes across tissues, notably nervous system maturation (axon extension, neuron projection development, synapse assembly) and organ development (podocyte, gonad, multicellular organism development). A few terms relate to vesicle formation and cell cycle, which can accompany morphogenesis. Together, they point to a theme of developmental and neural morphogenesis rather than a single signaling pathway.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0008584","count":3},{"id":"GO:0070676","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0048675","count":2}]},{"hash":"771258471395419446","title":"Unknown","description":"The GO terms span skin and cornea development, muscle contraction and sarcomere organization, calcium ion sensing, surfactant homeostasis, immune defense, and developmental axis specification, showing no single cohesive function or pathway. Therefore I cannot assign a meaningful, unified label; Unknown best fits. ","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":3},{"id":"GO:0005513","count":3},{"id":"GO:0060048","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0043129","count":2}]},{"hash":"1103282804195528855","title":"Neural development and synaptic plasticity","description":"The majority of top GO terms relate to brain development (forebrain morphogenesis, substantia nigra development), sensory processing, and regulation of synaptic plasticity and neuron survival, indicating a neural development/synaptic function cluster. Some terms about kidney development and mitochondrial assembly appear as noise but do not override the neural theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048169","count":2},{"id":"GO:1902043","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0001656","count":2}]},{"hash":"158937576374496020","title":"Ras/Rho GTPase Signaling","description":"The top GO terms are centered on small GTPase\u2013mediated signal transduction and regulation/activation of Ras and Rho pathways, indicating a unifying theme of GTPase-controlled signaling that governs cytoskeletal dynamics and cell movement. While some immune and metabolic terms appear (e.g., NK T cell differentiation, B cell maturation, insulin signaling), the core connection across the cluster is Ras/Rho GTPase signaling activity.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010765","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0001865","count":2}]},{"hash":"1979090309166339873","title":"Developmental Regulation and Tissue Remodeling","description":"The cluster includes terms related to development (male gonad development; development of secondary sexual characteristics; mammary gland involution) plus regulators of ossification, fibroblast proliferation, apoptosis, and cell cycle control, suggesting a broad theme of developmental processes and tissue remodeling rather than a single specific pathway.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0090557","count":2},{"id":"GO:0048147","count":2}]},{"hash":"1056663564632538054","title":"Cardiac and skeletal muscle developmental transcriptional regulation","description":"This cluster centers on transcription by RNA polymerase II and differentiation programs for heart (right ventricle formation, sinoatrial node differentiation) and skeletal muscle, with additional signals linked to pigmentation, circadian gene regulation, and pancreas fate, suggesting core transcriptional regulators guiding multi-tissue development.","confidence":"Medium","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":25},{"id":"GO:0003219","count":18},{"id":"GO:0043433","count":18},{"id":"GO:0043473","count":18},{"id":"GO:0032922","count":18}]},{"hash":"277894656547433543","title":"Nematode development and reproduction","description":"This cluster shows enrichment for nematode-specific developmental and reproductive processes, including pharyngeal pumping, oocyte axis specification, embryonic morphogenesis, cuticle molting, and fertilization-related events (polyspermy prevention and sperm\u2013zona pellucida interactions). The presence of proteolysis and ERK signaling terms supports tissue remodeling and developmental regulation. Together, these terms point to a role in nematode development with a focus on reproduction and lifecycle transitions.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006508","count":5},{"id":"GO:0043050","count":4},{"id":"GO:0007313","count":4},{"id":"GO:0048632","count":4},{"id":"GO:0060468","count":4}]},{"hash":"1239419486177845491","title":"TLR4-LPS Innate Immune Signaling","description":"The top GO terms cluster around innate immunity, especially detection of lipopolysaccharide (LPS) and TLR4 signaling, leading to inflammatory responses. While a few development-related terms appear, the dominant theme is TLR4/LPS-driven innate immune signaling and inflammation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0007169","count":3},{"id":"GO:0032497","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0006954","count":3}]},{"hash":"1274687431471950878","title":"Mitochondrial energy metabolism and protein assembly","description":"The cluster shows strong signals for mitochondrial electron transport and aerobic respiration (energy production) alongside insulin-related metabolic signaling, suggesting a metabolic regulation theme. Additionally, repeated terms for protein complex assembly (heterooligomerization and tetramerization) fit with assembly of mitochondrial enzyme complexes. Some viral/symbiont interaction terms appear incidental, but do not define the core function. Overall, energy metabolism with supporting protein assembly best describes the cluster.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:1901143","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0009060","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0016032","count":3}]},{"hash":"726318495604212078","title":"Neuronal development and ER-Golgi trafficking","description":"The cluster includes neural development terms (substantia nigra development, hippocampus development) and synaptic activity (excitatory postsynaptic potential), along with protein-trafficking and stress-response processes (ER-to-Golgi vesicle transport, unfolded protein response, autophagy of mitochondrion, cellular response to xenobiotic stimulus). Together these suggest a module focused on neuronal development linked to vesicle trafficking and cellular quality-control mechanisms, rather than a single generic function.","confidence":"Medium","size":26,"edges":44,"triangles":7,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0021762","count":3},{"id":"GO:0043280","count":2},{"id":"GO:0000422","count":2},{"id":"GO:0035690","count":2}]},{"hash":"1975066187874874223","title":"Protein synthesis and RNA processing","description":"The cluster is dominated by translation-related terms (GO:0006412) and tRNA maturation/charging (GO:0008033, GO:0006430), with an additional chromatin organization term. While there are a few metabolic/cofactor biosynthesis terms present (PQQ/menaquinone), they are less represented, so the core signal points to protein synthesis and RNA processing functions rather than a single metabolic pathway. Confidence: Medium","confidence":"","size":26,"edges":154,"triangles":291,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0018189","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0030574","count":2}]},{"hash":"1368465123449054614","title":"Thermal and pain response with immune-cardiac signaling","description":"The cluster shows strong representation of temperature and pain-related responses (sensory perception of pain, cellular response to temperature stimulus, diet-induced thermogenesis) alongside ion homeostasis and membrane potential regulation, plus immune/defense responses and heart development with ERK signaling. This suggests a network of stress-responsive signaling where nociception and thermoregulation intersect with immune and cardiac pathways, rather than a single, narrowly defined function. Confidence in this thematic label is Moderate.","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0071502","count":13},{"id":"GO:0002024","count":13},{"id":"GO:0042391","count":9},{"id":"GO:0030007","count":8}]},{"hash":"1538911753448836043","title":"Neuronal signaling and circadian regulation","description":"This cluster centers on neural signaling, synaptic organization, and dopaminergic transmission, with supporting terms for postsynaptic function and membrane depolarization. It also includes circadian sleep/wake regulation and sensory perception, indicating a cohesive neural/synaptic and rhythmic control theme; zinc response and amyloid fibril regulation may reflect modulatory aspects in neural contexts.","confidence":"High","size":26,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":5},{"id":"GO:0050884","count":5},{"id":"GO:0007605","count":5},{"id":"GO:0051899","count":4},{"id":"GO:0032226","count":4}]},{"hash":"2275180757170374529","title":"Neural-immune-vascular signaling","description":"The cluster shows strong signals across sensory processing (pain; visual perception and learning; prepulse inhibition), immune/inflammatory responses (response to LPS; inflammatory response), and vascular/cardiac processes (blood coagulation; heart development), with additional temperature-related regulation (temperature stimulus; diet-induced thermogenesis). This points to a set of proteins involved in integrated neural sensing affected by immune, vascular, and thermal signals, rather than a single narrow function.","confidence":"Medium","size":26,"edges":18,"triangles":23,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0008542","count":12},{"id":"GO:0007601","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0032496","count":10}]},{"hash":"411516300617312409","title":"HGF/VEGF Signaling and Cell Migration","description":"This cluster is dominated by GO terms linked to hepatocyte growth factor (HGF) signaling and vascular/muscle cell dynamics, including cellular response to HGF, HGF receptor signaling, VEGF receptor signaling, coronary artery morphogenesis, fibroblast migration, and ERK cascade activation. Together these point to a coherent theme of HGF/VEGF-driven signaling promoting cell adhesion, endothelial and myoblast differentiation, and migratory behaviors, with pollen recognition appearing as an outlier. High confidence in this thematic label.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035729","count":5},{"id":"GO:0007155","count":5},{"id":"GO:0051918","count":5},{"id":"GO:0010763","count":5},{"id":"GO:0060982","count":4}]},{"hash":"1022487546852148117","title":"Vesicle trafficking and endocytosis cluster","description":"These proteins are grouped by frequent GO terms tied to endocytosis and vesicle trafficking, including endocytosis, endosome-to-lysosome and endosome-to-Golgi transport, Golgi-to-plasma membrane transport, and regulation of synaptic vesicle endocytosis. The representation of endocytic pathways and vesicle movement suggests a functional cluster of membrane trafficking components rather than a single signaling pathway. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900242","count":6},{"id":"GO:0006893","count":5},{"id":"GO:0034498","count":5},{"id":"GO:0010796","count":5},{"id":"GO:0046330","count":5}]},{"hash":"1029086837309545430","title":"Immune signaling and antigen processing","description":"The top GO terms point to antiviral and innate immune responses (defense against virus, innate immune response), ubiquitin-dependent protein catabolic processes, and signaling (TNF-mediated signaling, JNK cascade), with additional links to antigen presentation (positive regulation of MHC class I biosynthetic process) and even V(D)J recombination. This suggests a coherent cluster of proteins involved in immune surveillance, immune signaling, and antigen processing, including regulation of apoptosis. Although no edges are reported, the functional themes align with immune-related roles.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0051607","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0045345","count":6},{"id":"GO:0033209","count":6}]},{"hash":"440348895743375773","title":"Golgi-Associated Vesicle Trafficking in Neurons","description":"This cluster is dominated by terms about Golgi organization and retrograde Golgi-ER transport, plus vesicle trafficking, with prominent neuronal development signals such as axon guidance, nervous system development, and filopodium/neurite dynamics (including Roundabout signaling). The overall theme suggests proteins coordinating Golgi-anchored trafficking that impacts neurite outgrowth and axon pathfinding, with a few terms related to non-neuronal processes that appear as noise. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007030","count":5},{"id":"GO:0043552","count":4},{"id":"GO:0032258","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0043931","count":4}]},{"hash":"1731710823429609298","title":"Embryogenesis and Lineage Differentiation","description":"The cluster shows strong signals for embryonic development and early organismal patterning (in utero embryonic development, gastrulation) alongside differentiation of neural and hematopoietic lineages (neuron maturation, granulocyte and erythrocyte differentiation). Some terms pertain to chromatin regulation and apoptosis, which are regulatory processes during development, and a lipopolysaccharide response may reflect incidental immune interactions during development. Overall, the dominant theme is developmental programs guiding embryogenesis and lineage specification.","confidence":"Medium","size":25,"edges":17,"triangles":10,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":8},{"id":"GO:0042551","count":8},{"id":"GO:0032496","count":8},{"id":"GO:0045648","count":7},{"id":"GO:0035563","count":7}]},{"hash":"12045907951920667","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":12,"triangles":0,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":8},{"id":"GO:0001731","count":7},{"id":"GO:0002188","count":7},{"id":"GO:0075522","count":6},{"id":"GO:0006446","count":6}]},{"hash":"240387877145323147","title":"Inflammation-Associated Coagulation and Vasoconstriction","description":"This cluster centers on immune/inflammatory processes (response to LPS, inflammatory response) with coagulation (blood coagulation) and vascular regulation (vasoconstriction, regulation of smooth muscle contraction), plus pain perception. A couple of terms relate to neural development, but the dominant theme ties inflammation to vascular tone and coagulation, suggesting a cohesive inflammatory-vascular module.","confidence":"Medium","size":25,"edges":15,"triangles":0,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032496","count":3},{"id":"GO:0019076","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0019233","count":3}]},{"hash":"1219323365551081708","title":"Multitissue developmental morphogenesis","description":"The top GO terms span vascular development, neural patterning and axon guidance, sensory and reproductive maturation, hair orientation, ciliary assembly, and cell adhesion, indicating a broad developmental/morphogenetic theme across multiple tissues rather than a single pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001955","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0035082","count":2}]},{"hash":"843337125084691188","title":"Mitochondrial protein import and translation control","description":"This cluster is anchored by GO terms relating to mitochondria, notably protein insertion into the mitochondrial inner membrane and positive regulation of mitochondrial translation, suggesting a mitochondrial protein handling/translation control theme. The presence of ubiquitin-dependent ERAD hints at general protein quality-control processes that can intersect with mitochondrial maintenance. Some terms reference broader developmental or DNA repair processes, but the strongest signals center on mitochondrial function.","confidence":"Medium","size":25,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0032979","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0006281","count":2}]},{"hash":"108189641524451327","title":"Neural signaling and synaptic plasticity","description":"Top GO terms include positive regulation of synaptic transmission (glutamatergic), neurotransmitter secretion, learning, and synaptic plasticity, indicating a neuronal signaling and activity-dependent plasticity theme. While there are a few broader development or aging terms, the strongest signals center on neural communication and plasticity, suggesting this cluster reflects neuronal function rather than general development.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007568","count":6},{"id":"GO:0060528","count":6},{"id":"GO:0045746","count":6},{"id":"GO:0051968","count":6},{"id":"GO:0031915","count":6}]},{"hash":"1152978727255665900","title":"Arabinogalactan protein glycosylation","description":"The cluster\u2019s top GO terms cluster around arabinogalactan protein metabolic process and O-linked glycosylation via hydroxyproline, plus related mucilage biosynthesis, seed coat development, and root hair formation, pointing to plant cell-wall glycoproteins (AGPs) and their glycosylation pathways as the unifying theme. Despite some terms from other systems, the dominant signal is AGP biosynthesis and modification.","confidence":"High","size":25,"edges":71,"triangles":75,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":12},{"id":"GO:0030311","count":9},{"id":"GO:0007299","count":9},{"id":"GO:0018258","count":9},{"id":"GO:0048354","count":9}]},{"hash":"787162861563504821","title":"Ubiquitin-Proteasome Regulation and Circadian Control","description":"Dominant GO terms show ubiquitin-dependent protein catabolic processes, including SCF-dependent proteolysis, plus regulation of circadian rhythm, pointing to a proteostasis- and circadian-focused cluster. Additional terms indicate synapse assembly, DNA replication regulation, and metal-stress responses, suggesting linked neuronal/synaptic signaling and stress pathways built around proteostasis and circadian control.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":20},{"id":"GO:0042752","count":14},{"id":"GO:0031146","count":8},{"id":"GO:1903378","count":7},{"id":"GO:0060386","count":7}]},{"hash":"1549691976489854022","title":"Vascular remodeling and coagulation","description":"The top GO terms cluster around vascular development and hemostasis, including coronary artery morphogenesis, smooth muscle cell migration, plasminogen activation, blood coagulation, and positive regulation of fibrinolysis, with supportive signals from hepatocyte growth factor receptor signaling. While there are some unrelated terms (e.g., axon guidance, Notch regulation), the dominant pattern ties to vascular remodeling and coagulation processes.","confidence":"Medium","size":25,"edges":8,"triangles":1,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0060982","count":8},{"id":"GO:0048846","count":8},{"id":"GO:0014909","count":8},{"id":"GO:0032496","count":7}]},{"hash":"1491240642873753131","title":"Neuroinflammation and Glial Signaling","description":"These terms cluster around glial\u2013neural interactions (astrocyte chemotaxis, GDNF production, modulation of dopamine signaling) together with immune features (response to LPS, dendritic cell differentiation) and GPCR-related trafficking, suggesting a cohesive theme of neuroimmune communication and glial regulation rather than a single metabolic pathway. ","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":25},{"id":"GO:0014829","count":25},{"id":"GO:0097029","count":25},{"id":"GO:0060160","count":25},{"id":"GO:0032496","count":25}]},{"hash":"1226756832193795313","title":"Glial-Immune Signaling and GPCR Regulation","description":"This cluster centers on glial biology (astrocyte chemotaxis, glial neurotrophic factor production), immune responses (LPS response, dendritic cell differentiation), and GPCR-related processes (GPCR internalization, dopamine receptor signaling modulation), suggesting a shared theme of neural-immune cross-talk and GPCR trafficking rather than a single isolated function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":24},{"id":"GO:0014829","count":24},{"id":"GO:0097029","count":24},{"id":"GO:0060160","count":24},{"id":"GO:0032496","count":24}]},{"hash":"1339906853181300567","title":"Steroid and Prostaglandin Hormone Biosynthesis with Reproductive Development","description":"The top GO terms cluster around lipid-derived hormone biosynthesis (prostaglandin, testosterone, vitamin D; lipid hydroxylation) and developmental processes in reproductive tissues (female gonad, mammary gland, uterus). While a plant-specific term (brassinosteroid homeostasis) appears, the overall pattern points to steroid/lipid hormone production and signaling linked to reproductive biology.","confidence":"Medium","size":25,"edges":5,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001516","count":11},{"id":"GO:0033280","count":10},{"id":"GO:0019383","count":9},{"id":"GO:0061370","count":9},{"id":"GO:0008585","count":9}]},{"hash":"398291637621660008","title":"Neurovascular-Glial-Immune Signaling","description":"These GO terms point to brain-related processes: GPCR and dopamine receptor signaling, astrocyte and glial activity, neurotrophic factor production, vascular regulation (blood pressure, smooth muscle contraction), immune responses (LPS), and even neuronal energy metabolism (electron transport chain). The mix suggests coordinated neurovascular and glial-immune signaling in the brain rather than a single linear pathway, making a neurovascular\u2013glial\u2013immune theme the most coherent label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":23},{"id":"GO:0045777","count":23},{"id":"GO:0010579","count":23},{"id":"GO:2000458","count":22},{"id":"GO:0014829","count":22}]},{"hash":"1268194403675340927","title":"Cytokine-Driven Inflammatory Signaling","description":"The top GO terms are dominated by cellular responses to inflammatory cues (interleukin-1, interleukin-6, TNF, lipopolysaccharide), pointing to cytokine signaling and inflammatory pathways. Additional terms for hypoxia and other signaling stimuli suggest broader stress-response signaling that commonly accompanies immune activation, making \"cytokine-driven inflammatory signaling\" a concise, representative label for this cluster.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"lipid metabolic process","top_go_terms":[{"id":"GO:0071347","count":4},{"id":"GO:0071320","count":4},{"id":"GO:0070741","count":4},{"id":"GO:0071377","count":3},{"id":"GO:0014823","count":3}]},{"hash":"1068808232190270800","title":"Neuronal signaling and myelination proteins","description":"The top GO terms cluster around neural development and signaling: myelination, axon choice point recognition, receptor internalization, membrane ion transport, and regulation of signaling pathways (GTPase activity and MAPK). Together these terms point to proteins involved in neural maturation, axon guidance, and neuronal signaling rather than a specific cytosolic enzyme, supporting a cohesive theme of neural development and signaling functions.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":2},{"id":"GO:0046827","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0048149","count":2},{"id":"GO:0009405","count":2}]},{"hash":"2060303164063197622","title":"Ephrin Signaling in Immune and Neural Development","description":"The top GO terms cluster around ephrin receptor signaling and its regulation, which are key in neural development and synaptic plasticity, while also appearing in immune signaling and T cell responses. Additional terms on ubiquitination, apoptosis, and the cell cycle suggest broader regulatory processes that tie signaling to cell fate decisions across immune and neural contexts. This points to a cohesive theme of Eph/ephrin-mediated signaling cross-talk in both immune and neural development.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:2000251","count":4},{"id":"GO:1900383","count":4},{"id":"GO:1901187","count":4},{"id":"GO:0050798","count":4}]},{"hash":"1946809583245652535","title":"Neural-immune signaling and synaptic plasticity","description":"The top GO terms include neural activities such as long-term synaptic depression and synaptic plasticity (including social behavior and LTP regulation) alongside immune signaling pathways (B and T cell receptor signaling) and growth factor signaling (EGFR/ephrin). This points to a shared signaling network impacting both neuronal synaptic remodeling and immune cell signaling, hence a label that reflects both domains.","confidence":"Medium","size":24,"edges":49,"triangles":18,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060292","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0035176","count":5},{"id":"GO:0051835","count":5},{"id":"GO:0050852","count":5}]},{"hash":"814443507429287148","title":"Microbial secondary metabolism and bioluminescence","description":"The top GO terms point to microbial traits: siderophore biosynthesis, nonribosomal peptide biosynthesis, long-chain fatty acid metabolism and import, and bioluminescence, suggesting a bacterial cluster involved in secondary metabolite production and light emission. While a couple terms (seed coat development, plant-related phenylpropanoid processes) exist, the strongest signals align with microbial metabolism and bioluminescence.","confidence":"Medium","size":24,"edges":158,"triangles":539,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902987","count":8},{"id":"GO:0010214","count":7},{"id":"GO:0019290","count":7},{"id":"GO:0009698","count":7},{"id":"GO:0008206","count":7}]},{"hash":"1777222487984390464","title":"Nematode ribosome biogenesis and transcription regulation","description":"The cluster centers on ribosome biogenesis and processing (ribosome biogenesis, export of the large subunit, and related assembly steps) with additional signals of transcriptional regulation (negative regulation of RNA Pol II regulatory region). There are also nematode-specific processes (pharyngeal pumping, molting) that suggest a nematode developmental context, but the dominant theme is ribosome assembly and gene expression machinery in nematodes.","confidence":"Medium","size":24,"edges":12,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043050","count":3},{"id":"GO:0018996","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0042273","count":2}]},{"hash":"47744625490425153","title":"Developmental biology and chromatin regulation","description":"This cluster mixes GO terms tied to development (neuron development, left/right asymmetry, ciliary motility, neuromuscular junction synaptic regulation) with chromatin-related processes (nucleosome assembly, chromatin assembly, histone exchange, C-5 methylation). The combination suggests proteins involved in developmental programs that are also regulated at the epigenetic level, though the terms span multiple related processes rather than a single function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1},{"id":"GO:0048666","count":1},{"id":"GO:1901673","count":1},{"id":"GO:1990755","count":1},{"id":"GO:0060296","count":1}]},{"hash":"734829592379831494","title":"Inflammation and Vascular ECM Remodeling","description":"The cluster centers on inflammatory response and vascular-associated processes, including endothelial proliferation and extracellular matrix (collagen) organization with tight junction assembly, indicating inflammation-linked vascular development and tissue remodeling. Endocytosis, lipoprotein transport, apoptotic cell clearance, and developmental terms like somite development and chondrocyte differentiation further support a theme of ECM- and vasculature-related remodeling during development.","confidence":"Medium","size":24,"edges":36,"triangles":15,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0002438","count":6},{"id":"GO:1904274","count":6},{"id":"GO:0042953","count":6},{"id":"GO:0006898","count":6}]},{"hash":"2299314392424817927","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":39,"triangles":12,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0051013","count":4}]},{"hash":"1571597770961386652","title":"DNA Replication and Cell Cycle Core","description":"The top terms cluster strongly around mitotic cell cycle, DNA replication, DNA-templated transcription, DNA repair, and re-entry into the mitotic cycle, indicating a core nuclear program for genome maintenance and cell division. Additional signals for apoptotic response and innate immunity may reflect stress- or signaling-linked facets of this core apparatus, with development-related terms representing broader context; overall, the core theme is cell-cycle control and DNA maintenance machinery.","confidence":"High","size":24,"edges":26,"triangles":6,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":24},{"id":"GO:0006260","count":24},{"id":"GO:0006351","count":22},{"id":"GO:0045087","count":22},{"id":"GO:0006281","count":22}]},{"hash":"373125877593714487","title":"ER-Golgi vesicle transport and development","description":"The top GO terms include clear ER-Golgi vesicle transport (anterograde and retrograde) as well as multiple development-related terms (brain, neuron projection, multicellular and male gonad development), plus actin nucleation and cell division hints. This suggests the proteins are centered on ER-Golgi trafficking with ancillary roles in development and cytoskeletal dynamics.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0008584","count":4}]},{"hash":"1396955625748237371","title":"Extracellular matrix remodeling and fibrinolysis","description":"The proteins cluster around proteolytic and ECM-dynamic processes: plasminogen activation, fibrinolysis, extracellular matrix disassembly, collagen catabolic process, tissue remodeling, and positive regulation of plasminogen activation. These terms point to a cohesive theme of matrix degradation and remodeling, potentially coordinating angiogenesis; the other terms (e.g., complement activation) may reflect related inflammatory context, while midbrain development appears less central. Overall, these proteins likely function in ECM proteolysis and tissue remodeling via the plasminogen/plasmin system.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031639","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0042730","count":6},{"id":"GO:0001867","count":6},{"id":"GO:0045766","count":6}]},{"hash":"834457624919344529","title":"Axon guidance and paranode localization","description":"The cluster is dominated by GO terms tied to neuronal pathfinding and paranodal/juxtaparanodal organization, including semaphorin-plexin signaling for axon guidance and neuron projection guidance (sympathetic and branchiomotor neurons, trigeminal nerve) as well as protein localization to paranode/juxtaparanode regions. These terms suggest a cohesive role in axon pathfinding and the assembly/localization of paranodal junctions, with heart development and blood coagulation appearing incidental. Thus the name reflects the core neural guidance and paranodal themes of the cluster.","confidence":"High","size":24,"edges":68,"triangles":39,"max_degree":15,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0007596","count":6},{"id":"GO:1902287","count":4},{"id":"GO:0097491","count":4},{"id":"GO:0021785","count":4}]},{"hash":"1571079199736881654","title":"Axon guidance and neural crest migration","description":"The top GO terms center on neuron projection guidance (semaphorin-plexin signaling, sympathetic neuron projection guidance, branchiomotor neuron axon guidance), axon domain organization (paranode/juxtaparanode localization), and neural crest cell migration. Together they point to a cohesive role in axon pathfinding and nerve structure formation during development, justifying this label.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060982","count":2},{"id":"GO:0002175","count":2},{"id":"GO:1902287","count":2},{"id":"GO:0071205","count":2},{"id":"GO:0097490","count":2}]},{"hash":"2163370659159616428","title":"Unknown","description":"The top GO terms are highly diverse, spanning immune T cell homeostasis, extrinsic apoptotic signaling, cardiac hypertrophy in response to stress, calcium detection and regulation, ER-to-Golgi vesicle transport, glycosylation, DNA damage checkpoints, and glucocorticoid signaling. There is no single coherent functional theme that clearly unites these proteins, and the lack of edges suggests limited direct functional clustering. Therefore, a clear, representative label cannot be confidently assigned.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":4},{"id":"GO:2001241","count":3},{"id":"GO:1903244","count":3},{"id":"GO:0005513","count":3},{"id":"GO:0006888","count":3}]},{"hash":"653767716759381972","title":"Unknown","description":"The top GO terms cover very different biology domains: axonal development (axonal fasciculation), neuronal signaling (ERK cascade regulation, GTPase activity, calcium release, prepulse inhibition), energy metabolism (electron transport chain), immune/host-pathogen interactions (defense response to bacterium, viral release from host cell), and drug response (response to amphetamine). There isn\u2019t a single coherent biological process that ties all 24 proteins together, so a unified functional label is not supported. As such, I cannot assign a concise, representative theme; hence Unknown.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":4},{"id":"GO:0022900","count":4},{"id":"GO:0042742","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0043547","count":3}]},{"hash":"1375286481391150148","title":"Neuronal development and synaptic signaling","description":"The cluster\u2019s top GO terms center on neurons and synaptic activity: excitatory postsynaptic potential, axon guidance, neuron development, hippocampus development, and regulation of short-term synaptic plasticity. Drug-response terms (morphine, cocaine) also appear, reinforcing a neural signaling theme, though a couple terms (DNA replication, kinetochore localization) may be incidental. Overall, the dominant signal points to neural development and synaptic function.","confidence":"High","size":24,"edges":7,"triangles":1,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060079","count":6},{"id":"GO:0007411","count":4},{"id":"GO:0043278","count":4},{"id":"GO:0048172","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1369949469986541083","title":"Mitochondrial Electron Transport Chain","description":"The most represented term is the electron transport chain (24 proteins), pointing to a core theme of mitochondrial energy metabolism. The other GO terms likely reflect broader or context-dependent roles linked to energy status (neural signaling, immune responses, vascular and apoptotic regulation). Overall, the dominant function is mitochondrial respiration.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":24},{"id":"GO:2000458","count":23},{"id":"GO:0014829","count":23},{"id":"GO:0097029","count":23},{"id":"GO:0060160","count":23}]},{"hash":"421426246015190725","title":"Neuroimmune nociception and thermoregulation","description":"This cluster centers on pain perception and temperature-related responses, combined with glial/immune involvement (astrocyte chemotaxis, glial-derived factors) and immune activation (LPS response, dendritic cell differentiation), suggesting a cohesive neuroimmune program governing nociception and thermoregulation.","confidence":"High","size":24,"edges":12,"triangles":0,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":23},{"id":"GO:0071502","count":23},{"id":"GO:0002024","count":23},{"id":"GO:2000458","count":22},{"id":"GO:0014829","count":22}]},{"hash":"1381061686312155347","title":"Glial-immune neural signaling","description":"The terms cluster around glial cell activity (astrocyte chemotaxis regulation; GDNF production) and neural-immune interactions (LPS response; dendritic cell differentiation; dopamine receptor signaling; GPCR internalization; prepulse inhibition), suggesting a theme of glial/neuronal signaling modulated by immune cues.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":24},{"id":"GO:0014829","count":24},{"id":"GO:0097029","count":24},{"id":"GO:0060160","count":24},{"id":"GO:0032496","count":24}]},{"hash":"382098304480664754","title":"Steroid biosynthesis and female reproductive development","description":"The cluster centers on several hormone biosynthesis terms (testosterone, prostaglandin, brassinosteroid) and reproductive tissue development (female gonad, mammary gland, uterus), with lipid modification (lipid hydroxylation) supporting hormone metabolism. Although xenobiotic catabolic terms appear, the dominant pattern links steroid hormone production with female reproductive biology, suggesting a cohesive hormone-regulation and reproductive-development module.","confidence":"Medium","size":24,"edges":7,"triangles":0,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0046232","count":11},{"id":"GO:0019383","count":8},{"id":"GO:0061370","count":8},{"id":"GO:0008585","count":8},{"id":"GO:0030879","count":8}]},{"hash":"2136192147191903609","title":"GPCR Signaling and Neuroimmune Regulation","description":"The most represented terms center on GPCR signaling and its downstream effects on neural, vascular, and immune processes (astrocyte chemotaxis regulation, vascular smooth muscle contraction, dendritic cell differentiation, LPS response, prepulse inhibition). An accompanying energy metabolism term (electron transport chain) may reflect core housekeeping functions linked to these pathways. Thus, a label focusing on GPCR-driven neuroimmune signaling best captures the cluster.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":22},{"id":"GO:0045777","count":22},{"id":"GO:0035625","count":22},{"id":"GO:0010579","count":22},{"id":"GO:2000458","count":21}]},{"hash":"1036467277942918575","title":"DNA Repair and Viral Integration","description":"The top GO terms cluster around DNA processing: DNA recombination, DNA integration, and base-excision repair, with a notable item on the establishment of integrated proviral latency, pointing to roles in genome maintenance and viral genome handling. A few unrelated terms (cell wall organization, corneocyte development, renal water transport) may reflect annotation noise rather than true cluster coherence. Overall, the core theme appears to be DNA repair/recombination and genome integration functions.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":5},{"id":"GO:0015074","count":5},{"id":"GO:0006284","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4}]},{"hash":"449502216597736330","title":"Retroviral Entry and Proviral Latency","description":"The GO terms repeatedly point to steps in retroviral life cycles: entry into the host nucleus, integration and establishment of proviral latency, reverse transcription (RNA-templated DNA synthesis), and DNA replication, plus host defense interactions (siRNA processing). This combination strongly suggests a cluster of proteins involved in retroviral entry, genome integration, and maintenance of proviral latency.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0075732","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0046718","count":4}]},{"hash":"946935005597502508","title":"Neuronal signaling and myelination","description":"The top terms focus on nervous system function and development, notably neurotransmitter secretion, myelination in the peripheral nervous system, and signaling pathways (Wnt, GPCR, JNK). While some terms touch on other processes (cardiac contraction, mitotic actin assembly), the dominant theme ties to neural communication and maturation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0016055","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0046329","count":2}]},{"hash":"529171830368495389","title":"Axon guidance and neuron projection","description":"Top terms are dominated by axon guidance and neuron projection processes (semaphorin-plexin signaling, axonal extension, sympathetic and branchiomotor neuron guidance, neural crest migration). This strongly suggests the cluster comprises proteins involved in directing axon pathfinding and neural connectivity, with one peripheral term related to complement activation not altering the overall theme.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1902287","count":6},{"id":"GO:0007413","count":6},{"id":"GO:0097490","count":6},{"id":"GO:0097491","count":6},{"id":"GO:0036486","count":6}]},{"hash":"381550041261884445","title":"Cytoskeletal organization and contractile machinery","description":"The GO terms mainly point to cytoskeletal and contractile components: centrosome cycle, spindle assembly, sarcomere organization, muscle contraction, and non-motile cilium assembly, with related signaling (Rho) and trafficking processes. While some terms touch on platelets or signaling, they all tie back to cytoskeletal dynamics and contractile function in cells.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007098","count":3},{"id":"GO:0051225","count":3},{"id":"GO:0006936","count":2},{"id":"GO:0045214","count":2},{"id":"GO:2000009","count":2}]},{"hash":"30747133322665600","title":"TLR4-TRAM innate immune signaling","description":"The cluster is best characterized by innate immune signaling centered on TLR4/TRAM pathways, with involvement in LPS response, NF-kB\u2013driven regulation, and cytokine modulation (e.g., IL-10). While a hepatocyte growth factor stimulus term appears, the strongest recurring theme is the innate immune response and TLR4-mediated signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035729","count":3},{"id":"GO:0032930","count":3},{"id":"GO:0046597","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0035669","count":3}]},{"hash":"1528040869246694115","title":"Embryonic and Organ Development","description":"The top GO terms point to development across multiple tissues and organs (gonads, embryo, retina/eye, thymus, lung, melanocytes) plus related structural and signaling processes (paranodal junction assembly, receptor signaling). This suggests a broad developmental program rather than a single pathway, justifying a label centered on embryonic/organ development.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0007166","count":3},{"id":"GO:0061298","count":3}]},{"hash":"1154158017271091218","title":"Cytoskeleton-driven transport and vertebrate development","description":"The top GO terms point to cytoskeleton dynamics (actin organization, microtubule movement) and membrane trafficking (glucose transport, dense core granule exocytosis), combined with developmental and hematopoietic themes (hemopoiesis, spinal cord and heart development, platelet activation). This suggests a cluster of proteins involved in cytoskeleton-mediated transport and secretory processes that operate within vertebrate development and blood/vascular biology.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0015758","count":4},{"id":"GO:0030036","count":4},{"id":"GO:0051262","count":4},{"id":"GO:0030097","count":4},{"id":"GO:0021510","count":4}]},{"hash":"2301109953024100630","title":"Neural differentiation and immune regulation","description":"The cluster\u2019s top GO terms include neural development signals (oligodendrocyte differentiation, cerebellar granule cell differentiation) alongside pain response, immune signaling (NOD1 pathway, IL-12 regulation), and protein regulation processes (ubiquitination, ADP-ribosylation). This suggests a theme centered on neural development with accompanying immune modulation and protein regulatory mechanisms, rather than a single narrow function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048265","count":6},{"id":"GO:0048709","count":6},{"id":"GO:0016567","count":6},{"id":"GO:0045083","count":5},{"id":"GO:0070427","count":5}]},{"hash":"259159301910699252","title":"Skeletal muscle development and sarcomere organization","description":"The dominant GO terms are muscle-focused, with skeletal muscle fiber development, skeletal muscle tissue development, and sarcomere organization highlighting a muscle-development/sarcomere assembly theme. A mix of unrelated terms (myelination, vessel morphogenesis, circadian rhythm, viral latency, ubiquitination, dephosphorylation, distal tubule morphogenesis) likely reflect broader annotations or multifunctional proteins in the cluster. Overall, the strongest shared signal is muscle development and sarcomere structure.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:0022011","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0001569","count":2},{"id":"GO:0042748","count":2}]},{"hash":"1873834560046281920","title":"Broad Development and Differentiation","description":"These proteins collectively touch on development and differentiation across diverse tissues (nerve, adipose, vasculature, germ line, radial glia). The inclusion of mitotic cycle and DNA repair terms likely reflect general cellular maintenance during development rather than a single pathway. Since there's no tight functional cluster, a broad label capturing developmental/differentiation roles is appropriate.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0050872","count":2},{"id":"GO:0060613","count":2}]},{"hash":"1455840490243816423","title":"Vascular inflammation and immune activation","description":"Enrichment includes heart development and vascular-related processes alongside inflammatory and immune responses (LPS, IL-8 production, dendritic cell differentiation) and signaling pathways (ERK cascade, GTPase regulation). The combination suggests a module where cardiovascular tissue dynamics are linked with immune signaling and vasculature remodeling, i.e., vascular inflammation and immune activation.","confidence":"Medium","size":23,"edges":19,"triangles":0,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0032496","count":4},{"id":"GO:0006954","count":4},{"id":"GO:0042493","count":4},{"id":"GO:2000484","count":4}]},{"hash":"2184580836864908009","title":"Embryonic organogenesis and neural development","description":"The GO terms point to broad developmental processes across multiple tissues (pituitary, midbrain, pancreas, lung morphogenesis, cartilage) with a neural emphasis (neuron fate commitment, glial differentiation) and a linked transcriptional regulatory component, suggesting a cluster of genes involved in general embryonic organogenesis and neural development.","confidence":"Medium","size":23,"edges":52,"triangles":28,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":8},{"id":"GO:0000122","count":7},{"id":"GO:0006366","count":7},{"id":"GO:0030901","count":7},{"id":"GO:0031018","count":7}]},{"hash":"1936559334447817481","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":6},{"id":"GO:0006749","count":4},{"id":"GO:0007369","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0060707","count":4}]},{"hash":"402641556334770678","title":"Cytoskeletal signaling in development and plasticity","description":"The top GO terms cluster around actin filament bundle assembly, GTPase regulation, and integrin signaling, tied to cell migration, polarity, and development (including heart development). The presence of long-term synaptic potentiation and memory extends this to neural plasticity. Together, this suggests a module where cytoskeletal remodeling and adhesion signaling govern development, tissue patterning, and activity-dependent remodeling in neurons.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0090162","count":2}]},{"hash":"1901208008370076543","title":"Mesoderm Development and Myogenesis","description":"The top GO terms point to mesodermal development and muscle formation, notably axial mesoderm formation and myotube differentiation, with supporting signals from Wnt pathway regulation, apoptosis, migration, and transcriptional control. This suggests a cohesive program of mesoderm specification, muscle cell differentiation, and related developmental remodeling.","confidence":"High","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016477","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0048320","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0000196","count":5}]},{"hash":"590317629856927863","title":"Cell signaling, adhesion, and vesicle regulation","description":"This cluster groups proteins enriched for signaling pathways and membrane-trafficking processes, including ephrin receptor signaling, Wnt signaling, T cell receptor signaling, and regulation of synaptic vesicle exocytosis, along with focal adhesion assembly and ubiquitination. The mix suggests roles in cell communication and adhesion dynamics, with neural development signals (hippocampus development, synaptic regulation) indicating a broader, cross-system signaling module.","confidence":"Medium","size":23,"edges":7,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":10},{"id":"GO:0048013","count":10},{"id":"GO:0010796","count":9},{"id":"GO:0021766","count":9},{"id":"GO:0050852","count":9}]},{"hash":"1354378746725697282","title":"Neural crest\u2013driven neural development and axon guidance","description":"The cluster\u2019s top terms foreground neural development (CNS and heart development) and axon guidance/pathfinding (semaphorin-plexin signaling, axonal fasciculation, sympathetic neuron projection extension/guidance), with neural crest migration contributing to heart development; ERK signaling and TNF response likely modulate these processes, supporting a cohesive neural crest\u2013driven development and axon guidance theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0071356","count":2},{"id":"GO:0010765","count":2}]},{"hash":"309407527708786836","title":"Neural development and myelination","description":"The terms point primarily to nervous system development, with evidence of axonal fasciculation, myelination, and synapse assembly; otolith morphogenesis also ties to sensory organ development, and collagen fibril organization supports the extracellular matrix framework for neural tissues. Some GO terms (RNA methylation, transcription regulation, xylan catabolism) are broader or outliers, so the label focuses on the neural development theme with myelination as a key aspect.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032474","count":4},{"id":"GO:0030199","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0070476","count":2}]},{"hash":"26990875701577840","title":"Protein modification and signaling regulation","description":"Because the cluster is enriched for post-translational modification processes (ubiquitination, poly-ADP-ribosylation, dephosphorylation) and regulatory signaling pathways (cell cycle, NOD1 signaling, GPCR-related signaling), it suggests a cohesive role in modulating protein activity and cellular signaling rather than a single, tight functional pathway. Some terms (neuronal differentiation, xenobiotic response) are more peripheral but do not outweigh the core theme of protein regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0007049","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0006470","count":3},{"id":"GO:0035690","count":3}]},{"hash":"2059514420792216094","title":"Macrophage Activation and Cell Cycle","description":"The cluster contains innate immune and macrophage activation terms (GO:0045087, GO:0042116), suggesting an immune-related module. It also features cell cycle and mitosis/translation terms (GO:0007049, GO:0051301, GO:0000278, GO:0006412), indicating concurrent proliferative processes. Other terms like bone development and stem cell maintenance point to broader developmental roles, so the strongest, most representative theme here is immune activation coupled with cell cycle activity.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090502","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0042116","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0045087","count":2}]},{"hash":"376599830782102644","title":"TORC1 signaling and translation regulation cluster","description":"The top GO terms point to nutrient-sensing growth control (TORC1 signaling) and multiple steps of protein synthesis regulation (translation reinitiation, formation of the translation preinitiation complex, and mRNA splicing), coupled with general nutrient response. Additional terms cover developmental differentiation processes (gastrulation, lens fiber cell differentiation) and pigmentation, plus immune defense. This combination suggests a coherent theme around growth signaling and gene expression control that can influence development and differentiation, with some broader roles in tissue-specific functions and defense. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007369","count":12},{"id":"GO:0038202","count":12},{"id":"GO:0002188","count":12},{"id":"GO:0001731","count":12},{"id":"GO:0030433","count":12}]},{"hash":"13828800152755770","title":"Innate Immune Activation and Phagocytosis","description":"The top GO terms point to innate immune processes: complement activation via the lectin pathway, Fc-gamma receptor signaling, phagocytosis recognition, and stimulatory lectin receptor signaling, with basophil activation also represented. While several developmental terms (kidney and cartilage development, lymph vessel morphogenesis) appear among the high-frequency terms, the central theme is immune recognition and effector signaling. This makes a cohesive label focusing on innate immune activation and phagocytosis most representative of the cluster.","confidence":"Medium","size":23,"edges":62,"triangles":148,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001867","count":12},{"id":"GO:0038094","count":11},{"id":"GO:0006910","count":11},{"id":"GO:0045575","count":11},{"id":"GO:0072237","count":11}]},{"hash":"895858915588795645","title":"Neural-vascular signaling and metabolism","description":"The GO terms point to a mix of signaling (GPCR, Rho), vascular regulation (blood pressure, smooth muscle contraction), neural-related responses (pain perception, astrocyte chemotaxis), and metabolic processes (electron transport, thermogenesis, xenobiotic response, temperature response). This suggests an integrated set of proteins coordinating neural and vascular signaling alongside metabolic and environmental cue responses, rather than a single highly specific function.","confidence":"Medium","size":23,"edges":6,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0045777","count":8},{"id":"GO:0035025","count":8},{"id":"GO:0042493","count":8}]},{"hash":"1247018678519246814","title":"Gene expression and protein turnover in development","description":"This cluster centers on translation initiation and preinitiation complex formation, and on SCF-dependent ubiquitin-proteasome\u2013mediated protein catabolism, pointing to coordinated control of protein synthesis and degradation. Additional terms touch on transcription, brain development, proliferation, and sarcomere organization, suggesting broader developmental and growth-related gene expression programs. The mixed signals (immune and muscle-related terms among others) indicate a broad, non-exclusive theme rather than a single precise function, so the label reflects a general theme of gene expression and protein homeostasis in development.","confidence":"Low","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0050830","count":3}]},{"hash":"1161066871347888969","title":"Membrane Ion and Small-Molecule Transporters","description":"The top GO terms are dominated by transmembrane transport of various ions (sodium, potassium, phosphate, nitrate/nitrite) and small molecules (galactose, fucose), suggesting a common function in transporting substrates across membranes. A few terms reference hair cell differentiation and neurotransmitter loading, but the overarching theme is membrane transport activity across multiple substrates, justifying a label of ion and small-molecule transporters.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048903","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0015706","count":2}]},{"hash":"965672160269756663","title":"Axon Guidance and Neuronal Migration","description":"This cluster is dominated by terms related to neural development, especially axon guidance and neuronal migration, with commissural neuron axon guidance, semaphorin-plexin signaling, GnRH neuronal migration to the hypothalamus, and paranode axon protein localization. Additional signals like VEGF signaling and coronary artery morphogenesis hint at concurrent vascular development that often co-occurs with neural patterning. Overall, the core theme points to neural development and guidance, with some vascular/skeletal contexts. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0060982","count":17},{"id":"GO:0042748","count":17},{"id":"GO:2000427","count":17},{"id":"GO:0021828","count":17},{"id":"GO:1904643","count":17}]},{"hash":"2236548596968060394","title":"Cytoskeletal dynamics and ECM remodeling","description":"The Top Terms show actin filament severing and bundle assembly, collagen fibril organization, and cellular responses to mechanical stimulus, pointing to cytoskeletal remodeling and ECM interaction. Additional terms involve angiogenesis regulation and synapse assembly, plus growth factor\u2013related signaling and ER-Golgi transport, suggesting coordinated cytoskeletal-ECM reorganization with mechanotransduction and signaling during tissue remodeling and immune responses.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051014","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0030199","count":3}]},{"hash":"853101189506269789","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:1903265","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0051607","count":10},{"id":"GO:0036205","count":10}]},{"hash":"1620607600356022069","title":"Glial-immune signaling and neurotrophic regulation","description":"The cluster shows strong enrichment for glial/immune-related processes (astrocyte chemotaxis, dendritic cell differentiation, glial-derived neurotrophic factor production) and responses to xenobiotic/LPS stimuli, plus modulation of dopamine signaling. Together these suggest a core theme of neural-immune cooperation and glial support functions, with some peripheral terms like vascular contraction and osmotic-stress\u2013related apoptosis contributing less to a cohesive core.","confidence":"Medium","size":23,"edges":6,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":23},{"id":"GO:2000458","count":22},{"id":"GO:0014829","count":22},{"id":"GO:0097029","count":22},{"id":"GO:0060160","count":22}]},{"hash":"1312453785873296288","title":"Neuroimmune-vascular signaling","description":"The top GO terms span neuronal signaling (GPCR pathways, dopamine receptor regulation, prepulse inhibition), glial/astrocyte chemotaxis, immune responses (LPS response, dendritic cell differentiation), and vascular processes (blood pressure regulation, smooth muscle contraction). This mix points to cross-system communication among nervous, immune, and vascular functions rather than a single pathway, so a label like neuroimmune-vascular signaling captures the cluster's integrative theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":22},{"id":"GO:0045777","count":22},{"id":"GO:0035025","count":22},{"id":"GO:0010579","count":22},{"id":"GO:2000458","count":21}]},{"hash":"2042020858594227674","title":"Calcium signaling and metabolic stress response","description":"The cluster shows GO terms centered on intracellular calcium release (GO:0051209), responses to temperature and thermogenesis (GO:0071502, GO:0002024), GPCR signaling (GO:0010579), Rho signaling (GO:0035025), energy metabolism (GO:0022900), along with ubiquitination and cell cycle processes. This points to a group of proteins involved in calcium-mediated signaling linked to metabolic and stress-responsive pathways, with supporting roles in energy production and protein turnover. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0007049","count":3}]},{"hash":"1370093529034307655","title":"Diverse Biosynthesis and Stress-Response","description":"The GO terms here span several biosynthetic processes (antibiotic, biotin, chlorophyll biosynthesis; tRNA wobble uridine modification; selenium metabolism) as well as various response processes (amines, cocaine, interleukin-1, hyperosmotic). The lack of a single unified function and absence of network edges suggest these proteins cover multiple, loosely related roles, so a broad label capturing both biosynthesis and stress responses is most appropriate.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0009102","count":5},{"id":"GO:0014075","count":5},{"id":"GO:0002098","count":5},{"id":"GO:0006972","count":5}]},{"hash":"1502817859784958332","title":"HGF/c-Met Signaling and Fibrinolysis","description":"The cluster\u2019s top GO terms center on hepatocyte growth factor receptor signaling (HGF/c-Met pathway) and proteolytic processes such as plasminogen activation and fibrinolysis, alongside blood coagulation. This suggests a shared theme where HGF signaling interfaces with extracellular remodeling and hemostasis, potentially in contexts like embryonic development or placental differentiation (trophoblast giant cells). The low connectivity indicates individual proteins may participate in related aspects of this broader axis rather than a tightly integrated module.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048012","count":8},{"id":"GO:0007596","count":8},{"id":"GO:0051919","count":8},{"id":"GO:0031639","count":8},{"id":"GO:0052182","count":7}]},{"hash":"1662781099128830433","title":"Proviral integration and latency","description":"The top GO terms strongly point to retroviral-like life cycle steps: DNA integration and RNA-templated DNA synthesis, along with establishment of integrated proviral latency and viral entry into host cells. Additional terms about host apoptosis activation by symbionts and regulation of miRNA/siRNA processing suggest host-pathogen interactions and modulation of RNA interference pathways. Taken together, the cluster is best described by proviral integration and latency, with related host interactions.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0075732","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4},{"id":"GO:0046718","count":4}]},{"hash":"917624126239356273","title":"Plant cell wall glycan biosynthesis and root hair development","description":"The top GO terms point to plant-specific processes like arabinogalactan protein metabolism, poly-N-acetyllactosamine biosynthesis, Lewis a epitope biosynthesis, and mucilage/seed coat development, all tied to cell wall glycan assembly and root hair formation; a few terms are animal-specific, but the plant-related signals dominate.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007299","count":2},{"id":"GO:0042248","count":2}]},{"hash":"1665087440699043138","title":"Neural Development: Axon Guidance and Adhesion","description":"The top GO terms cluster around cell adhesion (cell adhesion, cell-matrix adhesion, heterophilic adhesion) and neuron/axon guidance (semaphorin-plexin signaling in axon guidance, sympathetic neuron projection guidance, branchiomotor neuron axon guidance, trigeminal nerve organization). HGF receptor signaling and angiogenesis suggest involvement in tissue morphogenesis and migratory processes, consistent with neural development where adhesion and guidance cues coordinate axon pathfinding. Complement activation is less central to this theme, so the adhesion/guidance pattern dominates the interpretation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":6},{"id":"GO:0001867","count":6},{"id":"GO:0007160","count":5},{"id":"GO:0048012","count":5},{"id":"GO:0001525","count":4}]},{"hash":"1861206326291564268","title":"Neural development signaling","description":"This cluster is dominated by terms for nervous system and brain development (nervous system development, hippocampus development, brain development) and neural signaling pathways (Roundabout signaling pathway, ERK cascade), suggesting proteins function in neural development and axon guidance. The non-neural terms appear less prominent, likely representing broader developmental roles or annotation noise.","confidence":"High","size":23,"edges":188,"triangles":697,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0010796","count":8},{"id":"GO:0021766","count":8},{"id":"GO:0035385","count":8},{"id":"GO:0043552","count":8}]},{"hash":"712783572049246243","title":"Neural and skin development with cell proliferation","description":"The top GO terms indicate developmental processes in neural (brain) and epidermal (skin) tissues, coupled with cell division and proliferative regulation, suggesting a cluster of proteins involved in tissue development and growth control in neural/epithelial contexts.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0007420","count":5},{"id":"GO:0043588","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0051301","count":5}]},{"hash":"1022755808799373838","title":"Cell cycle with mitochondrial fission and autophagy","description":"This cluster centers on core cell-cycle processes (cell cycle, cell division) alongside mitochondrial dynamics (mitochondrial fission, membrane organization) and autophagy-related activities (microautophagy, phagophore site localization). The combination suggests a shared function in coordinating cell proliferation with organelle remodeling and turnover, even though a few developmental GO terms (nervous system and kidney development) appear, they may reflect broader or tissue-specific roles of these proteins. Overall, the dominant theme is cell-cycle progression linked to organelle dynamics and autophagy.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0000266","count":3},{"id":"GO:0007399","count":3}]},{"hash":"372006879531130544","title":"GTPase signaling and calcium dynamics in immunity","description":"The cluster is dominated by terms for positive regulation of GTPase activity and small GTPase\u2013mediated signaling, plus calcium import and Ca2+ release, along with immune processes such as defense against Gram-positive bacteria and phagolysosome assembly. This combination suggests a coherent theme of GTPase-driven signaling linked to calcium signaling in immune responses.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0098703","count":2},{"id":"GO:0045794","count":2}]},{"hash":"1783584222970259646","title":"Mitochondrial lipid biosynthesis and remodeling","description":"The cluster is enriched for glycerophospholipid biosynthesis and remodeling terms (phosphatidylcholine, cardiolipin, CDP-diacylglycerol, ether lipids) and for mitochondrial energy metabolism (mitochondrial ATP synthesis via electron transport), indicating a shared theme of mitochondrial membrane lipid homeostasis; a few tissue-development terms may reflect broader annotations or secondary roles.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001246","count":4},{"id":"GO:0042775","count":3},{"id":"GO:0008611","count":3},{"id":"GO:0070236","count":3},{"id":"GO:0019432","count":3}]},{"hash":"1649351880550908532","title":"Nervous system development and myelination","description":"Top terms point to neural development and connectivity (myelination, axonal fasciculation, synapse assembly) along with sensory organ morphogenesis (otolith) and extracellular matrix remodeling, suggesting a cohesive nervous-system/sensory-development cluster.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0042552","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0030199","count":3}]},{"hash":"326700544026122444","title":"Lung angiogenesis and inflammation","description":"The cluster\u2019s top GO terms cluster around endothelial/vascular development and signaling (VEGF receptor signaling, endothelial tube morphogenesis, lung development) with support from cell growth regulation and chronic inflammatory response, suggesting a module focused on lung vasculature formation and its inflammatory regulation. The molting-related term is likely noise. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0018996","count":5},{"id":"GO:0001558","count":4},{"id":"GO:0030324","count":4},{"id":"GO:0001970","count":4},{"id":"GO:0010751","count":4}]},{"hash":"1434056246569795200","title":"Diverse small-molecule catabolism","description":"The top GO terms are dominated by various substrate-specific catabolic processes (adenine, allantoin, histidine derivatives, sialic acid, glucosamine, guanine, ochratoxin A), pointing to a cluster of proteins involved in breaking down diverse small molecules. Axon guidance and cytoskeleton terms appear incidental and do not define the cluster\u2019s primary function. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006146","count":3},{"id":"GO:0009442","count":3},{"id":"GO:0019557","count":3},{"id":"GO:0019262","count":3},{"id":"GO:1900817","count":3}]},{"hash":"247262095083956754","title":"Eye and neural development","description":"This cluster is dominated by terms tied to eye/retina morphogenesis (camera-type eye development, retina development) and neural development (brain segmentation, dopaminergic neuron differentiation, hindbrain rhombomere development), with a general transcription term suggesting broad regulatory roles. The convergence on ocular and neural morphogenesis indicates a coherent developmental module rather than disparate processes.","confidence":"Medium","size":22,"edges":183,"triangles":773,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0060441","count":13},{"id":"GO:0043010","count":13},{"id":"GO:0048048","count":13},{"id":"GO:0021571","count":11}]},{"hash":"854489537155183536","title":"Mitochondrial energy metabolism and gene expression","description":"Top GO terms point to mitochondrial functions (complex I assembly, carnitine biosynthesis) and metabolism (folate, cAMP, cold stress), along with core gene expression processes (DNA-templated transcription, translation). This pattern suggests a cluster centered on mitochondrial energy metabolism with linked regulation of gene expression.","confidence":"Medium","size":22,"edges":205,"triangles":1220,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0006351","count":3},{"id":"GO:0009409","count":2},{"id":"GO:0046653","count":2},{"id":"GO:0019835","count":2}]},{"hash":"1164947103985216334","title":"Ribosome biogenesis and translation","description":"The top GO terms are largely centered on ribosome assembly and function (maturation of SSU/LSU rRNA, ribosome biogenesis, translation, large subunit biogenesis), with translation being a core process. Transcription-related terms are present but secondary to the ribosome/translation theme, suggesting the cluster mainly reflects ribosome biogenesis and protein synthesis activities.","confidence":"High","size":22,"edges":167,"triangles":748,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0000462","count":5},{"id":"GO:0009088","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0006412","count":4}]},{"hash":"313512994955183845","title":"ER Stress and Transcriptional Regulation","description":"This cluster is driven by ER-associated protein folding terms (protein folding in ER; response to unfolded protein) and ER stress signals, complemented by strong transcriptional control signals (negative regulation of transcription by RNA Pol II; DNA-templated transcription) and cell cycle cues (G1/S transition; CDK activity), with redox homeostasis supporting stress response. Tissue-specific terms like lactation and liver regeneration appear secondary to these core stress/transcription themes.","confidence":"Medium","size":22,"edges":27,"triangles":21,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0006351","count":10},{"id":"GO:0034975","count":6},{"id":"GO:0045454","count":6},{"id":"GO:0051301","count":6}]},{"hash":"2045246001815237986","title":"Embryonic development and organ morphogenesis","description":"This cluster shows enrichment across diverse developmental and morphogenetic processes (trophoblast differentiation, left/right patterning, cartilage morphogenesis, pancreatic and forebrain development, endocardial EMT, endocrine system development). The presence of ubiquitin-dependent proteolysis points to regulatory control during development. Together, these terms suggest proteins involved in embryogenesis and organogenesis rather than a single tissue-specific function.","confidence":"High","size":22,"edges":11,"triangles":0,"max_degree":10,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0060707","count":7},{"id":"GO:0042787","count":7},{"id":"GO:0003323","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0060536","count":6}]},{"hash":"588541671632187747","title":"Neural development and axon guidance","description":"The top GO terms cluster around neural development, including synapse assembly, commissural axon guidance, corpus callosum development, and fasciculation of axons, indicating a shared role in brain wiring and neural morphogenesis; other developmental terms are present but the strongest signal is neural patterning and axon navigation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0060021","count":3},{"id":"GO:0071679","count":3},{"id":"GO:0048546","count":3},{"id":"GO:0045880","count":3}]},{"hash":"1900798165206502505","title":"Actin Cytoskeleton Remodeling and Regulation","description":"This cluster is centered on actin cytoskeleton dynamics and regulation: actin filament bundle assembly, depolymerization, Arp2/3-mediated nucleation, and positive regulation of GTPase activity, with additional ties to mitotic spindle assembly and lens fiber differentiation. The common theme is coordinated actin remodeling and cytoskeletal organization that drives cell shape changes, division, and context-specific differentiation.","confidence":"High","size":22,"edges":6,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007568","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0051017","count":6},{"id":"GO:0010745","count":6},{"id":"GO:0070306","count":5}]},{"hash":"1925862505031616429","title":"Mitotic spindle assembly and microtubule dynamics","description":"This cluster is dominated by GO terms related to mitosis and microtubule machinery: centrosome separation, spindle assembly, chromosome alignment, spindle elongation, plus-end directed microtubule sliding, and regulation of microtubule-based processes. While a few terms touch on unrelated processes, the overwhelming theme is the mitotic spindle and microtubule dynamics, justifying this label.","confidence":"High","size":22,"edges":57,"triangles":62,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007100","count":16},{"id":"GO:0021693","count":13},{"id":"GO:0007080","count":13},{"id":"GO:0090307","count":13},{"id":"GO:0031535","count":12}]},{"hash":"448639891774918192","title":"Cardiac Development and Function","description":"The top GO terms point to heart-specific development (trabecula formation, ventricular morphogenesis) and regulation of heart rate, complemented by angiogenesis and ion transport/regulation (RYR calcium-channel activity and potassium transport). This suggests the proteins form a cohort involved in cardiac development and the electrical/vascular functions essential to heart physiology.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060347","count":2},{"id":"GO:0055010","count":2},{"id":"GO:0060315","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0001525","count":2}]},{"hash":"1422689732069019978","title":"Spliceosome-driven mRNA processing and translation initiation","description":"The top terms center on spliceosome-mediated and alternative mRNA splicing, along with assembly and regulation of translation initiation (including preinitiation complexes and IRES-dependent translation), indicating a shared theme of RNA processing and control of protein synthesis initiation.","confidence":"High","size":22,"edges":25,"triangles":35,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0001825","count":5}]},{"hash":"183221779373547902","title":"Retrotransposon Activity and Proviral Latency","description":"The dominant terms describe transposable elements and proviral life cycles\u2014DNA transposition, retrotransposition, establishment of integrated proviral latency, and viral entry into host cells\u2014along with transcription and replication regulation tied to these elements. This justifies labeling the cluster as transposon/proviral activity.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0071333","count":3},{"id":"GO:0010332","count":3},{"id":"GO:0006351","count":3},{"id":"GO:1903026","count":3}]},{"hash":"1969677964175338464","title":"Neuroimmune and glial signaling","description":"The terms cluster around astrocyte chemotaxis, glial-derived factors (GDNF production), and glial/immune interactions (LPS response, dendritic cell differentiation), alongside neuronal signaling modulation (dopamine receptor signaling, prepulse inhibition) and GPCR internalization. This pattern points to a cohesive theme of neuroimmune communication and glial regulation of neuronal signaling, rather than a purely metabolic or structural function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":20},{"id":"GO:0014829","count":20},{"id":"GO:0097029","count":20},{"id":"GO:0060160","count":20},{"id":"GO:0032496","count":20}]},{"hash":"948710907802471988","title":"Neuroimmune GPCR signaling","description":"These proteins cluster around neural and glial signaling with immune involvement, including regulation of astrocyte chemotaxis, dopamine receptor signaling, GPCR internalization, and response to lipopolysaccharide, plus glial-derived neurotrophic factor production. Dendritic cell differentiation and prepulse inhibition further support a neuroimmune signaling theme. Some terms are broader (reproductive process, osmotic stress\u2013related pathways), but the dominant signal is neuroimmune communication and GPCR trafficking, so this label is representative. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":22},{"id":"GO:0014829","count":22},{"id":"GO:0097029","count":22},{"id":"GO:0060160","count":22},{"id":"GO:0032496","count":22}]},{"hash":"1064049023165914412","title":"Ubiquitination-Driven TNF/NF-\u03baB Innate Immunity","description":"The cluster is enriched for ubiquitin-related processes (ubiquitin-dependent degradation, autoubiquitination, K6- and K63-linked ubiquitination) and signaling events leading to NF-\u03baB activation and TNF-mediated pathways, alongside innate immune responses and histone ubiquitination, suggesting a cohesive role in regulating inflammatory signaling via ubiquitin remodeling.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:1903265","count":13},{"id":"GO:0036205","count":13},{"id":"GO:0051865","count":13},{"id":"GO:0085020","count":12}]},{"hash":"1101239533884536802","title":"Viral entry and proviral latency","description":"The top GO terms point to infection-related processes: viral penetration into the host nucleus, establishment of integrated proviral latency, and DNA integration, along with symbiont entry into host cells and symbiont-mediated host apoptosis. There are also regulatory themes like negative regulation of miRNA processing and modulation of signaling (angiogenesis, insulin receptor signaling). A few terms reflect tissue development (heart, skeletal muscle), which may reflect broader or pleiotropic roles, but the strongest coherent theme is viral/symbiont entry and genome integration, suggesting a virus-host interaction cluster. However, the spread to developmental processes and signaling reduces coherence, so confidence is Low.","confidence":"Low","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:1903799","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0046627","count":3},{"id":"GO:0075732","count":3}]},{"hash":"2080288193895415000","title":"Neural Development and Cytoskeletal Remodeling","description":"The cluster centers on developmental processes, notably neural development (neuron projection development) and Hedgehog pathway signaling (smoothened signaling), plus tissue patterning cues (cartilage condensation) and regulation of cell adhesion molecule production. Additionally, septin ring assembly/disassembly and cytoskeletal dynamics point to structural remodeling during development, with some growth-related processes (ribosomal export, cell cycle) supporting proliferation. The presence of an immune term (complement activation) appears ancillary, so the core theme is developmental biology intertwined with cytoskeletal and adhesion remodeling.","confidence":"Medium","size":22,"edges":21,"triangles":6,"max_degree":6,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0031175","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0001502","count":4},{"id":"GO:0051873","count":4},{"id":"GO:0060355","count":4}]},{"hash":"1768822750949948127","title":"Cardiovascular development and coagulation","description":"The cluster shows strong signals for plasminogen activation, blood coagulation, and positive regulation of fibrinolysis, alongside cardiac and vascular morphogenesis terms (right ventricle formation, coronary vessel and dorsal aorta development), and NO biosynthesis regulation, suggesting a cohesive theme of cardiovascular development and hemostasis.","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031639","count":22},{"id":"GO:0007596","count":22},{"id":"GO:0051919","count":22},{"id":"GO:0045429","count":21},{"id":"GO:0003219","count":20}]},{"hash":"634759863795078650","title":"DNA transposition and proviral integration","description":"The cluster is dominated by GO terms about DNA mobility and proviral integration: DNA integration, retrotransposition, DNA transposition, and the establishment of integrated proviral latency, plus viral entry into host cells. This points to a cohesive theme around mobile genetic elements (transposons/retrotransposons) and proviral processes. The remaining terms (actin depolymerization, mitotic spindle assembly, brain development) appear less central and may reflect broader cellular roles or incidental annotations. Overall, the transposition/proviral-integration theme best explains the enrichment pattern.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":5},{"id":"GO:0075732","count":4},{"id":"GO:0032197","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0006313","count":4}]},{"hash":"801112535834651102","title":"Diverse membrane transporters","description":"This cluster is dominated by transmembrane transport GO terms covering a variety of substrates (ions like Na+, K+, phosphate; sugars such as galactose; nitrates/nitrites; organic acids; and even neurotransmitter loading into synaptic vesicles), indicating a group of transporter proteins with broad substrate specificity rather than a single pathway. The common theme is membrane transport activity across diverse substrates, making this label representative.","confidence":"High","size":21,"edges":55,"triangles":6,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0015707","count":2}]},{"hash":"264933251314319376","title":"Embryonic organ development and morphogenesis","description":"The top terms are dominated by embryonic development and organ morphogenesis across several tissues (eye, pituitary, pancreas, brain, cranial skeleton, lung, and facial structures). While there is no single pathway, the cluster collectively points to broad developmental processes guiding tissue formation in vertebrates, rather than a specialized metabolic function.","confidence":"Medium","size":21,"edges":36,"triangles":2,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":13},{"id":"GO:0003309","count":10},{"id":"GO:0007275","count":10},{"id":"GO:0060021","count":10},{"id":"GO:0030901","count":10}]},{"hash":"1221585502261083019","title":"Embryonic tissue development and neural differentiation","description":"This cluster is dominated by terms about developmental processes across various tissues, especially neural lineage specification (subpallium neuron fate, spinal cord motor neuron and oligodendrocyte fate, GABAergic interneuron differentiation) while also including organ development terms (bronchiole, pancreas, placenta). The recurring theme is embryonic development with an emphasis on cell fate specification and neural differentiation, pointing to a cohesive function in guiding differentiation programs during development.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0060163","count":9},{"id":"GO:0021530","count":9},{"id":"GO:0060435","count":9},{"id":"GO:0021520","count":9}]},{"hash":"1149117663226997542","title":"Transcriptional Regulators for Immune and Neural Signaling","description":"The top GO terms point to transcriptional regulation (DNA-templated transcription, negative regulation of transcription by RNA Pol II, positive regulation of DNA binding) alongside immune-related (B-1a B cell differentiation, BCR signaling) and neural-related (substantia nigra development, regulation of GABAergic synaptic transmission) functions. This suggests a set of proteins that broadly regulate transcription and signaling in both immune and neural contexts, rather than a single, tightly defined pathway.","confidence":"Medium","size":21,"edges":13,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0002337","count":2}]},{"hash":"1765332020370868219","title":"Intramembranous bone formation and ECM remodeling","description":"The cluster is enriched for collagen catabolic process, extracellular matrix disassembly, and intramembranous ossification, along with fibrinolysis and blood vessel maturation. These terms point to active remodeling of the extracellular matrix during bone formation, particularly membranous ossification, with accompanying vascular changes. Some developmental terms appear, but the dominant theme is bone-related ECM remodeling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030574","count":4},{"id":"GO:0007596","count":3},{"id":"GO:0001957","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0071230","count":3}]},{"hash":"1442254755481771126","title":"Oxidative stress defense and inflammatory signaling","description":"The top terms cluster around redox biology (oxidation-reduction, redox homeostasis, detoxification, peroxide response, superoxide removal) and inflammatory processes (lipopolysaccharide response, prostaglandin biosynthesis) with PI3K/AKT signaling involvement, suggesting a program coordinating antioxidant defenses with inflammatory signaling.","confidence":"High","size":21,"edges":109,"triangles":291,"max_degree":17,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0045454","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0070301","count":4},{"id":"GO:0051897","count":4}]},{"hash":"345994089336058474","title":"RNA Pol II Transcription Regulation","description":"The top GO terms are dominated by DNA-templated transcription by RNA polymerase II, including transcription initiation site selection, transcription elongation, and RNA Pol II CTD regulation, pointing to a core function in transcription control. Additional terms about positive regulation of catalytic activity and ubiquitin-dependent protein turnover suggest coupling between transcription machinery and protein homeostasis. Some terms are obsolete or less directly linked (e.g., lens differentiation, phagolysosome assembly), which may reflect legacy annotations or broad roles. Overall, the cluster appears centered on RNA Pol II transcription regulation with ancillary links to protein turnover.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043085","count":2},{"id":"GO:0070940","count":2},{"id":"GO:0006368","count":2},{"id":"GO:0001174","count":2}]},{"hash":"2105626252217378468","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around embryonic development and tissue morphogenesis, including Hedgehog/smoothened signaling, face and cranial skeleton morphogenesis, axis specification, and fin morphogenesis. Although some nematode-specific terms appear, the overarching theme is embryonic patterning and organismal morphogenesis, justifying this label.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007224","count":2},{"id":"GO:0060325","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0006508","count":2}]},{"hash":"107035683123452671","title":"Germline stem cell proliferation","description":"The cluster shows strong representation of female germ-line stem cell population maintenance and cell population proliferation, with mitotic spindle assembly indicating cell division. Translation-related terms (preinitiation, reinitiation, and ribosomal export) suggest active protein synthesis accompanying proliferative/germline activity, supporting a cohesive theme of germline progenitor maintenance with robust protein synthesis.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036099","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0030433","count":2}]},{"hash":"616551578364949272","title":"Adaptive immune cell differentiation and cytokine signaling","description":"The top terms cluster around adaptive immune development (NK T cell differentiation, B cell differentiation and maturation, IL-4 production, IL-7 response) and related cell migration, suggesting a theme of immune cell development and cytokine signaling. Some terms about growth factor signaling (insulin receptor, PDGF) or heart development may reflect broader signaling pathways or annotation noise, but the prominent pattern is immune cell differentiation and cytokine responses. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001865","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0032633","count":3},{"id":"GO:0002344","count":3},{"id":"GO:0008286","count":3}]},{"hash":"1690613968793505497","title":"Sensory signaling and ion transport","description":"This cluster shows GO terms centered on sensory perception (pain, touch) and signaling via cAMP/cGMP, along with ion transport (Na+, K+) and membrane hyperpolarization. The overlap suggests proteins involved in sensory transduction and modulation of membrane excitability, with some broader roles in development. Therefore the label reflects a core theme of sensory signaling linked to ion transport, with moderate confidence.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0019233","count":5},{"id":"GO:0071320","count":4},{"id":"GO:0071805","count":4},{"id":"GO:0010754","count":4}]},{"hash":"536719012514056041","title":"Antiviral Innate Immune Response","description":"This cluster is dominated by GO terms related to innate immunity and antiviral defense, including innate immune response, dsRNA sensing, LPS signaling, and IFN-\u03b2 production, culminating in defense against viruses. While some terms (DNA replication, synapse assembly) are less directly related, the overall pattern points to an antiviral innate immune signaling module.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0043330","count":4},{"id":"GO:0031663","count":4},{"id":"GO:0045359","count":4},{"id":"GO:0051607","count":4}]},{"hash":"1948283057903641159","title":"Mitochondrial protein import and inner membrane biogenesis","description":"The top GO terms cluster around mitochondrial import into the matrix, insertion into the inner membrane, inner membrane organization, and mitochondrial translation/biogenesis of respiratory chain complexes, pointing to proteins involved in mitochondrial protein import, membrane biogenesis, and assembly/maintenance of the mitochondrial respiratory machinery.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":4},{"id":"GO:0032979","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0000733","count":2},{"id":"GO:0006260","count":2}]},{"hash":"636498960516667666","title":"Prostaglandin-driven inflammatory and vascular signaling","description":"This cluster is dominated by GO terms for prostaglandin biosynthesis and the cyclooxygenase pathway, along with downstream effects such as cellular response to LPS and relaxation of cardiac muscle, indicating prostanoid-mediated inflammatory and vascular signaling. Additional terms related to estradiol response, smooth muscle regulation, starvation, and nitrogen utilization suggest broader metabolic and hormonal regulation intersecting with prostaglandin pathways. The strongest, most representative theme is lipid mediator signaling via prostaglandins.","confidence":"Medium","size":21,"edges":51,"triangles":121,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0001516","count":8},{"id":"GO:0098869","count":8},{"id":"GO:0007608","count":7},{"id":"GO:0071222","count":7},{"id":"GO:0019371","count":6}]},{"hash":"1076948417969261082","title":"Fungal recognition via lectin and Fc receptor signaling","description":"This cluster is enriched for innate immune terms related to fungal recognition and response, including complement activation via the lectin pathway, cellular response to fungal origin, C-type lectin receptor signaling, Fc-gamma receptor signaling, phagocytosis, and basophil activation. The dominant pattern points to a coordinated antifungal immune response driven by lectin-mediated detection and Fc receptor\u2013dependent signaling leading to phagocytosis and leukocyte activation; a few unrelated developmental terms appear but do not redefine the main theme.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001867","count":16},{"id":"GO:0071226","count":13},{"id":"GO:0010572","count":13},{"id":"GO:0038094","count":12},{"id":"GO:0006910","count":12}]},{"hash":"842714092033518448","title":"Neuroimmune-Vascular Signaling","description":"This cluster centers on integrated signaling across neural, vascular, and immune contexts, highlighted by GPCR-related and dopamine signaling, vascular tone regulation (blood pressure, smooth muscle contraction), astrocyte chemotaxis, and immune responses (LPS, dendritic cell differentiation). The presence of energy-related terms like electron transport chain underpins the energy demands of these coordinated processes, supporting a cohesive neuroimmune-vascular signaling theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":21},{"id":"GO:0045777","count":21},{"id":"GO:0035025","count":21},{"id":"GO:0010579","count":21},{"id":"GO:2000458","count":20}]},{"hash":"461512763522376190","title":"Embryonic Development and Patterning","description":"Top GO terms suggest a core theme of embryonic development and tissue morphogenesis (trophoblast giant cell differentiation, left-right pattern formation, cartilage morphogenesis, metanephric kidney development, placenta-related differentiation). Some terms (mRNA splicing, triglyceride homeostasis) appear peripheral or noisy. Overall, the cluster appears to group proteins involved in embryonic differentiation and patterning, with modest support from other cellular processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":3},{"id":"GO:0090331","count":2},{"id":"GO:0072218","count":2},{"id":"GO:0070328","count":2},{"id":"GO:0009405","count":2}]},{"hash":"607097315709733895","title":"Glial-neuroimmune signaling and GPCR trafficking","description":"Top terms indicate astrocyte chemotaxis regulation, glial-derived neurotrophic factor production, dopamine signaling modulation, LPS response, dendritic cell differentiation, and GPCR internalization, suggesting a unifying theme of brain glial\u2013neural-immune communication and receptor trafficking, with some broader terms present.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":20},{"id":"GO:0014829","count":20},{"id":"GO:0097029","count":20},{"id":"GO:0060160","count":20},{"id":"GO:0032496","count":20}]},{"hash":"1509099292332256227","title":"Retroviral DNA Integration and Latency","description":"The highest-frequency GO terms center on DNA recombination and DNA integration, with a key item being the establishment of integrated proviral latency, which strongly suggests retroviral genome integration and maintenance in latency. Supporting terms point to viral infection steps and cell cycle involvement, while a few unrelated terms appear as noise. Overall, the cluster is best described by retroviral integration and latency.","confidence":"High","size":21,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0075713","count":3},{"id":"GO:0005978","count":2},{"id":"GO:0009405","count":2}]},{"hash":"2173492783981130161","title":"Proviral integration and retrotransposition","description":"The top GO terms cluster around genome insertion processes: DNA integration, proviral latency, retrotransposition, and RNA-templated DNA synthesis, which together point to viral/retroelement genome integration and activity as the core function of this protein cluster; related terms about host-symbiont interactions and metabolism appear ancillary to this main theme. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0075732","count":5},{"id":"GO:0075713","count":5},{"id":"GO:0039651","count":5},{"id":"GO:0046718","count":5},{"id":"GO:0015074","count":5}]},{"hash":"913798104308443395","title":"Craniofacial and lateral line morphogenesis","description":"These proteins cluster around developmental processes in vertebrate embryogenesis, notably rhombomere 5 development, pharyngeal system development, and posterior lateral line neuromast primordium migration, suggesting a shared function in craniofacial and sensory organ morphogenesis. Supporting GO terms like protein transport and regulation of GTPase activity point to the cellular machinery (trafficking and cytoskeletal dynamics) needed for coordinated cell movement and patterning during these processes.","confidence":"High","size":21,"edges":171,"triangles":752,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0021571","count":2}]},{"hash":"1613091902813012854","title":"Insect sensory organ development and transcription regulation","description":"This cluster centers on insect development programs, with GO terms for antennal and compound eye/photoreceptor development and transcriptional regulation (DNA-templated transcription and its regulation), plus hormonal control via ecdysone biosynthesis, pointing to a cohesive theme of sensory organ formation governed by transcriptional and endocrine signals. Some terms (e.g., DNA transposition, antiviral defense, cell cycle) are more peripheral, but do not outweigh the main developmental/transcriptional theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007469","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0045316","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0006355","count":1}]},{"hash":"1570770809887459921","title":"Unknown","description":"The top GO terms span highly diverse biological processes\u2014from immune isotype switching and neuronal apoptosis regulation to sterol biosynthesis, viral processes, DNA repair, transcription by RNA Pol III, and fungal sporulation\u2014without a clear shared pathway or function. Edges are absent, suggesting little evidence of a cohesive functional cluster, so a meaningful single-label theme isn\u2019t apparent.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045830","count":2},{"id":"GO:0042149","count":2},{"id":"GO:0016126","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0070911","count":2}]},{"hash":"66334311004358614","title":"Immune signaling and cytoskeleton regulation","description":"The GO terms point to broad signaling roles (innate immune response, defense against Gram-positive bacteria, dsRNA response, T cell receptor signaling, insulin and growth hormone receptor signaling, LPS signaling) together with cytoskeletal dynamics (actin cytoskeleton organization, small GTPase\u2013mediated signaling, neural migration-associated extension). This suggests a cluster of proteins that participate in signal transduction that drives cytoskeletal remodeling in immune and developmental contexts. While diverse, the common thread is signaling integrated with cytoskeletal regulation rather than a single, narrow pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046626","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0043330","count":3},{"id":"GO:0050852","count":3}]},{"hash":"1892001858911058031","title":"Iron transport and endocytosis in immune cells","description":"The cluster shows enrichment for transferrin transport, iron import, and receptor-mediated endocytosis, plus regulation of B and T cell proliferation, pointing to iron homeostasis intertwined with immune signaling; other terms reflect broader protein turnover but are less central.","confidence":"Medium","size":21,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035609","count":3},{"id":"GO:0017186","count":3},{"id":"GO:0045830","count":3},{"id":"GO:0033572","count":3},{"id":"GO:0030890","count":3}]},{"hash":"13280377476250359","title":"Neuronal signaling and synapse development","description":"This cluster is dominated by GO terms tied to neural development and synaptic function: synapse assembly, cerebellar granule cell differentiation, Wnt signaling, and intracellular signal transduction, plus ion transport relevant to neuronal excitability (sodium and potassium channels) and a neuroactive drug response (cocaine). The combination suggests a coherent theme around neuronal signaling pathways and synaptic development/growth. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0035725","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0070212","count":2}]},{"hash":"86309931866720555","title":"Neural Development and Signaling with Immune Links","description":"This cluster is enriched for neural differentiation terms (oligodendrocyte differentiation, cerebellar granule cell differentiation) and neural-associated signaling (pain response, SA node action potential regulation). Immune-related terms (NOD1 signaling, IL-12 regulation) and other processes (pinocytosis, PARP) are present but less dominant, suggesting a primary theme of neural development and signaling with secondary immune-related roles.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048549","count":7},{"id":"GO:0098907","count":7},{"id":"GO:0048709","count":7},{"id":"GO:0007205","count":7},{"id":"GO:0045083","count":6}]},{"hash":"2285880371921940395","title":"Unknown","description":"The top terms are highly diverse, spanning yeast growth (pseudohyphal and invasive growth), neural development (axon guidance, neuronal migration), vascular/skeletal development (VEGF signaling, coronary morphogenesis, endochondral bone growth), circadian rhythm, and even a curcumin response. This lack of a coherent, single biological theme across the cluster suggests there isn\u2019t a clear common function to label, so Unknown is most appropriate.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007124","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0060982","count":1},{"id":"GO:0042748","count":1},{"id":"GO:2000427","count":1}]},{"hash":"1687617503924516660","title":"Neuronal Synaptic Signaling and Excitability","description":"The top GO terms center on neuronal communication and membrane potential dynamics: membrane depolarization, action potential, postsynaptic membrane organization, and acetylcholine receptor signaling indicate synaptic activity and excitability. Additional terms for dopaminergic synaptic transmission, chloride transport regulation, and circadian sleep/wake cycle regulation reinforce ion-channel\u2013driven signaling and neural timing. The inclusion of amyloid fibril formation regulation hints at links to neurodegenerative processes. Overall, the cluster reflects neuronal signaling, synaptic modulation, and excitability.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043524","count":15},{"id":"GO:0051899","count":14},{"id":"GO:0032226","count":14},{"id":"GO:1905906","count":14},{"id":"GO:0001941","count":14}]},{"hash":"1474417366761400869","title":"Cardiovascular development and endothelial differentiation","description":"These terms point to heart and vascular biology, with notable enrichment for cardiac morphogenesis (cardiac right atrium morphogenesis), venous endothelial differentiation, and signaling pathways (Wnt, Notch) that drive cardiovascular development, along with mechanotransduction and vitamin D response involved in heart/vascular tissue regulation. This makes the label a representative, focused summary of the cluster\u2019s function.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0016055","count":5},{"id":"GO:0048549","count":5},{"id":"GO:0003213","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0071260","count":5}]},{"hash":"1876725012355319796","title":"Vascular development and vessel morphogenesis","description":"The top GO terms cluster around cardiovascular development and vessel formation\u2014coronary artery morphogenesis, dorsal aorta morphogenesis, ventricular trabecula myocardium morphogenesis, smooth muscle cell migration, endothelial chemotaxis regulation, and cell adhesion\u2014with some supporting coagulation processes. This cohesive pattern points to vascular and heart morphogenesis as the core function of the cluster, despite one outlier term (axon guidance) that does not alter the primary theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0014909","count":6},{"id":"GO:0007596","count":5},{"id":"GO:0060982","count":5},{"id":"GO:2001027","count":4},{"id":"GO:0003222","count":4}]},{"hash":"1435497523748468670","title":"Cell migration and polarity signaling","description":"Dominant terms relate to cell movement and mechanical response, epithelial polarity, and membrane trafficking/regulation (Wnt signaling, SNARE regulation, pinocytosis) as well as ubiquitination, suggesting a network coordinating motility and cell shape through signaling and vesicle dynamics. Although nuclear processes like telomere maintenance appear, the core theme is signaling/trafficking that governs movement and polarity.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0016567","count":4},{"id":"GO:2001275","count":3},{"id":"GO:0016055","count":3}]},{"hash":"1359174076055575172","title":"Neuronal ion transport and synaptic signaling","description":"The cluster centers on ion transmembrane transport (K+ and Na+), Ca2+ influx, and neurotransmission pathways (GABA signaling, excitatory postsynaptic potential), along with neuron-driven behaviors (locomotion, startle, aversion) and circadian regulation. This points to proteins involved in neuronal excitability, synaptic transmission, and rhythm-based behaviors, justifying a label emphasizing neuronal ion transport and signaling.","confidence":"High","size":20,"edges":41,"triangles":38,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":15},{"id":"GO:0035725","count":14},{"id":"GO:0007626","count":14},{"id":"GO:0001661","count":13},{"id":"GO:0060079","count":13}]},{"hash":"851324673875221050","title":"Yeast pseudohyphal growth under nutrient limitation","description":"The presence of GO terms for pseudohyphal growth and invasive growth in response to glucose limitation strongly points to a fungal morphogenesis program activated by nutrient stress, i.e., a yeast filamentous growth response. Other terms reflect general transcription and replication processes common to many conditions, with a few outlier signals (hormone response, isotype switching) that may be annotation noise. Overall, the cluster is best captured by a filamentous growth theme in yeast under nutrient limitation.","confidence":"High","size":20,"edges":13,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0034351","count":3},{"id":"GO:0071372","count":3},{"id":"GO:0045190","count":2}]},{"hash":"64617060024533115","title":"Developmental Transcription Regulation","description":"This cluster centers on DNA-templated transcription and RNA polymerase II\u2013mediated control, with frequent negative regulation of transcription, and includes tissue-development terms like endocrine pancreas development, skeletal muscle differentiation, osteoblast differentiation, neuron fate commitment, and circadian regulation of gene expression. The shared theme is transcriptional regulation guiding diverse developmental differentiation.","confidence":"High","size":20,"edges":174,"triangles":896,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0031018","count":9},{"id":"GO:0000122","count":8},{"id":"GO:0035914","count":8},{"id":"GO:0006366","count":8}]},{"hash":"1812992440212839149","title":"DNA recombination and xenobiotic stress response","description":"The set is strongly enriched for DNA recombination (GO:0006310, 12 proteins). Additional nucleic acid metabolism terms (RNA phosphodiester bond hydrolysis, endonucleolytic; DNA demethylation) and stress-related terms (response to xenobiotic stimulus, cellular response to hydrogen peroxide) suggest a theme around DNA processing coupled to stress signaling. A skin-related term (corneocyte development) is an outlier, but overall the cluster appears to group proteins involved in nucleic acid processing and cellular stress responses rather than a single, coherent pathway. Therefore the label focuses on the dominant DNA recombination activity with a nod to associated stress responses.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":12},{"id":"GO:0090502","count":6},{"id":"GO:0003335","count":6},{"id":"GO:2001153","count":6},{"id":"GO:0080111","count":6}]},{"hash":"1671352461998092365","title":"Translational Initiation Regulation and Chromatin Remodeling","description":"The cluster shows strong representation of GO terms related to regulation of translational initiation and formation of the translation preinitiation complex, plus chromatin remodeling and histone acetylation, suggesting a group of proteins involved in controlling gene expression at both translational and chromatin levels. While there are ancillary terms in signaling and development, the core theme points to modulation of the protein synthesis initiation process and chromatin state.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006349","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0043044","count":2}]},{"hash":"1306756744802711754","title":"Neurotransmitter Uptake and Synaptic Regulation","description":"The top GO terms cluster around transporter and uptake roles for several neurotransmitters (serotonin, dopamine, glycine, taurine, proline) and the regulation of synaptic transmission, including glycinergic signaling. The inclusion of thalamus development supports a brain- and neural-function context, making a single, cohesive label that emphasizes neurotransmitter transport and synaptic modulation appropriate. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0021794","count":7},{"id":"GO:0015734","count":6},{"id":"GO:1905847","count":5},{"id":"GO:0051610","count":5},{"id":"GO:0014064","count":5}]},{"hash":"1336319948711784562","title":"Nuclear transcription and cell cycle regulation","description":"The top terms cluster around nuclear processes: DNA-templated transcription, regulation of DNA binding, and nuclear transport, plus mitotic cell cycle. This points to proteins involved in regulating gene expression and cell division within the nucleus. Some terms related to stress response or ER protein folding appear, but the dominant signal is nuclear transcription regulation and cell-cycle control.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042267","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0046826","count":3},{"id":"GO:0070301","count":3},{"id":"GO:0018401","count":3}]},{"hash":"304162925117276337","title":"Epigenetic Chromatin Regulation","description":"Top GO terms cluster around epigenetic control, including DNA methylation of cytosines in CG context, histone lysine methylation, heterochromatin formation, and gene silencing via RNA-directed DNA methylation, with some entries noting regulation of gene expression through chromatin state. A few terms are obsolete, which lowers confidence somewhat, but the common theme across the terms points to chromatin modification and epigenetic regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080188","count":1},{"id":"GO:0010424","count":1},{"id":"GO:0010216","count":1},{"id":"GO:0034968","count":1},{"id":"GO:0090308","count":1}]},{"hash":"1424773827841327537","title":"RNA Splicing and Translation Regulation","description":"This cluster is dominated by GO terms for spliceosome-mediated mRNA splicing (including alternative splicing), mRNA processing and stability, and also translation initiation/reinitiation processes (preinitiation complex formation, translation reinitiation). The combination points to proteins involved in RNA processing coupled with regulation of translation. Therefore, the label \"RNA Splicing and Translation Regulation\" best captures the shared theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":9},{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0048026","count":8},{"id":"GO:0006378","count":7}]},{"hash":"879579029575554140","title":"Developmental adhesion and neural patterning","description":"The cluster centers on processes tied to cell adhesion and extracellular matrix\u2013related development (cell adhesion, glomerular basement membrane development, cartilage condensation, and regulation of adhesion molecule production), along with neural development features (transmission of nerve impulse, cerebral cortex regionalization). While there are a couple of outlier terms (ribosome biogenesis and complement activation) that are less connected to the core theme, the dominant signal points to coordinated development involving cell\u2013cell/ECM adhesion and neural patterning.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":4},{"id":"GO:0045162","count":3},{"id":"GO:0032836","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0001502","count":3}]},{"hash":"226606271628053333","title":"Cardiac morphogenesis and Notch signaling","description":"Proteins in this cluster are enriched for heart development terms: ventricular trabecula morphogenesis, endocardial cushion development, pulmonary artery and valve morphogenesis, and compartment pattern specification. The prominence of positive regulation of Notch signaling, together with stem cell differentiation regulation, points to a shared role in developmental signaling guiding cardiac tissue formation. This combination suggests a coherent theme around cardiac morphogenesis moderated by Notch signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000737","count":16},{"id":"GO:0003222","count":16},{"id":"GO:0061444","count":16},{"id":"GO:0045747","count":16},{"id":"GO:0042491","count":16}]},{"hash":"1859842617857011426","title":"Transmembrane ion and sugar transporters","description":"The terms cluster around transmembrane transport of ions (sodium, potassium, nitrate, nitrite, phosphate) and sugars (galactose), suggesting a group of membrane transporter proteins. While there are a couple of signaling/structural terms (integrin signaling, Rho regulation, microtubule anchoring), the dominant pattern is transport activity across membranes, making this a coherent transporter-focused cluster.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":3},{"id":"GO:0007229","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0034453","count":2},{"id":"GO:0015757","count":2}]},{"hash":"1956324181284973582","title":"Signaling and Post-Translational Modification Proteins","description":"Top GO terms indicate diverse signaling roles (heart rhythm regulation, GPCR signaling, innate immune NOD1 signaling, nociception, neural differentiation) alongside post-translational modification processes (ubiquitination, PARylation) and protein oligomerization. This suggests a broad set of signaling-related proteins modulated by PTMs rather than a single cohesive pathway, justifying a label that emphasizes signaling with post-translational modification mechanisms.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0098907","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0045083","count":4}]},{"hash":"2204419255417945166","title":"Neuroimmune glial signaling","description":"The top GO terms center on neural-glial interactions and immune signaling in the CNS (astrocyte chemotaxis regulation, glial-derived neurotrophic factor production, dopamine receptor signaling modulation, LPS response, prepulse inhibition) with a common thread of GPCR internalization, suggesting receptor trafficking in neuroimmune contexts. Some terms are broader (reproductive process, osmotic stress response), but the dominating theme appears to be neuroimmune/glial communication and neuronal signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":20},{"id":"GO:0014829","count":20},{"id":"GO:0097029","count":20},{"id":"GO:0060160","count":20},{"id":"GO:0032496","count":20}]},{"hash":"1359886338294714974","title":"Neuroimmune Regulation of Pain and Temperature  ","description":"The GO terms cluster around pain perception and temperature response, along with immune signals (LPS response, dendritic cell differentiation) and glial\u2013neural interactions (astrocyte chemotaxis, GDNF production, dopamine signaling), suggesting a unified theme of neuroimmune regulation of sensory processing and thermogenesis.  ","confidence":"High","size":20,"edges":58,"triangles":30,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":18},{"id":"GO:0071502","count":18},{"id":"GO:0002024","count":18},{"id":"GO:2000458","count":16},{"id":"GO:0014829","count":16}]},{"hash":"26606941857661027","title":"Steroid, retinoid, and lipid biosynthesis","description":"This cluster centers on biosynthetic and metabolic processes for steroids (testosterone, glucocorticoids, androgens), retinoids (retinol and retinal), and various lipids (sphingolipids, phylloquinone, BH4). The common thread is small-molecule biosynthesis and lipid-related metabolism, with an outlier term for antibiotic biosynthesis that doesn\u2019t change the overall theme.","confidence":"High","size":20,"edges":25,"triangles":9,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":10},{"id":"GO:0006704","count":9},{"id":"GO:0045150","count":9},{"id":"GO:0061370","count":9},{"id":"GO:0042572","count":9}]},{"hash":"1225949762466622852","title":"Pain and Temperature Neural-Immune Signaling","description":"The top GO terms point to sensory pain perception and temperature/thermogenesis, suggesting a nociception-thermoregulation theme, with additional signs of neuroimmune and glial involvement (astrocyte chemotaxis, LPS response, dendritic cell differentiation, neurotrophic factor regulation) and dopaminergic signaling modulation. This supports a cohesive module where pain/temperature sensing is linked with neuroimmune/glial processes.","confidence":"Medium","size":20,"edges":6,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":20},{"id":"GO:0071502","count":20},{"id":"GO:0002024","count":20},{"id":"GO:2000458","count":19},{"id":"GO:0014829","count":19}]},{"hash":"771353757585530058","title":"Neural signaling and sensory perception","description":"The cluster is dominated by GO terms related to neural signaling and sensory processing, such as pain perception, dopaminergic synaptic transmission, visual perception/learning, and behavioral response to cocaine, with ERK cascade regulation reinforcing signaling context. A few terms about thermogenesis, heart development, and macrophage chemotaxis are less aligned, but the overall theme points to neural signaling and sensory processing.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":19},{"id":"GO:0001963","count":18},{"id":"GO:0010759","count":18},{"id":"GO:0071502","count":18},{"id":"GO:0002024","count":18}]},{"hash":"569449329402762854","title":"Spliceosome-mediated mRNA processing","description":"The cluster is dominated by GO terms tied to mRNA splicing and processing (cis and alternative splicing via the spliceosome, small-subunit processome assembly), along with mRNA modification and regulation of mRNA stability under stress. This points to a cohesive function in RNA maturation and spliceosome-driven regulation of gene expression, with auxiliary signals of mRNA processing and translation-related processes. ","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":16},{"id":"GO:0045292","count":16},{"id":"GO:1901407","count":16},{"id":"GO:0010610","count":16},{"id":"GO:0001825","count":15}]},{"hash":"1519763506406034996","title":"Neural pain and thermoregulation with neuroimmune signaling","description":"The terms point to neural sensing of pain and temperature, thermogenesis, and neuromodulation, complemented by neuroimmune and glial processes (astrocyte/DCS signaling, LPS response, neurotrophic factor production, and dopamine signaling), suggesting a cluster of neural sensory regulation intertwined with immune/glial interactions.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0002024","count":12},{"id":"GO:2000458","count":10},{"id":"GO:0014829","count":10}]},{"hash":"1695489620369484119","title":"Presynaptic vesicle exocytosis and cytoskeleton regulation","description":"This cluster centers on presynaptic neurotransmitter release and cytoskeletal remodeling, highlighted by terms for neurotransmitter secretion, presynaptic dense core vesicle exocytosis, and Rho/GTPase\u2013driven actin dynamics, with supporting signals from Wnt pathways and cerebellar neuron development. The combination suggests coordinated control of synapse formation and maintenance through vesicle trafficking and cytoskeletal changes.","confidence":"High","size":20,"edges":5,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0043087","count":5},{"id":"GO:0007269","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0016055","count":4}]},{"hash":"1219613540276891699","title":"Pain and temperature sensation signaling","description":"These proteins appear linked to neural sensory signaling, with strong enrichment for pain perception and its regulation, as well as detection of mechanical stimuli. Temperature-related terms (cellular response to temperature stimulus, diet-induced thermogenesis) further point to thermosensory processing. The inclusion of prepulse inhibition and negative regulation of glutamatergic transmission suggests modulation of sensory signaling in neural circuits. Overall, the cluster seems best described by a theme of pain and thermosensory signaling in neurons.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0002024","count":7},{"id":"GO:0060134","count":5},{"id":"GO:0001975","count":5}]},{"hash":"547155846121032481","title":"Ribosome biogenesis and rRNA processing","description":"The top GO terms are focused on ribosome biogenesis and rRNA maturation (LSU/SSU, ITS1 processing, and tricistronic transcript processing), indicating the proteins mainly participate in ribosome assembly and RNA processing. Some adjacent terms (spliceosome-mediated splicing, microtubule severing) appear incidental and do not strongly alter the central theme. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0050830","count":2}]},{"hash":"688889617326115988","title":"Inflammation and angiogenesis in development","description":"This cluster is dominated by GO terms linking immune/inflammatory responses (response to lipopolysaccharide, inflammatory response, lectin pathway complement activation) with vascular remodeling (negative regulation of endothelial proliferation involved in sprouting angiogenesis, cell-matrix adhesion, cell-cell adhesion) and broader developmental processes (multicellular organism development, ossification). The combination suggests inflammatory signaling guiding developmental vascular changes, with broader skeletal development signals also present. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":15},{"id":"GO:0032496","count":12},{"id":"GO:0006954","count":12},{"id":"GO:0071260","count":12},{"id":"GO:1903588","count":12}]},{"hash":"1344707698549410754","title":"Cardiac and skeletal muscle development with calcium signaling","description":"Top GO terms emphasize cardiac calcium signaling (Ca2+ release, atrial action potential, heart contraction) and skeletal muscle development (muscle fiber formation, ossification), with calcium sensing and caffeine response. This points to a cluster centered on muscle development and calcium-mediated contraction across cardiac and skeletal tissues, with some broader development terms as secondary signals.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098910","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0010881","count":3},{"id":"GO:0043588","count":3}]},{"hash":"2025471839771977714","title":"Neural development and synaptic regulation","description":"The top GO terms cluster around central nervous system development, retina layer formation, lung epithelial differentiation, and regulation of synaptic vesicle endocytosis, which together point to neuronal and sensory tissue development with synaptic function. While there are other terms related to xenobiotic and hormone responses, they appear secondary to the dominant neural/sensory theme. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":3},{"id":"GO:0006935","count":3},{"id":"GO:0060487","count":2},{"id":"GO:0010842","count":2},{"id":"GO:1900242","count":2}]},{"hash":"1733940219683239757","title":"Tissue morphogenesis and organogenesis","description":"The GO terms center on developmental processes and tissue remodeling, including nervous system development, organ induction, branching morphogenesis of glands, myoblast differentiation, and extracellular matrix disassembly. Additional terms on signaling regulation, ion transport, and intracellular transport likely support morphogenetic signaling and remodeling. Overall, they point to a cohesive theme of tissue morphogenesis and organ development.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016126","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0060665","count":2},{"id":"GO:0022617","count":2},{"id":"GO:0045445","count":2}]},{"hash":"2003166496788713923","title":"Placental and Cardiac Development","description":"This cluster centers on placental morphogenesis and embryonic development, with multiple terms for placental branching morphogenesis, angiogenesis, and cardiac muscle proliferation/sarcomere organization, suggesting a shared theme of placental and cardiovascular organ development. Immune complement activation and drug-response terms appear less cohesive with this main theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":3},{"id":"GO:0001701","count":2},{"id":"GO:0001970","count":2},{"id":"GO:0060672","count":2},{"id":"GO:0006957","count":2}]},{"hash":"737775693106535643","title":"DNA Repair and Meiotic Recombination","description":"Proteins in this cluster are enriched for DNA repair and recombination processes (DSB repair via synthesis-dependent strand annealing, interstrand cross-link repair, reciprocal meiotic recombination, DNA strand displacement) with additional hints of transcription regulation and telomere-associated recombination (t-circle formation), suggesting a coherent role in DNA damage response and meiotic recombination.","confidence":"High","size":19,"edges":44,"triangles":49,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0045003","count":3},{"id":"GO:0051106","count":3},{"id":"GO:0001932","count":3}]},{"hash":"1522341637274817261","title":"Spliceosome-driven mRNA processing and translation regulation","description":"The cluster shows strong representation of spliceosome- and splicing-related GO terms (regulation/alternative splicing, small-subunit processome assembly, mRNA modification, stabilization) together with terms about translational initiation regulation (including IRES-dependent initiation). This points to a cohesive theme of mRNA maturation and control of translation, centered on spliceosome-associated processes, with minor involvement from development-related context (blastocyst formation). ","confidence":"High","size":19,"edges":44,"triangles":41,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0001825","count":3},{"id":"GO:0016556","count":3},{"id":"GO:0075522","count":3}]},{"hash":"2126232671017908456","title":"Amino Acid and Cofactor Biosynthesis","description":"This cluster is dominated by GO terms for biosynthetic pathways, including amino acid synthesis (lysine, ornithine, arginine, beta-alanine) and cofactors (biotin, protoporphyrinogen IX). There are also related catabolic processes (GABA) and a signal for antibiotic biosynthesis, suggesting a cohesive theme of biosynthesis and related metabolism across diverse small-molecule pathways. Confidence is moderate because the mix includes both biosynthetic and catabolic/secondary metabolism terms, but overall the thread points to biosynthesis-focused functions.","confidence":"Medium","size":19,"edges":125,"triangles":414,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":11},{"id":"GO:0019878","count":7},{"id":"GO:0006782","count":5},{"id":"GO:0009102","count":5},{"id":"GO:0045329","count":4}]},{"hash":"2267814032906199822","title":"Unknown","description":"The top GO terms cover mitosis/DNA replication, neuronal development and synapse organization, transcription regulation, proteolysis, and immune defense. There isn't a single dominant function tying these proteins together, so the cluster appears to be a mixed set without a cohesive theme.","confidence":"","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0050808","count":2},{"id":"GO:0007413","count":2}]},{"hash":"1036351354170144593","title":"Embryonic organogenesis and neural crest development","description":"The top GO terms cover development processes across multiple tissues (retina, brain segmentation, neural crest migration, rhombomere development, endocrine pancreas, osteoblasts, ureteric bud branching) plus transcriptional regulation, suggesting a broad embryonic organogenesis program with neural crest\u2013related patterning. This label capture is representative of the cluster\u2019s diverse developmental themes.","confidence":"Medium","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0060041","count":9},{"id":"GO:0002087","count":9},{"id":"GO:0002076","count":9},{"id":"GO:0000122","count":7}]},{"hash":"732134129092988312","title":"Mitotic cell cycle and DNA replication cluster","description":"The top GO terms are dominated by mitotic cell cycle, DNA replication, and regulation of cyclin-dependent kinase activity, pointing to a core function in cell division and genome maintenance. Additional terms reference nuclear protein transport and kinetochore localization, consistent with mitosis. Some brain-related terms appear but likely reflect broader developmental or neuronal functions annotated to these proteins; overall, the central theme is cell cycle machinery and genome replication.","confidence":"High","size":19,"edges":28,"triangles":15,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":11},{"id":"GO:0000278","count":11},{"id":"GO:2001275","count":10},{"id":"GO:0045736","count":10},{"id":"GO:0046827","count":10}]},{"hash":"1768239025819658600","title":"Ocular morphogenesis and retinal development","description":"The top GO terms are dominated by eye-related processes (retina development, camera-type eye development, embryonic eye morphogenesis) with supporting neural differentiation (neuroblast differentiation) and broad transcriptional activity (transcription by RNA polymerase II), suggesting a cluster centered on eye/retinal development and associated neural differentiation.","confidence":"High","size":19,"edges":139,"triangles":539,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0002087","count":9},{"id":"GO:0002076","count":9},{"id":"GO:0060041","count":9},{"id":"GO:0060441","count":7}]},{"hash":"1477308464139490007","title":"ECM remodeling and innate immune response","description":"The top GO terms cluster around extracellular matrix processing and proteolysis (collagen catabolic process, tissue remodeling, plasminogen activation, fibrinolysis) and innate immune signaling (complement activation, defense response to Gram-positive bacteria, response to lipopolysaccharide) along with angiogenesis. This points to a cohesive theme of tissue remodeling coupled with immune activation, despite a couple of less directly related terms (midbrain development, negative regulation of transcription) that may reflect broader regulatory roles. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0001867","count":8},{"id":"GO:0048771","count":7},{"id":"GO:0030574","count":7}]},{"hash":"492551333726413954","title":"DNA Replication and Repair with Cell Cycle Regulation","description":"Most prominent GO terms in this cluster relate to DNA recombination, base-excision repair, and DNA replication, with a notable enrichment for positive regulation of the G1/S transition. This points to a core theme of genome maintenance and cell cycle control, with xenobiotic response as a secondary stress-associated signal. A few terms are obsolete or tissue-specific, but they do not override the central genome maintenance function.","confidence":"High","size":19,"edges":112,"triangles":292,"max_degree":17,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":12},{"id":"GO:0042493","count":10},{"id":"GO:0007568","count":10},{"id":"GO:0006284","count":10},{"id":"GO:0006260","count":9}]},{"hash":"552347854707890477","title":"Mitochondrial dynamics and cardiolipin regulation","description":"The cluster is best described by mitochondrial-focused functions: stress-induced mitochondrial fusion, positive regulation of mitochondrial membrane potential, and cardiolipin metabolism/morphogenesis, which together point to mitochondrial dynamics and lipid regulation as the core theme. Some listed terms (excretion, lipid localization, TLR3 signaling, cadherin adhesion) are ancillary and less central to the main function.","confidence":"High","size":19,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007588","count":3},{"id":"GO:1900210","count":2},{"id":"GO:1990046","count":2},{"id":"GO:0010918","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1057652932855184723","title":"Virus entry and genome integration with host RNAi response","description":"This cluster converges on processes of DNA replication, recombination, and integration linked to viral/symbiont entry and latency, plus host RNA interference regulation and xenobiotic response, suggesting a module of virus-host genome interaction and host defense.","confidence":"Medium","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":10},{"id":"GO:0006260","count":8},{"id":"GO:0042493","count":7},{"id":"GO:1903704","count":6},{"id":"GO:0046718","count":6}]},{"hash":"877592006987689295","title":"Plant Development and Metabolic Regulation","description":"The top GO terms indicate plant-specific developmental processes (leaf formation, trichome patterning, ethylene response) along with metabolic pathways (chlorophyll biosynthesis, lignin biosynthesis, and cytoplasmic signaling effects like wortmannin response). This suggests a cluster of proteins involved in plant growth and modulation of metabolism rather than a single unified pathway, hence a label that encompasses both development and metabolism.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010338","count":1},{"id":"GO:0000350","count":1},{"id":"GO:0072362","count":1},{"id":"GO:0010380","count":1},{"id":"GO:1901430","count":1}]},{"hash":"855001700999551054","title":"Cerebellar development and signaling pathways","description":"The top terms strongly point to cerebellar-specific development, with cerebellar cortex formation and Bergmann glial differentiation indicating a cerebellum-focused program, plus axon regeneration and various growth-factor signaling (insulin receptor, HGF) that modulate neural development. While there are general cell-cycle regulators (kinetochore localization, CDK activity) present, they likely reflect broader proliferative control during neural maturation. Overall, the cluster centers on cerebellar development intertwined with signaling networks.","confidence":"Medium","size":19,"edges":160,"triangles":837,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021697","count":18},{"id":"GO:2001275","count":18},{"id":"GO:0008286","count":18},{"id":"GO:0034501","count":18},{"id":"GO:0008285","count":18}]},{"hash":"442879087241417217","title":"Spliceosome-Mediated mRNA Splicing and Processing","description":"These proteins are enriched for GO terms centered on mRNA splicing via the spliceosome, including alternative splicing and small-subunit processome assembly, plus related mRNA modification and regulation of splicing. The strong signal for spliceosome-related processes suggests a coherent role in RNA processing and splicing, with other terms likely incidental. Confidence reflects the clear, dominant theme around RNA splicing.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0006098","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0019310","count":2},{"id":"GO:0001825","count":1}]},{"hash":"2149039583379594135","title":"Innate immune signaling and phagocytosis","description":"Reasoning: The most represented GO terms point to innate immunity, including stimulatory C-type lectin receptor signaling, phagocytosis recognition, and cellular response to fungal origin. There is also a signal of inflammatory regulation via arachidonate secretion. While some terms relate to organ development (metanephric kidney/tubule and cartilage condensation), these may reflect context-dependent roles of shared signaling or co-expressed genes; the dominant theme across the cluster is innate immune signaling and phagocytic activity.","confidence":"Medium","size":19,"edges":15,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":4},{"id":"GO:0072237","count":4},{"id":"GO:0002223","count":4},{"id":"GO:0001502","count":4},{"id":"GO:0060355","count":4}]},{"hash":"1966392677420756429","title":"Neuronal sensory signaling and GPCR regulation","description":"The cluster heavily features GO terms tied to neural signaling and sensory processes, including sensory perception of pain, cellular response to temperature stimulus, diet-induced thermogenesis, dopaminergic synaptic transmission, and regulation of opsin-mediated signaling. The presence of GPCR internalization and membrane potential regulation further supports a theme of neuronal signaling and receptor trafficking. While some terms like saliva secretion and heart development appear, they may reflect broader regulatory roles rather than core cluster function. Overall, the data point to a cohesive theme of neural sensory signaling and GPCR dynamics.","confidence":"Medium","size":19,"edges":122,"triangles":375,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0071502","count":15},{"id":"GO:0002024","count":15},{"id":"GO:0046541","count":13},{"id":"GO:0042391","count":12}]},{"hash":"1976142272362073557","title":"Unknown","description":"The top GO terms include sensory perception (touch and pain), development (bone maturation, skin, multicellular development), ion transport (calcium and manganese), cardiac/muscle activity, and protein oligomerization, which do not point to a single coherent function or pathway. This scattered mix makes it hard to assign a concise, representative label beyond Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050976","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0043931","count":7},{"id":"GO:0098914","count":7},{"id":"GO:0098703","count":7}]},{"hash":"1604557524004230446","title":"Mitochondrial Translation and Electron Transport","description":"The top GO terms are dominated by translation and mitochondrial-specific processes, including protein import into the mitochondrial matrix and mitochondrial electron transport (cytochrome c to oxygen and ubiquinol to cytochrome c), plus proton transmembrane transport. This points to a functional cluster centered on mitochondrial protein synthesis and respiration, with a few outlier terms likely representing annotation noise or broader connections. ","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0055114","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1740191514020912849","title":"Cysteine Metabolism and Redox Regulation","description":"The cluster's top GO terms include redox homeostasis, transsulfuration, cysteine-related modifications, and selenocysteine tRNA modification, pointing to a shared emphasis on cysteine chemistry and redox control, with Urmylation as a related post-translational modification pathway. While some terms touch development or cell cycle, the recurring redox/cysteine-oriented processes best unify the proteins.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":4},{"id":"GO:0018192","count":3},{"id":"GO:0032447","count":3},{"id":"GO:0070329","count":3},{"id":"GO:0006071","count":3}]},{"hash":"842544514013630807","title":"Embryonic Development and Skeletal Tissue Formation","description":"This cluster centers on developmental and morphogenetic processes: embryo implantation, trophoblast differentiation, vascular maturation, cartilage and bone development, and cadherin-mediated cell adhesion. The presence of proteolysis and extracellular matrix-related terms, plus growth regulation, supports a theme of tissue remodeling during development, especially in embryonic and skeletal contexts. Some terms (e.g., nematode cuticle) are cross-species annotations but do not override the overarching developmental and skeletal formation signal.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007566","count":4},{"id":"GO:0060707","count":4},{"id":"GO:0001955","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0018996","count":3}]},{"hash":"1772875751654236263","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":13},{"id":"GO:0031047","count":13},{"id":"GO:0000464","count":10},{"id":"GO:0071042","count":9},{"id":"GO:0071035","count":9}]},{"hash":"2149594892850291387","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":40,"triangles":13,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0010253","count":1},{"id":"GO:0080110","count":1},{"id":"GO:0009243","count":1},{"id":"GO:0033481","count":1}]},{"hash":"1840181661006540630","title":"Dermal and adipose tissue development","description":"The dominant GO terms cluster around skin-related biology: brown fat cell differentiation and hair follicle maturation point to adipose and hair follicle development, while cellular response to UV aligns with skin exposure responses. A couple of terms related to nucleic acid processes or viral replication appear incidental. Overall, a skin/adipose development theme best fits the majority of terms.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050873","count":2},{"id":"GO:0034644","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0048820","count":2}]},{"hash":"1896069525038542740","title":"Ras/Rho GTPase Signaling and Development","description":"This cluster\u2019s top terms strongly point to small GTPase\u2013mediated signal transduction (Ras and Rho pathways) with related regulatory roles, alongside developmental processes such as heart and spinal cord development and synaptic plasticity. While there are immune differentiation terms, the GTPase signaling theme appears central, making the label a concise, representative summary of the cluster\u2019s functional signals.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0021510","count":2},{"id":"GO:0006646","count":2}]},{"hash":"151808501091663634","title":"Mitochondrial apoptosis and stress response","description":"The top GO terms converge on mitochondria-driven regulation of apoptosis (cytochrome c release, mitochondrial fragmentation, and inhibition of execution) and cellular stress responses (hypoxia and ROS metabolism), suggesting a cohesive axis of mitochondrial stress signaling governing cell survival; a few terms about development or proliferation are present but appear ancillary to the dominant mitochondrial apoptotic/stress theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":3},{"id":"GO:0008584","count":3},{"id":"GO:1901382","count":3},{"id":"GO:0090200","count":3},{"id":"GO:0071456","count":3}]},{"hash":"667475137826794047","title":"Neuroinflammation and Glial Signaling","description":"The top GO terms cluster around glial and neural signaling (astrocyte chemotaxis regulation, glial-derived neurotrophic factor production, dopamine receptor signaling modulation, GPCR internalization) and inflammatory responses (response to lipopolysaccharide), plus sensorimotor gating (prepulse inhibition). While some terms are more immune-focused (dendritic cell differentiation) or general (apoptotic signaling), the prevailing theme ties glial-neuronal communication with immune activation, suggesting a neuroimmune/glial regulatory cluster. ","confidence":"Medium","size":19,"edges":139,"triangles":531,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":17},{"id":"GO:0014829","count":17},{"id":"GO:0097029","count":17},{"id":"GO:0060160","count":17},{"id":"GO:0032496","count":17}]},{"hash":"2083269522013550566","title":"Craniofacial and neural development","description":"The top terms cluster around development of facial/craniofacial structures (roof of the mouth/palate, chondrocyte development, biomineral tissue development) and neural tissues (midbrain development, retinal ganglion cell axon guidance, trigeminal ganglion development). Plasminogen activation points to extracellular remodeling during development. A secondary term on blood coagulation is present but does not define the primary theme. Overall, the proteins appear to participate in coordinated craniofacial and neural tissue formation with associated matrix remodeling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030194","count":6},{"id":"GO:0031290","count":5},{"id":"GO:0031214","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0000122","count":4}]},{"hash":"989166680821762010","title":"Dopamine GPCR Signaling and Sensory Response","description":"The cluster is dominated by GO terms tied to dopamine receptor\u2013mediated GPCR signaling (adenylate cyclase\u2013activating and PLC-activating pathways, GTPase regulation) and downstream effects like cAMP signaling. In addition, there is a strong emphasis on sensory processes (pain perception, phototransduction, temperature response) and metabolic/thermogenic context (diet-induced thermogenesis), suggesting a cohesive theme of GPCR-driven signaling coordinating sensory and metabolic responses, with heart development likely reflecting broader GPCR roles in tissue signaling.","confidence":"Medium","size":19,"edges":159,"triangles":781,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0010513","count":13},{"id":"GO:0071502","count":13},{"id":"GO:0002024","count":13}]},{"hash":"1473863282857600194","title":"Glial\u2013neuronal signaling and retina development","description":"This cluster centers on glial function and neural signaling (astrocyte chemotaxis, glial-derived neurotrophic factors, modulation of dopamine signaling) with a prominent retina development term, and includes immune-related and neuro-immune interactions (LPS response, dendritic cell differentiation, prepulse inhibition). Together, these terms point to a cohesive theme of glial-influenced neural communication and retinal development, rather than a single isolated pathway.","confidence":"Medium","size":19,"edges":7,"triangles":1,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":16},{"id":"GO:0060041","count":16},{"id":"GO:0043547","count":16},{"id":"GO:2000458","count":15},{"id":"GO:0014829","count":15}]},{"hash":"1653761710119249398","title":"Steroid Hormone Biosynthesis","description":"The top GO terms are dominated by steroid-related processes\u2014androgen metabolism, testosterone biosynthesis, C21-steroid hormone metabolism, and glucocorticoid biosynthesis\u2014indicating the proteins primarily cluster around steroid hormone production and metabolism. While additional terms (retinal metabolism, lung development) are present, they are less representative of the dominant theme. Thus, the label Steroid Hormone Biosynthesis best captures the core function of this cluster.","confidence":"High","size":19,"edges":13,"triangles":7,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":11},{"id":"GO:0008209","count":10},{"id":"GO:0006704","count":9},{"id":"GO:0045150","count":9},{"id":"GO:0061370","count":9}]},{"hash":"1998895207612597657","title":"Neural-vascular development and signaling","description":"This cluster centers on developmental processes involving the nervous system and vasculature (angiogenesis, heart development, nervous system development) and the signaling pathways that coordinate tissue morphogenesis (ERK cascade, Rho signaling, cell adhesion, dendritic spine regulation). Immune terms appear but are less central, suggesting the core theme is coordinated neural and vascular development and associated signaling. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010765","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0002250","count":2}]},{"hash":"1522112887715217782","title":"Neural development and synaptic plasticity","description":"The cluster is enriched for neuronal development and synaptic function: brain development, learning, regulation of synaptic vesicle exocytosis, dendritic spine morphogenesis, and synapse structural plasticity. Some terms (kidney development, mitotic cell cycle, and mating projection growth) may reflect broader developmental or cellular roles, but the dominant pattern centers on neural development and synaptic regulation.","confidence":"Medium","size":19,"edges":43,"triangles":21,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001822","count":15},{"id":"GO:0010796","count":14},{"id":"GO:0031384","count":14},{"id":"GO:0007420","count":14},{"id":"GO:2000300","count":14}]},{"hash":"421018870822397484","title":"Developmental ECM and organogenesis","description":"The GO terms cluster around broad developmental processes across multiple organs (heart, bone, limb, kidney, chorionic trophoblast) with a strong emphasis on extracellular matrix organization and remodeling. Negative regulation of TGF-beta signaling links morphogenesis to ECM dynamics, while vascular maturation and cross-linking-related terms further support an ECM/organogenesis theme. A neuronal term is present but does not dominate the cluster, so the main signal is development coupled with ECM remodeling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0001955","count":2},{"id":"GO:0019800","count":2}]},{"hash":"1137331653173107260","title":"Sensory Perception and Thermogenesis","description":"Most prevalent GO terms describe sensory modalities (pain perception and visual perception) and temperature-related responses (cellular response to temperature stimulus and diet-induced thermogenesis), suggesting the proteins in this cluster participate in sensory and thermogenic signaling. Additional terms related to heart development, cell proliferation, calcium release, and immune responses indicate broader signaling roles, but the dominant themes are sensory and thermogenic processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":9},{"id":"GO:0071502","count":8},{"id":"GO:0002024","count":8},{"id":"GO:0007507","count":6},{"id":"GO:0008284","count":6}]},{"hash":"632273612033061247","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006531","count":2},{"id":"GO:0014850","count":2},{"id":"GO:0042594","count":2},{"id":"GO:0044208","count":2},{"id":"GO:0016310","count":2}]},{"hash":"1650101661737604034","title":"Blood coagulation and fibrinolysis regulation","description":"The cluster is dominated by GO terms for blood coagulation, plasminogen activation, and regulation of fibrinolysis (both positive and negative). Additional terms cover cell adhesion, nitric oxide biosynthesis, and cortisol response, which fit with vascular/inflammatory contexts often linked to coagulation. Overall, the strongest signal is the coagulation/fibrinolysis axis, making this a cohesive theme for the cluster.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007596","count":12},{"id":"GO:0051919","count":11},{"id":"GO:0031639","count":11},{"id":"GO:0007155","count":9},{"id":"GO:0045429","count":9}]},{"hash":"398927754715406849","title":"Systemic Metabolism and Signaling","description":"The top GO terms include energy metabolism (electron transport chain, diet-induced thermogenesis), broad signaling (GPCR-adenylate cyclase), immune and coagulation, and cardiovascular/neural processes (blood pressure, pain, astrocyte chemotaxis). This mix suggests a broad, systemic regulatory role rather than a single pathway, justifying a label that emphasizes metabolism coupled with diverse signaling.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":9},{"id":"GO:0046849","count":9},{"id":"GO:0045777","count":9},{"id":"GO:0010579","count":9},{"id":"GO:0006955","count":9}]},{"hash":"368561958152465781","title":"COPI-coated ER-Golgi vesicle transport","description":"The top GO terms cluster around ER-to-Golgi transport and COPI-coated vesicles (including COPI vesicle budding and protein retention in the ER lumen) and Wnt secretion, pointing to a cohesive role in the secretory pathway and vesicle trafficking. Some developmental terms are present, but the dominant signal is COPI- and ER-Golgi\u2013mediated transport. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0048205","count":3},{"id":"GO:1902003","count":3},{"id":"GO:0032525","count":3},{"id":"GO:0007311","count":3}]},{"hash":"1624537644659190915","title":"Embryonic morphogenesis and differentiation signaling","description":"This cluster aggregates GO terms centered on embryonic development and tissue morphogenesis (digits/forelimb/heart) and differentiation (chondrocyte, fat cell), complemented by signaling activities (GTPase regulation, intracellular signal transduction). While some terms are more general (mitotic cell cycle, translation initiation), the prominent pattern is developmental morphogenesis and associated signaling pathways, suggesting these proteins function in embryonic differentiation and tissue patterning.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042733","count":2},{"id":"GO:0032330","count":2},{"id":"GO:0035115","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000278","count":2}]},{"hash":"2302792947321738202","title":"Unknown","description":"The top GO terms are highly diverse, including sensory perception, development, drug response, yeast growth forms, DNA repair, cell cycle regulation, apoptosis, immune signaling, and respiratory processes. With no clear unifying pathway or function and no edges connecting the proteins, there isn\u2019t a cohesive theme to label; thus Unknown is most appropriate.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":2},{"id":"GO:0060324","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0006281","count":2}]},{"hash":"1370937444830104355","title":"Ubiquitin-Proteasome Degradation","description":"The top GO terms are dominated by ubiquitin-related proteolysis: ubiquitin-dependent protein catabolic process, protein polyubiquitination, SCF-dependent degradation, K63-linked ubiquitination, autoubiquitination, and ERAD. While circadian rhythm regulation and TNF signaling appear, the central theme is proteostasis via ubiquitin tagging and proteasomal degradation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0000209","count":9},{"id":"GO:0042752","count":8},{"id":"GO:1903265","count":8},{"id":"GO:0070534","count":8}]},{"hash":"1316540540140314454","title":"Innate Immune Signaling and Apoptosis Regulation","description":"The top GO terms are dominated by innate immune response, defense against virus, and TNF-mediated signaling, with related regulation of JNK cascade and I-kappaB phosphorylation, all pointing to immune signaling and control of apoptosis. Although there is a V(D)J recombination term and an outlier dosage compensation term, the overall theme centers on immune response pathways and apoptosis regulation, supporting a cohesive label focused on innate immunity and cell death control.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0051607","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0009048","count":7},{"id":"GO:0042981","count":7}]},{"hash":"1522584282428509435","title":"Unknown","description":"The top GO terms span adipogenesis (fat cell differentiation), metabolic signaling (insulin-responsive glucose import), cell migration, telomere maintenance, intracellular signaling, mechanical response (muscle stretch), cell cycle regulation (CDK activity), mRNA processing, and protein ubiquitination. There is no clear, single function or pathway that unifies these terms, so a cohesive, specific label for the cluster cannot be determined.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":10},{"id":"GO:2001275","count":9},{"id":"GO:0016477","count":9},{"id":"GO:0032212","count":9},{"id":"GO:1904355","count":9}]},{"hash":"801273949841571174","title":"Axon guidance and neuronal signaling","description":"The terms coalesce around neurons and axon biology\u2014Roundabout/ROBO signaling for axon guidance, paranode localization and sodium channel clustering, ERK pathway regulation, and Hedgehog (Smoothened) signaling\u2014indicating a cluster centered on neuronal development and axonal signaling. Some terms (angiogenesis, T cell receptor signaling) are broader, but do not override the dominant neural theme.","confidence":"Medium","size":19,"edges":75,"triangles":62,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035385","count":7},{"id":"GO:0043552","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0002175","count":7}]},{"hash":"1440783153201658678","title":"Immunological signaling and membrane transport","description":"This cluster shows strong immune-related terms (immunological synapse formation, complement activation), suggesting participation in immune signaling. It also includes several membrane transport terms (L-arginine/L-lysine import, D-alanine transmembrane transport, polyamine transport), indicating a link to nutrient/metabolite transport that can support immune cell function; a few terms appear unrelated (behavioral annotations), but the dominant pattern points to immune signaling coupled with transport.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001771","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0071625","count":2},{"id":"GO:0007614","count":2},{"id":"GO:0098713","count":2}]},{"hash":"816393776315180080","title":"Glycogen and starch biosynthesis and metabolism","description":"Several top GO terms point to carbohydrate storage metabolism: glycogen metabolic process, amylopectin biosynthetic process, starch biosynthetic process, and regulation/positive regulation of glycogen synthase activity. This suggests the cluster centers on enzymes involved in glycogen and starch biosynthesis and their regulation. A few terms (multicellular development, hematopoietic stem cell homeostasis, ribosome biogenesis, cytokinesis-related regulation) are less representative. Overall, the dominant theme is glycogen and starch biosynthesis and metabolism.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0045725","count":2},{"id":"GO:0019252","count":2},{"id":"GO:0005977","count":2},{"id":"GO:2000467","count":2}]},{"hash":"532344344279417558","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0045429","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1488604360736580431","title":"Unknown","description":"The terms span development and signaling (molting cycle, mitotic cell cycle, Wnt signaling, angiogenesis, VEGF pathway), immunity (defense response to Gram-positive bacteria, complement activation), and metabolism/growth regulation (response to glucose, negative regulation of muscle growth, fertilization) with no single cohesive function evident across the cluster. This suggests no unified biological process linking all members, so Unknown is the most appropriate label.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0018996","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0016055","count":4},{"id":"GO:0048010","count":3}]},{"hash":"1882596650264565566","title":"Cardiovascular muscle development and sarcomere organization","description":"The cluster shows representation of sarcomere organization and its regulation, cardiac muscle contraction, and heart-rate related processes, along with angiogenesis, which together point to cardiovascular development and muscle function. While a few terms like adaptive immune response and symbiont entry into host cells appear, the strongest signal is muscle structure and heart/vascular development.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0046718","count":2}]},{"hash":"289670811901644345","title":"ER-Golgi Transport and Golgi Organization","description":"The cluster is dominated by GO terms referencing COPI-coated Golgi vesicles, ER-Golgi intermediate compartment organization, localization to ER exit sites, ER tubular networks, and endomembrane system organization, all pointing to components of the early secretory pathway and ER\u2013Golgi trafficking. Additional terms about ARF GTPase signaling and Golgi disassembly reinforce a cohesive theme of Golgi/ER transport and organelle maintenance, with one outlier term (hydrotropism) likely representing noise or misannotation. Overall, the proteins likely function together in ER\u2013Golgi trafficking and Golgi organization.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048205","count":1},{"id":"GO:0097111","count":1},{"id":"GO:0070973","count":1},{"id":"GO:0010274","count":1},{"id":"GO:0090166","count":1}]},{"hash":"1726958297223630440","title":"Neuronal development and cell adhesion","description":"The cluster\u2019s proteins are enriched for neuronal development, synapse and axon guidance, and cell-ECM adhesion signals (integrin signaling, collagen fibril organization), suggesting a theme of neuronal differentiation and ECM-mediated adhesion; the vascular/development terms may reflect broader ECM-associated developmental processes but do not outweigh the neuron-centric pattern.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0007155","count":5},{"id":"GO:0016525","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0007229","count":4}]},{"hash":"238816098704375568","title":"Neuronal signaling, survival, and trafficking","description":"The terms point to neuronal function: neuron survival (negative regulation of neuron apoptotic process), synaptic signaling (excitatory postsynaptic potential), and growth regulation (positive regulation of Wnt signaling, negative regulation of axonogenesis). Added vesicle trafficking and trafficking-related GTPase activity (Rab signaling, positive regulation of GTPase activity) suggest a coordinating role for transport in neuronal signaling. Ribosomal export terms may reflect general protein synthesis needed for neuronal maintenance, tying the theme together around neuronal communication and growth control.","confidence":"Medium","size":18,"edges":48,"triangles":112,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043524","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0000055","count":5},{"id":"GO:0042176","count":5},{"id":"GO:0000060","count":5}]},{"hash":"1419332954937912579","title":"Circadian and hormone-regulated gene expression","description":"Proteins here cluster around transcriptional regulation and responsiveness to circadian, hormonal, and xenobiotic signals, with links to development (muscle and inner ear) and drug responses, suggesting a cohesive module of gene expression control driven by rhythmic and endocrine cues.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0032922","count":12},{"id":"GO:2001016","count":12},{"id":"GO:0060713","count":12},{"id":"GO:0009410","count":12}]},{"hash":"2147183156505577284","title":"Nematode development and lipid metabolism","description":"This cluster centers on lipid biosynthesis and regulation (SREBP pathway; cholesterol, isoprenoid, and sphingolipid metabolism) together with nematode developmental processes (pharyngeal system development, neural plate axis specification, tail morphogenesis, molting). The overlap suggests proteins in nematodes that coordinate lipid metabolism with development, making this label representative, though some terms reflect broader development categories beyond lipid pathways.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0032933","count":5},{"id":"GO:0021997","count":4},{"id":"GO:0061005","count":4},{"id":"GO:0006665","count":4},{"id":"GO:0060037","count":4}]},{"hash":"1509969707860237798","title":"ECM remodeling and integrin-mediated signaling","description":"The top GO terms cluster around extracellular matrix interactions: integrin signaling, cell-matrix adhesion, hyaluronan metabolism, and metallopeptidase activity, with developmental and skeletal system terms (and blood coagulation) reinforcing an ECM organization/remodeling theme. Dendrite regeneration hints at neural ECM involvement, but overall the core function is ECM adhesion and remodeling with related signaling.","confidence":"High","size":18,"edges":32,"triangles":16,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070208","count":7},{"id":"GO:0007229","count":6},{"id":"GO:1905050","count":6},{"id":"GO:0030212","count":6},{"id":"GO:0007161","count":6}]},{"hash":"1443517884142441663","title":"ECM remodeling and developmental signaling","description":"The proteins cluster around extracellular matrix remodeling (collagen catabolic process, fibrinolysis) and developmental signaling (trophoblast giant cell differentiation, Wnt and HGF receptor pathways), with coagulation and complement activation providing a tissue-remodeling/immune context. This suggests a theme of tissue remodeling coupled with signaling during development and healing.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0030574","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0001867","count":3}]},{"hash":"1239616040014433323","title":"Unknown","description":"The top GO terms are highly diverse, including oxidative stress response, DNA recombination and demethylation, aging (obsolete), signaling (PI dephosphorylation, cAMP), xenobiotic response, and tissue-specific processes (corneocyte development, renal water transport). This lack of a single coherent functional theme makes it hard to assign a concise, representative label. ","confidence":"","size":18,"edges":31,"triangles":16,"max_degree":15,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0070301","count":10},{"id":"GO:0006310","count":10},{"id":"GO:0007568","count":9},{"id":"GO:0046856","count":9},{"id":"GO:0090502","count":8}]},{"hash":"646847216872195980","title":"Lipid metabolism and secondary metabolite biosynthesis","description":"This cluster shows strong signals for lipid-related processes (long-chain fatty acid metabolic process, import across plasma membrane, import into cell) and multiple secondary metabolite pathways (menaquinone and siderophore biosynthesis, phenylpropanoid metabolism, nonribosomal peptide biosynthetic activation), suggesting a cohesive theme around lipid metabolism and diverse secondary metabolite production/transport. The plant-specific seed coat development term adds some complexity, but the dominant pattern is metabolic processing of lipids and small molecules across organisms.","confidence":"Medium","size":18,"edges":6,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009234","count":6},{"id":"GO:0010214","count":5},{"id":"GO:0015911","count":5},{"id":"GO:0019290","count":5},{"id":"GO:0019629","count":5}]},{"hash":"1960978670248066925","title":"Neural development and synapse formation","description":"The cluster is dominated by terms related to pyramidal neuron differentiation, cell adhesion, and positive regulation of synapse assembly, along with axon guidance, pointing to neural development and connectivity. A few terms reference morphogenesis and cell cycle, which are less central to the core neural-theme of this cluster.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021859","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0033564","count":2},{"id":"GO:0006958","count":2}]},{"hash":"200269946699171598","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007274","count":2},{"id":"GO:0000480","count":1},{"id":"GO:0000447","count":1},{"id":"GO:0000472","count":1},{"id":"GO:1901907","count":1}]},{"hash":"1870719730366650620","title":"Wnt and Growth Factor Signaling Regulation","description":"These proteins are enriched for GO terms involving Wnt signaling (canonical and general) and responses to growth factors such as EGF and GM-CSF, plus related downstream signaling like Rho pathway regulation. While there are also terms pointing to housekeeping processes (spliceosome assembly, mitochondrial fission, telomere maintenance, morphogenesis), the core theme appears to be modulation of signaling pathways and growth factor responses.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":3},{"id":"GO:0097011","count":3},{"id":"GO:0045071","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0000387","count":2}]},{"hash":"1747785040279419169","title":"Proteostasis and Cytoskeleton Regulation in Development","description":"These proteins cluster around ubiquitin-proteasome\u2013mediated protein turnover (SCF, ERAD pathways) and cytoskeleton remodeling (Arp2/3 regulation, GTPase signaling), with links to mitotic spindle assembly and developmental processes (lens differentiation, pigmentation, gastrulation). The common thread is coordinated control of protein degradation and cytoskeletal dynamics during development. Confidence: Medium.","confidence":"","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007568","count":6},{"id":"GO:0043547","count":6},{"id":"GO:2000060","count":4},{"id":"GO:0034316","count":4},{"id":"GO:0090307","count":4}]},{"hash":"535029053993842530","title":"Hormone signaling and innate immune response","description":"The cluster\u2019s top GO terms include insulin processing, cellular response to glucose stimulus, bradykinin catabolic process, defense response to virus, innate immune response, and glucocorticoid signaling regulation, among others. This mix points to a theme of peptide/hormone metabolism and hormone-driven signaling, overlapped with innate immunity and antiviral defense, with hints of ubiquitin-mediated protein turnover. Together these terms suggest proteins that bridge hormone signaling with innate immune pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0030070","count":5},{"id":"GO:0071333","count":5},{"id":"GO:0010815","count":5},{"id":"GO:0051607","count":5},{"id":"GO:0045087","count":5}]},{"hash":"283594994738406014","title":"Lipid and Steroid Hormone Biosynthesis","description":"Based on the top GO terms, this cluster is enriched for lipid and steroid metabolism, including sphingolipid and very long-chain fatty acid biosynthesis, plus biosynthesis of glucocorticoids and sex steroids (testosterone, androgen). Additional terms involve retinol and phylloquinone metabolism, pointing to a broader lipid- and vitamin-related metabolic theme. The combination supports a cohesive focus on lipid- and hormone-related biosynthetic pathways rather than disparate processes.","confidence":"High","size":18,"edges":28,"triangles":41,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030148","count":7},{"id":"GO:0042761","count":7},{"id":"GO:0055114","count":7},{"id":"GO:0042619","count":7},{"id":"GO:0006704","count":6}]},{"hash":"226569272814994344","title":"Ubiquitin-Proteasome Mediated Protein Degradation","description":"This cluster is dominated by ubiquitin-dependent protein catabolic process, protein polyubiquitination, and SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, indicating a core role in proteasome-mediated degradation. Additional terms touch on circadian regulation and cell division, but the strongest signal is proteolysis via the ubiquitin-proteasome system.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:1903378","count":12},{"id":"GO:0000209","count":11},{"id":"GO:0042752","count":11},{"id":"GO:0031146","count":10}]},{"hash":"1482831179651981706","title":"Cell stress, trafficking, and apoptosis","description":"This cluster\u2019s top GO terms converge on intracellular protein handling and cell fate decisions: ER-to-Golgi vesicle transport points to ER stress and protein trafficking; hepatocyte apoptotic process, negative regulation of T cell death, and amyloid fibril formation reflect stress-induced apoptosis and protein aggregation across cell types; while a few developmental terms are present, the common thread is cellular stress responses and regulation of apoptosis tied to protein handling and trafficking.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0097284","count":2},{"id":"GO:1990000","count":2},{"id":"GO:0070236","count":2},{"id":"GO:0060325","count":1}]},{"hash":"1211421270587289303","title":"Heart and vascular morphogenesis","description":"The top GO terms are dominated by cardiac development and vascular morphogenesis (right ventricle formation, coronary vasculature morphogenesis, coronary vein morphogenesis, dorsal aorta development, and organ development), indicating this cluster centers on heart formation and blood vessel development, with a few related neural and immune terms as incidental associations.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0003219","count":18},{"id":"GO:0060979","count":18},{"id":"GO:0003169","count":18},{"id":"GO:0003241","count":18},{"id":"GO:0035907","count":18}]},{"hash":"1503482320260506983","title":"Glial development and neural cell fate regulation","description":"This cluster shows a strong signal for neural-glial development, highlighted by glial cell fate determination, organ identity maintenance, and regulation of processes that balance cell proliferation, death, and cytoskeletal dynamics during development. While some terms are broader (e.g., cell cycle, apoptosis, actin regulation), the presence of glial fate and developmental organization terms suggests a cohesive theme around glial/neural differentiation and tissue development.","confidence":"Medium","size":18,"edges":133,"triangles":562,"max_degree":17,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":11},{"id":"GO:0086019","count":10},{"id":"GO:1904793","count":10},{"id":"GO:0043065","count":10},{"id":"GO:0045976","count":10}]},{"hash":"483504255159292903","title":"GPCR-driven cyclic nucleotide signaling","description":"The top GO terms center on GPCR-mediated signaling pathways (adenosine and adrenergic receptors), intracellular signal transduction, and the biosynthesis of cAMP and cGMP, with responses to forskolin. A blue light signaling term also aligns with phototransduction that uses cyclic nucleotides. Although there are no reported edges, the shared theme is GPCR-triggered cyclic nucleotide signaling rather than transcriptional regulation, so this label captures the cluster\u2019s core function.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":6},{"id":"GO:0030828","count":5},{"id":"GO:0006182","count":5},{"id":"GO:0009785","count":5},{"id":"GO:0035556","count":5}]},{"hash":"1349289695968522033","title":"Ubiquitin-Dependent Proteolysis and JNK Regulation","description":"The cluster is dominated by terms related to ubiquitin-mediated protein turnover (ubiquitin-dependent catabolic process, autoubiquitination, K63-linked ubiquitination, ERAD) and regulation of the JNK signaling cascade, along with cell cycle involvement. These collectively point to a core theme of ubiquitin-dependent proteolysis influencing signaling and cell-cycle processes, making the label representative, with high confidence. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046328","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0043547","count":4}]},{"hash":"120513938250965566","title":"Diverse Metabolite Biosynthesis","description":"The top GO terms point to biosynthetic processes for a range of metabolites (lipoteichoic acid, menaquinone, antibiotics, siderophores, fatty acids, and related activation steps), suggesting proteins involved in constructing diverse small molecules rather than a single pathway. While some terms (seed coat development, bile acid metabolism) are from other organisms and add noise, the overall theme is varied metabolite biosynthesis, so the label is appropriate with Medium confidence.","confidence":"Medium","size":18,"edges":19,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070395","count":7},{"id":"GO:0009234","count":6},{"id":"GO:0017000","count":5},{"id":"GO:0010214","count":5},{"id":"GO:0019290","count":5}]},{"hash":"673122522126342548","title":"Neuro-immune-vascular signaling","description":"This label fits because the top GO terms span neural signaling (GPCR and dopamine pathways, prepulse inhibition), glial biology (astrocyte chemotaxis, neurotrophic factor production), immune responses (lipopolysaccharide response, dendritic cell differentiation), and vascular control (blood pressure regulation, smooth muscle contraction), with electron transport chain reflecting general energy needs. Together, they suggest interconnected neuro-immune-vascular signaling rather than a single narrow function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":17},{"id":"GO:0045777","count":17},{"id":"GO:0010579","count":17},{"id":"GO:2000458","count":16},{"id":"GO:0014829","count":16}]},{"hash":"1705147765110535106","title":"Neural Calcium Signaling and Neuroimmune Responses","description":"This cluster is dominated by GO terms tied to neuronal signaling and calcium dynamics (calcium release into cytosol; prepulse inhibition; dopamine signaling), pain and temperature responses (sensory perception of pain; cellular response to temperature; diet-induced thermogenesis), and immune-brain interactions (astrocyte chemotaxis; dendritic cell differentiation; LPS response). The convergence suggests a functional theme around nervous system signaling with calcium dynamics and neuroimmune interfaces, despite diverse individual terms.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0002024","count":11},{"id":"GO:2000458","count":10}]},{"hash":"1608797941584112647","title":"Unknown","description":"The GO terms span a wide range of disparate processes (morphine response, translation, cell division, development, sex differentiation, APC-dependent catabolism, and immune regulation) with no single coherent functional theme linking the cluster, making a concise, representative label infeasible.","confidence":"","size":18,"edges":14,"triangles":8,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0043278","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0006412","count":3},{"id":"GO:0006574","count":3}]},{"hash":"1901323137142358179","title":"Mitochondrial Electron Transport","description":"The top GO term is electron transport chain (18), indicating mitochondrial respiratory components dominate the cluster. Other terms suggest broader regulatory roles linked to neurovascular and immune signaling (GPCR signaling, blood pressure regulation, astrocyte chemotaxis, dopamine signaling, LPS response, prepulse inhibition). Taken together, the core theme is mitochondrial energy metabolism with associated signaling influences, so a mitochondrial energy/signaling label fits best.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":18},{"id":"GO:0045777","count":18},{"id":"GO:0035025","count":18},{"id":"GO:0010579","count":18},{"id":"GO:2000458","count":17}]},{"hash":"1898818629507542732","title":"Translation Machinery and mRNA Decay","description":"Dominant GO terms center on all stages of translation (initiation, elongation, termination) and mitochondrial translation, with auxiliary signals for positive regulation of translation and for deadenylation-dependent mRNA decay. This points to a cohesive set of proteins involved in protein synthesis and RNA turnover, rather than unrelated processes. A few terms related to cell division or glial proliferation appear but are not the main theme of the cluster.","confidence":"High","size":18,"edges":27,"triangles":31,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0070125","count":2},{"id":"GO:0014009","count":2},{"id":"GO:0000288","count":2}]},{"hash":"105192361386843089","title":"Unknown","description":"The terms cluster around DNA/RNA processing but also include unrelated processes like corneocyte development and stress responses, giving no single coherent function for the group; thus a clear label is not justifiable.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":7},{"id":"GO:0006278","count":5},{"id":"GO:0090502","count":4},{"id":"GO:0003335","count":4},{"id":"GO:2001153","count":4}]},{"hash":"1279909097208829425","title":"Coagulation and vascular development","description":"The top GO terms cluster around plasminogen activation, blood coagulation, and fibrinolysis, with strong support for vasculogenesis and cardiac/vascular morphogenesis. This suggests proteins involved in coagulation cascades and vascular remodeling; additional terms on synaptic transmission and mammary duct growth are less central to the primary theme.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031639","count":11},{"id":"GO:0007596","count":9},{"id":"GO:0051919","count":9},{"id":"GO:0042730","count":9},{"id":"GO:1902042","count":9}]},{"hash":"365188037145111111","title":"Unknown","description":"The GO terms span angiogenesis, adhesion, differentiation, and junctions with no single cohesive function.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002042","count":4},{"id":"GO:0048745","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0030913","count":4}]},{"hash":"1426058643312325154","title":"Viral entry and proviral integration with host manipulation","description":"The top GO terms point to viral processes that inject or integrate into host genomes (viral penetration into host nucleus, establishment of integrated proviral latency, DNA integration, DNA replication, RNA-templated DNA biosynthetic process, DNA recombination), along with translation and suppression of host RNA interference, indicating viruses co-opting host machinery and silencing defenses. Some terms about symbiont entry/apoptosis appear, but the dominant signal is virus\u2013host genome integration and manipulation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075732","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0015074","count":3}]},{"hash":"1907226988702524206","title":"Ubiquitin-Dependent Proteolysis & Circadian Regulation","description":"Dominant GO terms point to ubiquitin-dependent proteolysis (ubiquitin-dependent protein catabolic process, protein polyubiquitination, SCF-dependent proteasomal degradation) and circadian rhythm regulation, consistent with clock protein turnover and proteasome-mediated degradation; additional stress response terms reflect proteostasis under metal stress, supporting a cohesive theme of ubiquitin-mediated degradation linked to circadian regulation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0042752","count":11},{"id":"GO:0000209","count":9},{"id":"GO:0031146","count":8},{"id":"GO:0051260","count":8}]},{"hash":"69000325240941664","title":"Neurotransmitter uptake and synaptic transport","description":"The top GO terms cluster around uptake/transport of neurotransmitters (serotonin, dopamine, glycine, taurine, proline), regulation of glycinergic transmission, and dopamine catabolic processes, indicating a cohesive role in neurotransmitter handling and synaptic signaling. An outlier term on adenohypophysis development likely reflects multi-functionality of some proteins, but the dominant theme is neurotransmitter transport and synaptic regulation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905847","count":6},{"id":"GO:0051610","count":6},{"id":"GO:0014064","count":6},{"id":"GO:0051583","count":6},{"id":"GO:0060092","count":6}]},{"hash":"2000143575947138431","title":"Axon Guidance and Neuronal Migration","description":"This cluster is dominated by GO terms related to neural development, especially axon guidance and neuronal migration: commissural neuron axon guidance, semaphorin-plexin signaling in axon guidance, and neurite localization to paranodes, plus migration of GnRH neurons to the hypothalamus. VEGF signaling also supports neurovascular development, reinforcing a neural development theme, while other terms are peripheral. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060982","count":2},{"id":"GO:0042748","count":2},{"id":"GO:2000427","count":2},{"id":"GO:0021828","count":2},{"id":"GO:1904643","count":2}]},{"hash":"698229914298680904","title":"Neural development and synapse formation","description":"This cluster is enriched for developmental and neural-related GO terms, including forebrain and retina development, synapse assembly and synaptic plasticity, and cell adhesion, suggesting proteins that coordinate nervous system development and synaptogenesis; other terms like aging and some broad development categories may be less central noise.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0001501","count":2}]},{"hash":"1572599154999434286","title":"Embryonic Morphogenesis and Patterning","description":"The top GO terms cluster around embryonic development, morphogenesis, and patterning (cartilage morphogenesis, left/right pattern formation, placenta/endocrine development, pancreatic cell development, EMT in heart cushion formation, trophoblast differentiation). While there are general RNA processing terms present, the overarching theme is embryonic tissue formation and patterning, suggesting these proteins function together in developmental processes. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":10},{"id":"GO:0060972","count":10},{"id":"GO:0060806","count":10},{"id":"GO:0035270","count":10},{"id":"GO:0003323","count":10}]},{"hash":"1398382342795228283","title":"Developmental morphogenesis","description":"Most terms describe developmental processes across tissues (lens differentiation, skeletal and heart development, paraxial mesoderm, neurogenesis, and neuron projection development) and cell\u2013cell adhesion. The inclusion of regulation of Rho protein signaling suggests cytoskeletal remodeling during morphogenesis, linking signaling to tissue formation. Together they point to a cluster of developmental morphogenesis processes.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0070306","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0048339","count":3},{"id":"GO:0007275","count":3}]},{"hash":"916274501326287672","title":"Actin cytoskeleton remodeling and cell migration","description":"The top terms center on actin filament polymerization, nucleation, bundling, and lamellipodium morphogenesis, plus cell adhesion, all key to actin-driven cytoskeletal remodeling and directed cell movement. Additional terms like COPII cargo loading and heart development fit the broader context but do not override the dominant actin/motility signal.","confidence":"High","size":17,"edges":5,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0090110","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0030041","count":3}]},{"hash":"1933845532810329076","title":"Embryonic Organ Morphogenesis","description":"The top GO terms point to embryonic development and morphogenesis across many organs (heart, placenta, hindlimb, eye, habenula, prostate), with some regulation of transcription and cell proliferation during development. This makes 'Embryonic Organ Morphogenesis' a concise, representative label.","confidence":"High","size":17,"edges":12,"triangles":1,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0008584","count":12},{"id":"GO:2000288","count":12},{"id":"GO:0035116","count":12},{"id":"GO:0060527","count":12}]},{"hash":"763088320757426461","title":"Unknown","description":"The top terms are highly diverse, spanning histone modification, cell division, development, mechanical response, secretion, endosomal processes, eye morphogenesis, and defense, with no clear shared function linking the proteins.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061087","count":3},{"id":"GO:0051225","count":2},{"id":"GO:0043966","count":2},{"id":"GO:2000584","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1457407782013369578","title":"Unknown","description":"The top GO terms span both extracellular processes (cell adhesion, coagulation, and fibrinolysis regulation) and diverse intracellular activities (ER-Golgi transport, actin dynamics, mitotic spindle assembly, and RNA processing/translation regulation). Because there is no single cohesive function linking these terms, the cluster appears heterogeneous rather than functionally unified.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":3},{"id":"GO:0051918","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0030042","count":2}]},{"hash":"1529745769306769890","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0000480","count":1},{"id":"GO:0000447","count":1}]},{"hash":"1632954114578399031","title":"Axon guidance and ECM remodeling","description":"This cluster\u2019s top terms strongly point to neural development and extracellular matrix interactions: axon extension, axonal fasciculation, and collagen fibril organization. The presence of negative regulation of protein kinase activity suggests signaling modulation during neurite outgrowth. The other terms (innate immune response, defense against virus, ER stress\u2013related translation regulation) appear as additional, less central themes, likely reflecting multifunctional proteins rather than a single cohesive function. Overall, the dominant signal supports neural pathfinding and ECM remodeling as the core theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0048846","count":2},{"id":"GO:0007413","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0051607","count":2}]},{"hash":"579206974899796373","title":"Mitochondrial Metabolite Transporters","description":"The GO terms are dominated by transport across mitochondrial membranes for citrate, ATP/ADP, CoA, pyrimidine nucleotides, and cofactors such as pyridoxal phosphate, with glycine import noted as supporting evidence of broad transporter activity, collectively suggesting a cluster of mitochondrial metabolite transporters involved in energy metabolism and cofactor/nucleotide supply.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006843","count":2},{"id":"GO:1990544","count":2},{"id":"GO:0036233","count":2},{"id":"GO:0031921","count":2},{"id":"GO:0070542","count":2}]},{"hash":"1077755023462770029","title":"RNA processing and translation machinery","description":"The cluster shows strong enrichment for translation-related terms (translation, translational initiation, cytoplasmic translation) as well as spliceosome-related regulation (positive regulation of mRNA splicing, spliceosomal disassembly), indicating core involvement in RNA processing and protein synthesis. Additional terms point to broader gene expression regulation (transcription by RNA Pol II) and some context-specific regulatory notes (neural signaling and stress responses), but the dominant theme centers on RNA processing and translation. ","confidence":"High","size":17,"edges":31,"triangles":29,"max_degree":8,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006413","count":4},{"id":"GO:0048026","count":3},{"id":"GO:0000390","count":3},{"id":"GO:0045944","count":3}]},{"hash":"290668596616007583","title":"Neural development and innate immune signaling","description":"The GO terms mix neural development (axonogenesis, corpus callosum development, positive regulation of synapse assembly) with immune/defense responses (response to lipopolysaccharide, defense against Gram-positive bacteria, interferon-beta production, dsRNA response). The presence of dopamine- and pain-related terms alongside these neural and immune processes suggests dual roles or neuro-immune cross-talk rather than a single cohesive pathway. This justifies a label that reflects both neural development and immune signaling themes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0071222","count":3},{"id":"GO:1903351","count":3},{"id":"GO:0061368","count":3}]},{"hash":"824819459775875281","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0031564","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0006123","count":1},{"id":"GO:0033617","count":1}]},{"hash":"1212187604523507784","title":"Neural development and synaptic plasticity","description":"The top terms point to neuronal development, synaptic signaling/plasticity, and neural-related behaviors (e.g., long-term synaptic depression, sensory perception of sound, social behavior). Although several terms are obsolete and there are no reported edges among proteins, the dominant theme centers on neural development and modulation of synaptic function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0051262","count":4},{"id":"GO:0060292","count":3},{"id":"GO:0035176","count":3},{"id":"GO:0007605","count":3}]},{"hash":"656489678358130909","title":"Developmental signaling and morphogenesis","description":"This cluster centers on broad developmental processes and signaling pathways: nervous system development, axon guidance, hedgehog (Smoothened) signaling, ROBO (Roundabout) signaling, and ERK cascade regulation, alongside organogenesis cues such as kidney development, bone ossification, and spermatid development. Together, these terms point to coordinated signaling guiding tissue patterning and morphogenesis across multiple organ systems, with a neurodevelopmental emphasis. The presence of one immune signaling term (T cell receptor signaling) appears less central to the main theme but does not override the developmental signaling core.","confidence":"High","size":17,"edges":101,"triangles":293,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":13},{"id":"GO:0001822","count":12},{"id":"GO:0007224","count":12},{"id":"GO:0050852","count":12},{"id":"GO:0035385","count":12}]},{"hash":"1641141824713329834","title":"RNA Capping and Methylation","description":"This cluster centers on RNA processing and methylation, highlighted by mRNA capping (7-methylguanosine cap), RNA guanine-N7 methylation, and tRNA wobble uridine modification, as well as protein methylation activities (N-terminal trimethylation and lysine monomethylation). The presence of transcription-related terms further supports a role in gene expression regulation. Together these signals point to RNA modification and associated methylation pathways as the core function of this cluster.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0090398","count":1}]},{"hash":"651937850441115045","title":"Angiogenesis and ECM Signaling","description":"This cluster is enriched for terms related to blood vessel formation and extracellular matrix communication (retinal blood vessel morphogenesis, positive regulation of angiogenesis, ECM-cell signaling), indicating a core theme of angiogenesis coupled with ECM interactions. Developmental signaling terms (Wnt/planar polarity and axis specification) further support a role in signaling pathways that coordinate vascular development. Some vascular physiology terms (blood pressure regulation by ANP) align with broader vascular context but are less central. Overall, the dominant pattern points to angiogenesis and ECM signaling as the main theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044332","count":3},{"id":"GO:0061304","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0003050","count":2},{"id":"GO:0071397","count":2}]},{"hash":"1587008940894291869","title":"Eye development and retinal metabolism","description":"Dominant GO terms are related to ocular development: retinol and retinal metabolic processes and optic cup morphogenesis. This suggests the cluster mainly reflects eye/retina formation, with additional but less dominant signals for broader embryonic organogenesis (heart morphogenesis, symmetry) that do not override the core eye theme.","confidence":"Medium","size":17,"edges":106,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":15},{"id":"GO:0042574","count":15},{"id":"GO:0021768","count":9},{"id":"GO:0009450","count":9},{"id":"GO:1901023","count":9}]},{"hash":"728456150541580598","title":"Neural and tissue development","description":"The cluster shows multiple GO terms tied to development of nervous system and tissues: CNS development, innervation, glial cell-derived neurotrophic factor receptor signaling pathway, chondrocyte development, glomerular basement membrane development, esophagus smooth muscle contraction, and colon epithelial cell migration. Some terms (e.g., lipoteichoic acid biosynthetic process) may be incidental noise, but the overall signal points to developmental processes with a neural emphasis.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032836","count":3},{"id":"GO:0051563","count":2},{"id":"GO:0002063","count":2},{"id":"GO:0060384","count":2},{"id":"GO:0070395","count":2}]},{"hash":"1393123322849694024","title":"Cocaine-Related Dopaminergic Nervous System Signaling","description":"This cluster is dominated by terms around dopaminergic synaptic transmission and cocaine-related responses, along with sensory and visual processing, suggesting a cohesive theme of nervous system signaling and reward/pathway modulation by cocaine; a few outliers (heart development, macrophage chemotaxis) may reflect annotation pleiotropy rather than true cohesion.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0042220","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0048148","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0007601","count":4}]},{"hash":"1064629260907632941","title":"Dendrite and Synapse Morphogenesis","description":"Top GO terms cluster around dendrite development, dendritic spine morphogenesis, and synaptic localization/clustering of receptors and proteins, with Rho signaling connecting to cytoskeletal remodeling underlying these processes. A couple of terms (DNA repair, spindle checkpoint) are less directly tied and may be incidental in this cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0097120","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0035418","count":3}]},{"hash":"824379740416441974","title":"Neural development and synaptic plasticity","description":"This cluster is dominated by GO terms tied to nervous system function and synaptic activity: regulation of synaptic vesicle endocytosis, long-term potentiation, and memory, along with dendrite development and retina formation. These indicate roles in neural development and synaptic plasticity. Some terms about organ development (renal, skin) suggest broader developmental functions, but the strongest signal centers on neural connectivity and plasticity.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:1900242","count":5},{"id":"GO:0098735","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0007613","count":4},{"id":"GO:0010842","count":4}]},{"hash":"610640157525227060","title":"Synaptic signaling and actin cytoskeleton dynamics","description":"The top terms cluster around neuronal synapse function: actin filament bundle assembly, AMPA receptor activity, excitatory postsynaptic potential, and glutamatergic synaptic transmission\u2014all pointing to synapse regulation and dendritic spine remodeling, with supporting ties to Wnt signaling in synapse formation. Other terms like hepatocyte apoptotic process and cell cycle appear peripheral, suggesting some broader regulatory context but the dominant theme is synaptic signaling coupled with cytoskeletal dynamics.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":3},{"id":"GO:2000969","count":2},{"id":"GO:2000463","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0051968","count":2}]},{"hash":"1609247860658261638","title":"DNA Transposons and Proviral Integration","description":"The top GO terms cluster around mobile genetic element activities: DNA integration, DNA transposition, and retrotransposition, with related terms for proviral latency and viral entry. While there are a couple of host-symbiont interaction terms present, the dominant signal points to transposable elements and viral integration processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0075732","count":1},{"id":"GO:0032197","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0006313","count":1}]},{"hash":"87672109393487791","title":"Central carbon metabolism","description":"The cluster centers on core energy-generation pathways, including glycolysis, the TCA cycle, beta-oxidation, and amino acid catabolism feeding into acetyl-CoA, indicating a cohesive theme of central carbon metabolism. The presence of quinone biosynthesis and antibiotic biosynthetic terms suggests linked secondary metabolism in bacteria, but the dominant signal is energy metabolism through carbon utilization.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006099","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0006096","count":5},{"id":"GO:0033512","count":5},{"id":"GO:0055114","count":4}]},{"hash":"874213226591339009","title":"Blood Coagulation and Fibrinolysis","description":"This cluster shows strong signals for coagulation and its regulation (positive regulation of blood coagulation), fibrinolysis, plasminogen activation, and related processes, plus complement activation via the lectin pathway. These shared terms point to a hemostasis/innate-immunity module, even though a few developmental or transcription-related terms are also present, likely as pleiotropic annotations. Therefore, the label reflects the dominant theme of coagulation and fibrinolysis.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030194","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0007338","count":4},{"id":"GO:0061551","count":4}]},{"hash":"703906372655319315","title":"Blood coagulation and vascular-immune signaling","description":"The top GO terms are dominated by blood coagulation and platelet activation, with vascular smooth muscle contraction also pointing to vascular function, suggesting a hemostasis-focused cluster. Additional terms touch on immune and neural signaling (lipopolysaccharide response, dendritic cell differentiation, regulation of dopamine receptor signaling, prepulse inhibition, astrocyte chemotaxis, glial-derived neurotrophic factor production), indicating cross-talk between vascular, immune, and neural processes. This supports a label centered on coagulation and vascular-immune interactions, with some neural regulation aspects.","confidence":"Medium","size":17,"edges":13,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":15},{"id":"GO:0030168","count":15},{"id":"GO:2000458","count":14},{"id":"GO:0014829","count":14},{"id":"GO:0097029","count":14}]},{"hash":"2197349920185289281","title":"Ion Transport and Electrical Excitability in Neurons and Heart","description":"The top GO terms point to ion transport (calcium, manganese, potassium), membrane hyperpolarization, and cardiac conduction (bundle of His action potential) as core features, suggesting a cluster of ion channels and transporters regulating excitability in neural and cardiac tissues. Additional terms cover sensory signaling and thermogenesis, indicating broader regulatory roles but the central theme remains ion homeostasis and electrical signaling.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":4},{"id":"GO:0006828","count":4},{"id":"GO:0060081","count":4},{"id":"GO:0071805","count":4},{"id":"GO:0019233","count":4}]},{"hash":"1545165918361803080","title":"Viral genome integration and latency","description":"The top GO terms cluster around viral entry, genome integration and proviral latency (DNA replication, DNA integration, DNA recombination, establishment of integrated proviral latency, viral penetration into host nucleus, formation of infection structure), indicating a viral lifecycle involving genome integration into host DNA and latent provirus maintenance. Some terms about symbiont-host interactions and host glycosylation may reflect infection context rather than core function.","confidence":"High","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0045944","count":2},{"id":"GO:0075732","count":2},{"id":"GO:0075713","count":2}]},{"hash":"233515475171231012","title":"Polyamine biosynthesis and transport","description":"The cluster is centered on polyamine metabolism, with GO terms for putrescine and spermidine biosynthesis, arginine/ornithine\u2013related pathways, and positive regulation of polyamine transmembrane transport, suggesting a cohesive theme around polyamine production and handling. Some unrelated biosynthetic terms and obsoleted entries may reflect annotation noise but do not override the core polyamine signal. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0008295","count":1}]},{"hash":"2074976755043148973","title":"Steroidogenesis and gonadal development","description":"Based on the top GO terms, the cluster is enriched for testosterone biosynthesis, androgen metabolic processes, and development of gonadal tissues (e.g., female gonad and mammary gland development), with supporting signals from prostaglandin biosynthesis and vitamin D response. This points to a cohesive theme around steroid hormone production and reproductive development, even though some terms reflect broader metabolic responses. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":5},{"id":"GO:0008209","count":5},{"id":"GO:0008585","count":4},{"id":"GO:0001516","count":4},{"id":"GO:0033280","count":4}]},{"hash":"2052431669015820380","title":"Cardiac and coronary vascular morphogenesis","description":"The top GO terms are dominated by heart and vascular development, including cardiac right ventricle formation, dorsal aorta development, coronary vein morphogenesis, and vasculogenesis involved in coronary vascular morphogenesis, which together point to cardiac/vascular organogenesis. Some terms on Notch regulation and oxidative processes appear but are secondary to the central theme of heart and coronary vessel morphogenesis.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045746","count":11},{"id":"GO:0055114","count":11},{"id":"GO:0098869","count":10},{"id":"GO:0003219","count":9},{"id":"GO:0060979","count":9}]},{"hash":"818394260416701620","title":"Steroid Hormone Biosynthesis and Reproductive Development","description":"The top GO terms cluster around prostaglandin biosynthesis and testosterone biosynthesis, along with development of female reproductive tissues (female gonad, mammary gland, uterus). This suggests a coherent theme of steroid hormone production linked to female reproductive development. Some terms like brassinosteroid homeostasis (a plant hormone) and camphor catabolic process, or vitamin D response, may reflect cross-species annotations or broader hormone signaling/metabolism, but the dominant signals point to steroid hormone synthesis and female reproductive tissue development.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":9},{"id":"GO:0033280","count":9},{"id":"GO:0019383","count":7},{"id":"GO:0061370","count":7},{"id":"GO:0008585","count":7}]},{"hash":"1515143060985173094","title":"Multi-tissue developmental differentiation and signaling","description":"This cluster's GO terms point to differentiation processes in several tissues (chondrocyte, fat cell, heart development) and regulation of signaling pathways (GPCR desensitization, peptidyl-threonine phosphorylation, cardiac hypertrophy regulation). While neural plasticity terms appear, the strongest common thread is development across multiple tissues coupled with modulation of signaling, rather than a single, cohesive pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031914","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0030517","count":4},{"id":"GO:0007507","count":4}]},{"hash":"1203886269833958666","title":"Transcription Initiation and Ribosome Biogenesis","description":"The top GO terms point to both transcription-related processes (DNA-templated transcription, RNA Pol II preinitiation complex assembly, Pol III promoter initiation, and transcription regulation) and ribosome biogenesis/rRNA maturation (5.8S and LSU rRNA maturation, ribosomal large subunit biogenesis). This suggests the cluster comprises proteins involved in the core machinery of gene expression and ribosome assembly, rather than a single narrow function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0000463","count":2}]},{"hash":"461908828631239612","title":"Immune signaling and antiviral defense","description":"The top GO terms point to ubiquitin-dependent protein catabolic processes coupled with immune signaling pathways (TNF-mediated signaling, NF-kappaB activity, T cell proliferation and its negative regulation), as well as antiviral responses (regulation of viral transcription and suppression of viral release) and LPS signaling regulation. Together these indicate a cohesive theme of host immune regulation and antiviral defense, with protein turnover supporting these signaling processes. The microtubule localization term may reflect trafficking related to immune responses, reinforcing the overall immune-centered theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0031664","count":8},{"id":"GO:0050999","count":8},{"id":"GO:0042098","count":8},{"id":"GO:0035372","count":8}]},{"hash":"688518969603545789","title":"Unknown","description":"The top GO terms are scattered across proteolysis, cell cycle, apoptosis regulation, lipid homeostasis, and multiple membrane transport processes with no single dominant function, so there is no clear unifying theme to label the cluster meaningfully. Edges and connectivity are also absent, reinforcing the lack of a cohesive function.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0007049","count":1},{"id":"GO:1900118","count":1},{"id":"GO:0090156","count":1},{"id":"GO:0098713","count":1}]},{"hash":"1435005980735435537","title":"Endocrine development and hormonal regulation","description":"These terms cluster around endocrine tissue development (craniofacial bone and pancreatic endocrine cell development) and hormonal processing/regulation (peptide hormone maturation, ANP-mediated blood pressure control, renal sodium handling). While redox terms and bone formation appear, the dominant theme is development of endocrine components and systemic hormonal regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0055114","count":2}]},{"hash":"1242234768844675996","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are strongly centered on ribosome production and function (ribosome biogenesis, small/large subunit biogenesis, ribosomal export from nucleus, cytoplasmic translation, and tRNA modification), which together point to a cluster focused on assembling and utilizing ribosomes for protein synthesis. While cell cycle and division terms appear as well, they likely reflect the coordination of growth and proliferation with ribosome biogenesis; a few outliers (e.g., stress response) are less informative. Overall, the dominant theme is ribosome assembly and protein synthesis.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0006400","count":2}]},{"hash":"583572039327029556","title":"Transmembrane Ion and Metabolite Transporters","description":"The top GO terms point to transport across membranes for various substrates\u2014potassium and sodium ions, galactose, nitrate/nitrite, phosphate ions, and other metabolites like 4-hydroxyphenylacetate\u2014plus a neurotransmitter loading process. This pattern suggests a cluster of membrane transport proteins with diverse but shared transporter roles, rather than a single pathway.  ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":5},{"id":"GO:0035725","count":5},{"id":"GO:0015757","count":4},{"id":"GO:0006004","count":4},{"id":"GO:0015706","count":4}]},{"hash":"1177694039913959935","title":"Carnitine Transport and Metabolism","description":"This cluster centers on carnitine-related activity, with strong representation of carnitine metabolic process and carnitine transport (transmembrane and related substrates), indicating a shared function in fatty acid transport/utilization and energy metabolism. A few other GO terms (pollen sperm differentiation, mesoderm formation) seem unrelated noise.","confidence":"High","size":16,"edges":53,"triangles":69,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0009437","count":7},{"id":"GO:1900751","count":7},{"id":"GO:1902270","count":7},{"id":"GO:0048235","count":6},{"id":"GO:0040015","count":6}]},{"hash":"1253836118987082393","title":"Mitosis, DNA Repair, and Ubiquitin-Proteasome Regulation","description":"The top GO terms indicate strong signaling for cell-cycle processes (chromosome segregation, G2/M transition, exit from mitosis) and genome maintenance (NER) coordinated by SCF ubiquitin-proteasome\u2013mediated proteolysis; ISG15 conjugation and viral process terms appear present but secondary, suggesting a primary theme around mitotic control and proteostasis with incidental immune-related associations.","confidence":"High","size":16,"edges":118,"triangles":533,"max_degree":15,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0007059","count":16},{"id":"GO:0000086","count":16},{"id":"GO:0070911","count":16},{"id":"GO:0031146","count":16},{"id":"GO:0016032","count":16}]},{"hash":"2232112074250744370","title":"Embryonic organogenesis and transcriptional regulation","description":"The terms cluster around developmental processes across multiple organs (eye, brain, lung, gonad, pancreas) and include both transcription by RNA polymerase II and its negative regulation, suggesting a broad role in organogenesis coordinated by transcriptional control.","confidence":"Medium","size":16,"edges":57,"triangles":57,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0048048","count":11},{"id":"GO:0060441","count":10},{"id":"GO:0006366","count":10},{"id":"GO:0043010","count":10},{"id":"GO:0021571","count":10}]},{"hash":"496762062227918715","title":"DNA replication and mitotic cell cycle regulation","description":"This cluster centers on DNA replication, centrosome/kinetochore dynamics, and CDK-related cell cycle control, with supporting links to DNA-templated transcription and developmental proliferation (embryonic cranial skeleton morphogenesis). Metabolic and stress-response terms appear secondary, not defining the cluster.","confidence":"High","size":16,"edges":9,"triangles":5,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0010571","count":4},{"id":"GO:0048701","count":4},{"id":"GO:0007098","count":4},{"id":"GO:0034501","count":4}]},{"hash":"1228470516933900035","title":"Hepatic metabolism and immune signaling","description":"These terms cluster around liver-centric metabolism and remodeling with immune signaling. Urea homeostasis and mitochondrial transport reflect hepatic metabolic functions, supported by amino acid (glycine) and vitamin B6 (pyridoxal phosphate) transport. The presence of liver regeneration and epithelial-to-mesenchymal transition suggests tissue remodeling, while NF-kappaB signaling and innate immune response indicate inflammation-related activity. Together, the cluster points to hepatic metabolic processes linked to regeneration and innate immunity rather than a single, narrow pathway.","confidence":"Medium","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":4},{"id":"GO:0060546","count":4},{"id":"GO:0097421","count":4},{"id":"GO:0001837","count":3},{"id":"GO:0043123","count":3}]},{"hash":"866441329858574286","title":"Cardiovascular and cardiac neural crest morphogenesis","description":"These GO terms cluster around heart and blood vessel formation: dorsal aorta development, pulmonary artery and valve morphogenesis, pericardium morphogenesis, and especially cardiac neural crest cell development involved in outflow tract morphogenesis. Notch signaling regulation, a key developmental pathway, also appears, supporting a role in cardiovascular patterning. Overall, the proteins appear to participate in cardiovascular morphogenesis with neural crest involvement, justifying this label.","confidence":"High","size":16,"edges":11,"triangles":2,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035907","count":14},{"id":"GO:0060579","count":14},{"id":"GO:0045747","count":14},{"id":"GO:0034351","count":14},{"id":"GO:0045608","count":14}]},{"hash":"2189154236970810595","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0046825","count":4},{"id":"GO:0006458","count":4},{"id":"GO:0034975","count":4},{"id":"GO:1900035","count":4},{"id":"GO:0001707","count":4}]},{"hash":"303746615438628289","title":"Spliceosome-regulated RNA splicing and ncRNA silencing","description":"Dominant GO terms focus on mRNA splicing and spliceosome activity (recognition, alternative splicing, regulation) with supporting terms for regulatory ncRNA-mediated gene silencing and stress-granule localization. This suggests a cohesive function in RNA processing and post-transcriptional regulation, with peripheral ties to development and stress responses. ","confidence":"High","size":16,"edges":80,"triangles":211,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":4},{"id":"GO:0006376","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0000380","count":3},{"id":"GO:0000381","count":3}]},{"hash":"1478200062466134007","title":"Neural development and forebrain formation","description":"The top GO terms show a clear emphasis on CNS-related development, including forebrain development and neural tube closure, alongside broader multicellular development and transcriptional regulation; some terms pertain to general cellular processes, but the strongest signal is neural development, justifying this label as representative without overstating others.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0070059","count":7},{"id":"GO:0007275","count":7},{"id":"GO:0050830","count":6}]},{"hash":"369147401092716288","title":"Endothelial Cell Death and Proliferation Regulation","description":"The cluster shows a notable presence of GO terms tied to regulation of endothelial cell fate, including positive regulation of endothelial cell apoptotic processes and endothelial cell proliferation, suggesting a theme around endothelial signaling for cell survival and growth. However, several other terms (viral process, tRNA gene clustering, RNA polymerase III transcription) are less cohesive with this theme, indicating a heterogeneous set of functions. Overall, the strongest coherent signal is endothelial apoptosis/proliferation regulation, but the connection is not uniformly strong across all proteins. ","confidence":"Medium","size":16,"edges":17,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":3},{"id":"GO:0030433","count":2},{"id":"GO:2000353","count":2},{"id":"GO:0045945","count":2},{"id":"GO:0001938","count":2}]},{"hash":"133314579789820223","title":"GPCR Signaling and Cardiovascular Regulation","description":"The top GO terms cluster around GPCR-related processes (GPCR internalization, regulation of Rho signaling) and cardiovascular-relevant functions (heart development, vasoconstriction, prostaglandin response, fibroblast migration). This suggests a coherent theme of GPCR-driven signaling influencing heart and vessel biology, cytoskeletal dynamics, and cell movement, with a few adjacent terms touching exocytosis and transport that may tie into signaling cascades. Overall, a cardiovascular/GPCR signaling-focused cluster fits well.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0010748","count":3},{"id":"GO:0002031","count":3},{"id":"GO:0010763","count":3},{"id":"GO:0007507","count":3}]},{"hash":"350076855625635332","title":"Cerebellar neuron differentiation and synaptic plasticity","description":"This cluster shows a strong emphasis on neural development and synaptic function, with GO terms for cerebellar granule cell differentiation, long-term potentiation/depression, and actin cytoskeleton dynamics, indicating roles in neuronal maturation and synaptic remodeling. Some terms are broader or less specific (e.g., intracellular signaling, cell polarity), but the dominant theme points to neural differentiation and synaptic plasticity.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021707","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0051017","count":2}]},{"hash":"1269719984081806968","title":"Angiogenesis and Endothelial Migration Regulation","description":"Based on the GO terms, the cluster centers on vascular development and signals that promote blood vessel formation and endothelial cell movement (angiogenesis, endothelial migration). The presence of terms involving positive regulation of ERK signaling and GTPase activity, and PI3K-related regulation, points to a core signaling theme governing angiogenic processes. Some immune and developmental terms appear, suggesting broader roles, but the dominant connection is pro-angiogenic signaling.","confidence":"Medium","size":16,"edges":25,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0043536","count":2},{"id":"GO:0031532","count":2}]},{"hash":"2238801743665112741","title":"RNA processing and ribosome biogenesis","description":"Top terms indicate RNA maturation (mRNA splicing, rRNA processing) and ribosome assembly (preinitiation complex, preribosome) with related translation initiation and stress granule localization signals. While there are hints of transcription regulation, the dominant theme is RNA processing coupled to ribosome biogenesis and translation control, justifying this label.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":5},{"id":"GO:0000463","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0031047","count":4}]},{"hash":"1952195159202716695","title":"Neuronal Axon Guidance and Neural Crest Migration","description":"The cluster shows strong enrichment for axon guidance and neural crest\u2013related processes: commissural axon guidance, semaphorin-plexin signaling, sympathetic neuron projection extension/guidance, and neural crest cell migration, along with paranode/juxtaparanode localization and actin cytoskeleton remodeling, all pointing to coordinated neural development and axon pathfinding; VEGF receptor signaling may also contribute to neural development in this context.","confidence":"High","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048010","count":6},{"id":"GO:0002175","count":6},{"id":"GO:0031532","count":5},{"id":"GO:0007155","count":5},{"id":"GO:0071679","count":5}]},{"hash":"99427187219620994","title":"Ion Transport and Cyclic Nucleotide Signaling","description":"The cluster's top GO terms cluster around import/transport of Ca2+, Mn2+, and Na+, plus cellular responses to cAMP and cGMP, implying a shared role in ion homeostasis and cyclic nucleotide signaling. Some terms (pain perception, ossification, aerotaxis) may reflect annotation noise or broader pleiotropic roles, but the dominant pattern links ion transport with cyclic nucleotide signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0098703","count":6},{"id":"GO:0006828","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0098719","count":5}]},{"hash":"862884121831803943","title":"Ubiquitin-Mediated Proteolysis and Immune Signaling","description":"The top terms cluster around ubiquitin-dependent protein catabolic processes and various ubiquitination forms (including K6-linked) and autoubiquitination, indicating a core role in protein turnover and chromatin regulation (histone catabolic process). Additional terms point to regulation of apoptosis and immune signaling pathways (TNF-mediated signaling, I-kappaB phosphorylation, JNK cascade) and V(D)J recombination, suggesting involvement in adaptive immunity and signaling cross-talk. Overall, the cluster appears to represent proteins coordinating ubiquitin-proteasome\u2013driven degradation with modulation of immune-related signaling and transcriptional regulation.","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0036205","count":7},{"id":"GO:0085020","count":7},{"id":"GO:1903265","count":7},{"id":"GO:0051865","count":7}]},{"hash":"1060309255045242350","title":"Neural Sensory Perception and Dopaminergic Reward","description":"Terms emphasize neural sensing (pain, vision), dopaminergic synaptic transmission, and cocaine-related behavioral responses, pointing to a neural processing/reward cluster. Temperature responsiveness and membrane potential regulation align with neuronal excitability, supporting a cohesive neural-sensory theme despite some unrelated terms.","confidence":"High","size":16,"edges":31,"triangles":5,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0071502","count":14},{"id":"GO:0002024","count":14},{"id":"GO:0001963","count":13},{"id":"GO:0010759","count":13}]},{"hash":"259671197033574203","title":"Glial-neuroimmune signaling","description":"This cluster foregrounds glia- and immune-related functions: astrocyte chemotaxis regulation, glial-derived neurotrophic factor production, response to lipopolysaccharide, and dendritic cell differentiation, along with neuronal signaling modulation (negative regulation of dopamine receptor signaling) and GPCR internalization. Together these terms point to neuron-glia communication and neuroinflammatory pathways, with ancillary GPCR trafficking as a shared mechanism.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":16},{"id":"GO:0014829","count":16},{"id":"GO:0097029","count":16},{"id":"GO:0060160","count":16},{"id":"GO:0032496","count":16}]},{"hash":"154440650515008384","title":"Neural Pain, Temperature, and Vision Signaling","description":"This cluster centers on sensory processing and neuromodulation, with GO terms covering pain perception, temperature response, thermogenesis, and vision-related signaling (opsin signaling and visual learning), plus modulation of synaptic transmission. The common thread is neural sensory signaling and its regulation, rather than a single metabolic or developmental pathway; a stray term like heart development is less central but may reflect broader tissue expression. Confidence: Medium.","confidence":"","size":16,"edges":29,"triangles":8,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0002024","count":12},{"id":"GO:0001975","count":11},{"id":"GO:0060134","count":10}]},{"hash":"1602498836706447772","title":"Female reproductive development and lipid metabolism","description":"The top GO terms cluster around development of female reproductive organs (female gonad, uterus, mammary gland) and related lipid signaling/metabolic processes (triglyceride metabolism, prostaglandin biosynthesis, lipid hydroxylation) plus steroid hormone biosynthesis (testosterone). Although one term (brassinosteroid homeostasis) is plant-specific, the overall theme is coherent: proteins linked to reproductive tissue development coupled with lipid-mediated signaling and metabolism. This supports a label centered on reproductive development with lipid signaling.  ","confidence":"Medium","size":16,"edges":93,"triangles":279,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0008585","count":8},{"id":"GO:0060065","count":8},{"id":"GO:0048565","count":8},{"id":"GO:0006641","count":8},{"id":"GO:0019383","count":7}]},{"hash":"587342615281493137","title":"Neural development and axon myelination with BMP signaling","description":"This cluster is dominated by neural-related terms: paranode localization, regulation of dendrite development, myelination, and clustering of voltage-gated sodium channels, which together point to neuronal maturation and axon wiring. BMP signaling regulation is also prominent, aligning with neural patterning and development. While there are broader development terms (heart and axial mesoderm formation, angiogenesis, salivary/gland boundary specifications), the strongest signals center on neural differentiation and myelination, justifying this label.","confidence":"High","size":16,"edges":104,"triangles":378,"max_degree":15,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0002175","count":9},{"id":"GO:0030513","count":8},{"id":"GO:0007432","count":8},{"id":"GO:0060068","count":8}]},{"hash":"147738021400009100","title":"Neuroimmune and glial signaling","description":"This cluster centers on neural function and behavior (locomotory behavior, prepulse inhibition, dopamine signaling) and glial/immune processes (astrocyte chemotaxis regulation, GDNF production, LPS response, dendritic cell differentiation), suggesting a theme of neuroimmune regulation and glial involvement in neural signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":10},{"id":"GO:2000458","count":9},{"id":"GO:0014829","count":9},{"id":"GO:0097029","count":9},{"id":"GO:0060160","count":9}]},{"hash":"1989021056194098178","title":"Steroid Hormone Biosynthesis & Reproductive Development","description":"These terms cluster around steroid hormone production and reproductive biology: testosterone biosynthesis and androgen metabolic process point to steroidogenesis, while female gonad development, mammary gland development, and prostaglandin biosynthetic process reinforce a reproductive/hormonal theme. The remaining terms (camphor catabolic process, brassinosteroid homeostasis, lipid hydroxylation) are more peripheral but still relate to lipid or steroid metabolism. Overall the cluster coherently maps to steroid hormone biosynthesis and reproductive development.","confidence":"High","size":16,"edges":23,"triangles":9,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":8},{"id":"GO:0008209","count":8},{"id":"GO:0055114","count":6},{"id":"GO:0019383","count":6},{"id":"GO:0008585","count":6}]},{"hash":"1022832034720228495","title":"Mitochondrial and Chloroplast Protein Import","description":"Most GO terms center on protein import into mitochondrial matrix/inner membrane and chloroplast stroma, with related organelle distribution, indicating a cluster of proteins involved in organelle protein targeting and import; peripheral terms like ribosomal export and cell cycle are less informative.","confidence":"High","size":16,"edges":23,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":5},{"id":"GO:0051260","count":3},{"id":"GO:0032094","count":3},{"id":"GO:0045037","count":3},{"id":"GO:0030150","count":3}]},{"hash":"912521676091575025","title":"Neuronal synaptic signaling and excitability","description":"Reasoning: The top terms cluster around synaptic activity and neuronal excitability\u2014membrane depolarization, postsynaptic membrane organization, acetylcholine receptor signaling, and action potential\u2014along with dopaminergic synaptic transmission guidance. Additional terms for circadian sleep/wake regulation and zinc response suggest brain-specific regulatory processes, while neuroprotective aspects (negative regulation of neuron apoptotic process, amyloid fibril regulation) align with neural tissue maintenance. Together, they point to a cluster focused on neuronal communication and excitability.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043524","count":7},{"id":"GO:0051899","count":6},{"id":"GO:0032226","count":6},{"id":"GO:1905906","count":6},{"id":"GO:0001941","count":6}]},{"hash":"537240169076155863","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0006364","count":2},{"id":"GO:0034414","count":2}]},{"hash":"197968143718067838","title":"Developmental Regulation Across Tissues","description":"Most terms point to developmental processes in multiple tissues (brain, male gonad, circulatory system) and to transcriptional control (negative regulation of transcription by RNA polymerase II, DNA-templated transcription). This pattern suggests a theme of genes coordinating transcriptional regulation during tissue development. Some terms are peripheral (protein folding in ER, NK cell cytotoxicity), but they do not override the primary developmental/transcriptional signal.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0007626","count":2}]},{"hash":"1099325702130554223","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":2},{"id":"GO:0070121","count":2},{"id":"GO:0007249","count":2},{"id":"GO:0009229","count":1},{"id":"GO:0006772","count":1}]},{"hash":"1384390846892474216","title":"Embryonic cardiac morphogenesis","description":"The cluster is dominated by heart development terms\u2014ventricular septum development, outflow tract morphogenesis, and cardiac muscle cell proliferation\u2014indicating a primary focus on embryonic heart formation, with some broader embryonic patterning signals (axis specification) that support this interpretation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008595","count":3},{"id":"GO:0035115","count":2},{"id":"GO:0060028","count":2},{"id":"GO:0003151","count":2},{"id":"GO:0060809","count":2}]},{"hash":"576601729823773926","title":"Unknown","description":"The terms span diverse processes (immune signaling, neural differentiation, post-translational modification, lipid catabolism, telomere maintenance, and protein trafficking) with no clear single functional theme tying the proteins together, so a cohesive label beyond Unknown isn\u2019t supported by the data.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":5},{"id":"GO:0045083","count":3},{"id":"GO:0070427","count":3},{"id":"GO:0070212","count":3},{"id":"GO:0021707","count":3}]},{"hash":"1825466928322719644","title":"Developmental signaling and cell adhesion","description":"The predominant terms point to extracellular signaling and cell\u2013cell/ECM interactions (activation of receptor tyrosine kinases, integrin activation), coupled with cytoskeletal dynamics and vesicle trafficking (microtubule movement, ER-to-Golgi transport) and developmental processes (spinal cord and lens fiber differentiation). This combination suggests a cluster of proteins coordinating signaling and adhesion during development, rather than a single pathway. Some immune-related terms (complement, platelet activation) are present but less central.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0001867","count":4},{"id":"GO:0010572","count":4},{"id":"GO:0045907","count":3},{"id":"GO:0007171","count":3},{"id":"GO:0070306","count":3}]},{"hash":"2246219530588203229","title":"Immune signaling and cell adhesion","description":"The cluster is enriched for immune-related functions, including innate and adaptive immune responses, B cell receptor signaling, NF-kappaB and PI3K pathways, and processes like cell migration and adhesion, with some links to thymus development. This suggests proteins involved in immune activation and interactions among immune cells, rather than a single metabolic process.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0043552","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0045087","count":4}]},{"hash":"461764986482712515","title":"Chromatin-regulated developmental transcription","description":"This cluster centers on DNA-templated transcription and chromatin remodeling, with roles across multiple development contexts (endocrine pancreas development, skeletal muscle differentiation, neural crest migration, ureteric bud morphogenesis, osteoblast differentiation). The convergence of transcriptional control and chromatin modification, across diverse organogenesis processes, suggests these proteins broadly regulate developmental programs via chromatin-mediated transcriptional regulation.","confidence":"High","size":15,"edges":66,"triangles":151,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0031018","count":8},{"id":"GO:0035914","count":7},{"id":"GO:0043044","count":6},{"id":"GO:0000122","count":6}]},{"hash":"1451833022844498124","title":"DNA replication and damage response","description":"The cluster\u2019s top GO terms are dominated by DNA replication and DNA damage response processes (DNA unwinding, primer synthesis, overall replication, and SOS response), with additional related activities like DNA topology changes and DNA methylation. A few terms relate to RNA processing (nonsense-mediated decay, spliceosome activity) which may be incidental or reflect broader nuclear functions, but the prevailing signal points to genome maintenance and replication roles.","confidence":"Medium","size":15,"edges":7,"triangles":4,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009432","count":4},{"id":"GO:0006268","count":4},{"id":"GO:0006269","count":4},{"id":"GO:0006306","count":4},{"id":"GO:0006260","count":4}]},{"hash":"2105091245799819223","title":"Unknown","description":"The top terms cover a broad mix of physiological, metabolic, and stress-response processes (e.g., respiratory system process, retinol metabolism, copper ion response, LPS response, blood pressure regulation) and even several obsolete GO terms, with no clear shared function or pathway tying all proteins together. The heterogeneity makes a specific, cohesive label unlikely, so Unknown is most appropriate.","confidence":"","size":15,"edges":87,"triangles":306,"max_degree":13,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0003016","count":6},{"id":"GO:0019518","count":5},{"id":"GO:0042572","count":5},{"id":"GO:0055114","count":5},{"id":"GO:1901159","count":4}]},{"hash":"1043951438341977145","title":"Embryogenesis and Somitogenesis","description":"The top GO terms are dominated by vertebrate embryonic development concepts, notably somite specification, regulation of somitogenesis, primitive streak formation, and related neurodevelopmental and pituitary development terms. While a subset refers to inflammatory responses, those are less represented and do not define the cluster. Therefore, the group appears best described by embryogenesis and somitogenesis programs.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0007568","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0001757","count":4},{"id":"GO:0014807","count":4}]},{"hash":"1971949942636882587","title":"Embryonic organogenesis and tissue morphogenesis","description":"These proteins map to embryonic development across a range of tissues (eye, hindlimb, heart, placenta, habenula, prostate) and morphogenesis processes, with some transcriptional regulation. This suggests a shared role in coordinating organogenesis during development rather than a tissue-specific function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":7},{"id":"GO:0008584","count":6},{"id":"GO:0000122","count":6},{"id":"GO:2000288","count":6},{"id":"GO:0035116","count":6}]},{"hash":"1981522764403428508","title":"Cardio-craniofacial development and cell cycle regulation","description":"The cluster centers on developmental processes such as heart development, cartilage morphogenesis, and palate development, suggesting a coordinated program for cardiac and craniofacial morphogenesis. It also includes cell cycle and centrosome/spindle-related terms, along with transcriptional and chromatin modification activities, indicating coupled gene expression regulation during tissue formation. The xenobiotic response term is present but peripheral. Overall, it points to a developmental gene-regulatory module intertwined with cell division and chromatin dynamics.","confidence":"Medium","size":15,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0007512","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0051225","count":3},{"id":"GO:0000122","count":3}]},{"hash":"376012644288947038","title":"Skeletal muscle development and sarcomere organization","description":"The top GO terms are dominated by skeletal muscle tissue development, skeletal muscle fiber development, and sarcomere organization, pointing to a muscle-differentiation/sarcomere assembly theme for this cluster. A few unrelated terms (B cell receptor signaling, ubiquitin-dependent proteolysis, glucosinolate metabolism) appear incidental and do not override the muscle-focused signal. Therefore, this label best captures the cluster\u2019s core function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0019046","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0048741","count":3}]},{"hash":"375472303017425157","title":"RNA processing and translation regulation","description":"The top GO terms cluster around RNA metabolism and control of translation: mRNA stability and splicing via the spliceosome, regulation of translational initiation and reinitiation, formation of the translation preinitiation complex, and even viral IRES-dependent translation, all pointing to coordinated RNA processing and translation control rather than a single enzymatic function. This cohesive theme supports labeling the group as RNA processing and translation regulation.","confidence":"High","size":15,"edges":80,"triangles":228,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":4},{"id":"GO:0075522","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0075525","count":3}]},{"hash":"1385941932530349184","title":"NF-kappaB-regulated immune development and ECM remodeling","description":"This cluster\u2019s top GO terms cluster around NF-kappaB signaling regulation (canonical pathway) and immune processes (B cell differentiation, macrophage cytokine regulation), along with extracellular matrix disassembly, all pointing to immune and developmental modulation with remodeling of the cellular environment. While there are also cardiac-related regulation terms, they appear as context-specific aspects rather than a primary function, so the dominant theme is NF-kappaB\u2013mediated immune development and matrix remodeling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0098910","count":2},{"id":"GO:0045579","count":2}]},{"hash":"2141463835856655340","title":"DNA replication/repair and antiviral/immune signaling","description":"The cluster is driven by core nuclear processes (DNA-templated transcription, DNA replication, DNA repair) and immune/stress-related terms (innate immune response, negative regulation of viral genome replication, regulation of eIF2\u03b1 phosphorylation, cellular response to nitric oxide), plus hints of proliferation control. While a vascular development term appears, the dominant pattern ties DNA maintenance to immune and stress signaling, justifying this label.","confidence":"Medium","size":15,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0006260","count":4},{"id":"GO:0008285","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0060716","count":3}]},{"hash":"1798047178391106749","title":"Neural development and synaptic plasticity","description":"The proteins are enriched for GO terms related to neural development and function such as long-term synaptic potentiation, axonogenesis, and visual perception, which suggests a neuronal development/plasticity theme. While there are some cell-cycle and non-neural terms in the list (e.g., mitotic cell cycle, heart development, abscisic acid signaling), the strongest, most frequent signals are neural development and synaptic function, pointing to a cluster enriched for neuronal differentiation and synaptic modulation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":4},{"id":"GO:0071456","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0000278","count":3}]},{"hash":"2161221506526721368","title":"mRNA processing and decay regulation","description":"This cluster shows strong enrichment for post-transcriptional RNA processes: mRNA splicing via the spliceosome, regulation of mRNA stability under stress, mRNA catabolic processes, and miRNA-mediated gene silencing. Together these terms point to a cohesive module of proteins involved in RNA maturation, turnover, and regulation of gene expression at the RNA level.","confidence":"High","size":15,"edges":101,"triangles":407,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":9},{"id":"GO:0010610","count":9},{"id":"GO:0090503","count":7},{"id":"GO:0006402","count":6},{"id":"GO:1902416","count":6}]},{"hash":"509735702049833578","title":"Neuronal GPCR signaling and cardiovascular metabolism","description":"This cluster centers on GPCR-mediated signaling (adenylate cyclase-activating pathways, opsin signaling) intertwined with cardiovascular regulation (blood pressure, cardiac muscle contraction) and metabolic/mitochondrial activity (electron transport, thermogenesis). The presence of pain/amphetamine response terms also reinforces a neural signaling theme linked to heart and metabolic aspects, suggesting a cohesive neuro-cardiometabolic signaling cluster.","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0045777","count":13},{"id":"GO:0035025","count":13}]},{"hash":"1318042243829277396","title":"Actin remodeling and dendritic spine morphogenesis in neurons","description":"Top terms indicate actin cytoskeleton dynamics (lamellipodium/ruffle assembly), Rac signaling, and regulation of dendritic spine development, pointing to neuronal actin remodeling and spine formation. The neuronal context is supported by hippocampus development, with additional trafficking-related terms (Golgi to plasma membrane transport) complementing the cytoskeletal theme. Overall, the cluster centers on actin-driven remodeling linked to spine morphogenesis in neurons.","confidence":"High","size":15,"edges":17,"triangles":1,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010592","count":7},{"id":"GO:0010796","count":7},{"id":"GO:0021766","count":6},{"id":"GO:0097178","count":6},{"id":"GO:0045792","count":6}]},{"hash":"2226040331485078137","title":"Neural development and synaptic vesicle trafficking","description":"The cluster is enriched for brain development and neuromuscular process terms, with strong signals for regulation of synaptic vesicle exocytosis and EGFR signaling, pointing to a cohesive function in neural development and synaptic transmission/vesicle dynamics. Additional terms related to lipophagy and secretory pathway regulation suggest broader regulatory roles but do not override the central neural/synaptic theme.","confidence":"Medium","size":15,"edges":70,"triangles":135,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":12},{"id":"GO:0010796","count":12},{"id":"GO:0050885","count":12},{"id":"GO:0031384","count":12},{"id":"GO:2000300","count":12}]},{"hash":"2151076613261995920","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":9,"triangles":7,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":10},{"id":"GO:0000278","count":6},{"id":"GO:0010842","count":6},{"id":"GO:1900242","count":6},{"id":"GO:0097274","count":6}]},{"hash":"165808610315970036","title":"Ribosome biogenesis and translation machinery","description":"The proteins cluster around ribosome biogenesis and translation-related processes, including rRNA maturation, formation of translation preinitiation complex, and translation initiation/reinitiation. While other terms touch on RNA processing and growth signaling (TORC1) or ubiquitination, the dominant theme is ribosome assembly and regulation of protein synthesis, supporting a label focused on ribosome biogenesis and translation. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0000463","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3}]},{"hash":"527717013138555309","title":"Neural development and synaptic signaling","description":"This cluster is dominated by neural-related terms\u2014visual perception, axonogenesis, long-term potentiation, and Schwann cell development\u2014pointing to neural development and synaptic function. Other terms (heart development, cell cycle, ABA signaling) are less central and may reflect broader developmental processes or annotation noise, but the core theme remains neural differentiation and communication.","confidence":"High","size":15,"edges":60,"triangles":141,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":9},{"id":"GO:0000086","count":9},{"id":"GO:0010800","count":9},{"id":"GO:0014044","count":9},{"id":"GO:0007507","count":9}]},{"hash":"579376132576874968","title":"Neuroimmune sensory and inflammatory signaling","description":"The cluster includes GO terms tied to pain perception, temperature response, and thermogenesis, plus astrocyte chemotaxis, dendritic cell differentiation, dopamine signaling regulation, LPS response, and GDNF production. This pattern suggests a cohesive theme of neuroimmune interactions influencing sensory processing and inflammatory signaling, rather than a single isolated pathway.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0071502","count":15},{"id":"GO:0002024","count":15},{"id":"GO:2000458","count":14},{"id":"GO:0014829","count":14}]},{"hash":"489573530951417528","title":"Prostaglandin and leukotriene biosynthesis in inflammation","description":"The top GO terms strongly point to eicosanoid biosynthesis (prostaglandins and leukotrienes) and inflammatory responses (lipopolysaccharide and cytokine responses, chronic inflammation). While other terms like calcium signaling and retinoic acid response appear, the core shared function among the proteins is the production of inflammatory lipid mediators driving inflammatory signaling. This combination supports a focused label around lipid mediator synthesis in inflammation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0014070","count":1},{"id":"GO:0001516","count":1},{"id":"GO:0032496","count":1},{"id":"GO:0034097","count":1}]},{"hash":"1878110989703028283","title":"Nuclear transport and chromatin assembly in development","description":"The cluster includes nuclear processes (NLS-bearing protein import into nucleus and mRNA transport) and DNA replication\u2013dependent chromatin assembly, anchoring the name to nuclear regulation. It also features developmental signals (cranial skeletal system development) and cell migration with GTPase regulation, suggesting a development-focused program that uses nuclear regulation alongside cytoskeletal dynamics.","confidence":"Medium","size":15,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0043065","count":2},{"id":"GO:0006335","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0042176","count":2}]},{"hash":"863964499520836951","title":"Angiogenesis and vascular signaling","description":"The cluster is dominated by GO terms related to angiogenesis, endothelial cell migration, and vascular development (GO:0045766, GO:0001525), with supporting involvement of PI3K and ERK signaling pathways (GO:0014068, GO:0070371) that drive angiogenic processes. Additional vascular-related terms like blood coagulation (GO:0007596) and vascular responses tie into a cohesive vascular/angiogenic theme, even though other terms touch on metabolism or immune defense. Overall, the strongest, most representative signal is angiogenesis and vascular signaling.","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0014068","count":6},{"id":"GO:0045766","count":5},{"id":"GO:0001525","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0071333","count":3}]},{"hash":"1123546807179667446","title":"Macrophage lipid remodeling and inflammatory signaling","description":"The top GO terms cluster around remodeling of phospholipids (PC, PS, PI) and related lipid metabolism, with concurrent signals of inflammatory activity (interleukin-1 production, regulation of macrophage activation, defense against Gram-positive bacteria) and phospholipase regulation. This suggests a cohesive program in macrophages where membrane lipid remodeling drives eicosanoid signaling and antimicrobial responses.","confidence":"High","size":15,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0036151","count":4},{"id":"GO:0032612","count":3},{"id":"GO:0044240","count":3},{"id":"GO:0050482","count":3},{"id":"GO:0043030","count":3}]},{"hash":"874573983719123616","title":"Developmental signaling and cytoskeleton regulation","description":"The cluster centers on developmental processes and signaling pathways that control organ identity and cell behavior, with strong hints of GTPase-mediated signaling, actin cytoskeleton dynamics governed by cell\u2013cell adhesion, and extracellular matrix interactions (heparan sulfate proteoglycan biosynthesis). NLS-mediated nuclear import may reflect trafficking of signaling regulators into the nucleus during development, tying together signaling, adhesion, and cytoskeletal remodeling in organogenesis. ","confidence":"Medium","size":15,"edges":55,"triangles":122,"max_degree":12,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006607","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0048496","count":9},{"id":"GO:0086019","count":8},{"id":"GO:1904793","count":8}]},{"hash":"666264169513762465","title":"Neuronal development and synapse formation","description":"The top GO terms are dominated by neural-related processes: axonogenesis, axonal fasciculation, myelination, and positive/neutral regulation of synapse assembly, pointing to a cluster of proteins involved in neural development and wiring of neurons. There are some broader development terms (otolith morphogenesis, heart development) but they appear less central compared to the neural-related terms, suggesting a primary theme around neuronal growth, axon guidance, and synapse establishment.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032474","count":4},{"id":"GO:0006469","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007409","count":3},{"id":"GO:0042552","count":3}]},{"hash":"1681122356444903508","title":"Lectin-pathway complement activation and phagocytic signaling","description":"Top GO terms point to innate immune recognition and effector functions: lectin pathway\u2013driven complement activation, C-type lectin receptor signaling, Fc-gamma receptor signaling, basophil activation, phagocytosis, and response to fungal origin. While there are some development-related terms in the mix, the strongest and most coherent signal is immune recognition and phagocyte signaling, which justifies a label focused on lectin- and Fc-mediated immune activation.","confidence":"Medium","size":15,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":13},{"id":"GO:0071226","count":12},{"id":"GO:0001502","count":11},{"id":"GO:0038094","count":10},{"id":"GO:0006910","count":10}]},{"hash":"915801575330476735","title":"Unknown","description":"The top GO terms span diverse processes across plants and animals (development, signaling, cell polarity, telomere maintenance, centrosome localization) with no single cohesive function tying all proteins together, so a specific, representative label cannot be determined.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060430","count":2},{"id":"GO:2000012","count":2},{"id":"GO:0045201","count":2},{"id":"GO:1905323","count":2},{"id":"GO:2000299","count":2}]},{"hash":"2201711373975594654","title":"ER stress response and ERAD","description":"The top GO terms point to endoplasmic reticulum\u2013related quality control: unfolded protein response, ER-associated degradation (ERAD), chaperone-assisted protein folding/refolding, and related ER-to-cytosol transport processes. Even with obsolete terms, the shared theme is ER stress management and degradation of misfolded proteins, suggesting a coherent ER quality-control cluster.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903070","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0036494","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0070389","count":2}]},{"hash":"1585357906261551997","title":"Calcium-dependent vesicle exocytosis and fusion","description":"The cluster is enriched for terms tied to Ca2+-triggered exocytosis and membrane fusion, including presynaptic dense core vesicle exocytosis, calcium ion\u2013regulated lysosome exocytosis, and myoblast fusion. Regulators of Rho GTPase signaling (cytoskeletal remodeling) also support fusion events, while other terms like egg activation and apoptotic regulation relate to broader signaling contexts. Overall, the dominant theme centers on calcium-controlled vesicle trafficking and fusion processes.","confidence":"Medium","size":15,"edges":100,"triangles":395,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":10},{"id":"GO:0043087","count":8},{"id":"GO:0007520","count":8},{"id":"GO:0045945","count":7},{"id":"GO:0071236","count":7}]},{"hash":"479114127917080904","title":"ER Glycoprotein Processing and PTMs","description":"This cluster shows a pattern around protein maturation and post-translational modifications, notably glycoprotein processing in the ERAD pathway and C-terminal deglutamylation, with some unrelated terms likely due to annotation noise. The shared theme is protein quality control and modification in the secretory pathway, suggesting this label. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042135","count":3},{"id":"GO:0060992","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0060707","count":2}]},{"hash":"1872747252516733770","title":"Dopaminergic Signaling and Visual Perception","description":"The top GO terms point to dopaminergic synaptic transmission, visual perception/learning, cocaine-related behavioral responses, and GPCR-ERK signaling, with prostaglandin-responsive signaling also represented. This pattern suggests a cluster centered on neuronal signaling and sensory processing, including dopaminergic pathways and related neurobehavioral responses. Some terms like heart development and macrophage chemotaxis may reflect shared signaling pathways or annotation breadth rather than core cluster functions. Overall, the proteins seem to coalesce around neuronal signaling and sensory behavior.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001963","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0010759","count":14},{"id":"GO:0010579","count":14},{"id":"GO:0007507","count":14}]},{"hash":"1233945043421151845","title":"Coagulation and ECM remodeling","description":"The proteins are enriched for blood coagulation, fibrinolysis, ECM disassembly, tissue remodeling, and angiogenesis, indicating a vascular remodeling/coagulation module. A biomineral tissue development term supports ECM turnover; the RNA Pol II transcription regulation term seems peripheral. Overall, the cluster is best described as coagulation-associated extracellular matrix remodeling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030194","count":5},{"id":"GO:0031214","count":5},{"id":"GO:0022617","count":5},{"id":"GO:0045944","count":4},{"id":"GO:0042730","count":4}]},{"hash":"1710522290685425210","title":"Amino acid catabolism and cofactor biogenesis","description":"This cluster is dominated by multiple amino acid catabolic processes (L-alanine, L-kynurenine, glycine, glyoxylate) and also includes terms related to cofactor biosynthesis and biogenesis (pyridoxine biosynthesis, [2Fe-2S] cluster assembly) as well as a mitochondrial tRNA modification. While Notch signaling appears, it is less central compared to the metabolic themes, suggesting a metabolic/cofactor module with a minor signaling signal. ","confidence":"Medium","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007219","count":8},{"id":"GO:0042853","count":8},{"id":"GO:0097053","count":8},{"id":"GO:0009436","count":7},{"id":"GO:0070903","count":7}]},{"hash":"102480643346525116","title":"ECM Adhesion and Mechanotransduction in Skeletal and Vascular Development","description":"Top GO terms emphasize extracellular matrix adhesion, cellular response to mechanical stimulus, skeletal system development, and regulation of angiogenesis, with related processes like blood coagulation. This pattern suggests a cluster of proteins involved in ECM interactions and mechanotransduction that guide skeletal and vascular development, rather than a single linear pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0098869","count":3},{"id":"GO:0019800","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0001501","count":3}]},{"hash":"1078886196491265682","title":"Developmental cell-cycle signaling proteins","description":"The cluster features terms tied to cell division (mitotic cell cycle, spindle pole body duplication, microtubule nucleation), development (multicellular organism development, skin development), and signaling/regulation (positive regulation of serine/threonine kinase activity, protein autophosphorylation, DNA-templated transcription). Together they suggest proteins that coordinate development and cell-cycle progression through signaling and transcriptional control, with a minor connection to neuronal signaling pathways evidenced by long-term synaptic potentiation.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0007020","count":3},{"id":"GO:1903087","count":3}]},{"hash":"1623443954041775526","title":"Lectin and Fc receptor signaling for phagocytosis","description":"The top terms cluster around immune recognition and phagocytic signaling: lectin pathway complement activation, stimulatory C-type lectin receptor signaling, Fc-gamma receptor signaling, phagocytosis recognition, and basophil activation, suggesting a cohesive theme of innate immune activation and phagocytosis. Some development terms are present, but they do not define the core function of this cluster. ","confidence":"Medium","size":15,"edges":19,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":10},{"id":"GO:0002223","count":8},{"id":"GO:0038094","count":7},{"id":"GO:0006910","count":7},{"id":"GO:0045575","count":7}]},{"hash":"1256795578683145938","title":"Small-molecule and lipid metabolism","description":"Top GO terms highlight biosynthesis and catabolism of various small molecules and lipids (antibiotics, alkaloids, biotin, triglycerides, phospholipids) along with a general response to toxic substances. The terms cover several distinct pathways and there are no interactions in the network, so a single precise function is not evident; however, the cluster broadly centers on metabolic processes involving secondary metabolites and lipids.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0009102","count":5},{"id":"GO:0097755","count":4}]},{"hash":"544008821346283624","title":"RNA and Protein Modification Enzymes","description":"Most enriched GO terms point to RNA modification (rRNA modification; tRNA wobble uridine modification) and protein/post-translational modifications (N-terminal peptidyl-alanine trimethylation; peptidyl-arginine hydroxylation). A few terms relate to biosynthesis and growth (ubiquinone biosynthesis; phosphatidylcholine biosynthetic process; cell growth) and xenobiotic/stress responses (cellular response to xenobiotic stimulus; response to cocaine). Overall, the cluster seems to center on enzymes that modify RNA and proteins, with ancillary metabolic and stress-response associations.","confidence":"Medium","size":15,"edges":14,"triangles":4,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":5},{"id":"GO:0042220","count":4},{"id":"GO:0090398","count":3},{"id":"GO:0018012","count":3},{"id":"GO:0006744","count":3}]},{"hash":"1396958133116873194","title":"Cellular stress signaling and cytoskeleton remodeling","description":"Top terms point to cytoskeletal organization, proteostasis, apoptosis-related mitochondrial changes, and diverse stress-responsive signaling (insulin/IGF, integrin, semaphorin-plexin). This suggests a cluster of proteins coordinating stress response with cytoskeletal dynamics and survival pathways.","confidence":"Medium","size":15,"edges":12,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030036","count":4},{"id":"GO:0070842","count":3},{"id":"GO:0008637","count":3},{"id":"GO:0060546","count":3},{"id":"GO:0032869","count":3}]},{"hash":"1837696246826314417","title":"ECM adhesion and remodeling with immune signaling","description":"The top GO terms cluster around cell-matrix adhesion (integrin signaling, calcium-independent adhesion), extracellular matrix organization/remodeling (negative regulation of ECM assembly, hyaluronan metabolism), and cell migration, indicating ECM adhesion/remodeling as the core theme. Immune-related processes (T cell activation) and cartilage morphogenesis provide supportive context, suggesting this cluster centers on ECM interactions in development and immune contexts.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0019079","count":3},{"id":"GO:0007229","count":2},{"id":"GO:0034113","count":2},{"id":"GO:0030212","count":2}]},{"hash":"1168811058619493733","title":"Developmental transcriptional regulation and chromatin modifiers","description":"Based on the GO terms, these proteins cluster around transcriptional control (DNA-templated transcription, Notch signaling regulation) and chromatin state changes (histone demethylation, related modifications), with links to development (vasculogenesis, myoblast differentiation). The mix of regulatory and epigenetic terms suggests a cohesive role in developmental gene regulation, despite some obsolete annotations and the lack of direct protein\u2013protein edges in the cluster.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045746","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0061428","count":5},{"id":"GO:0042265","count":5},{"id":"GO:0036138","count":5}]},{"hash":"97204506938688713","title":"Bone Formation and ECM Remodeling","description":"The strongest signals are intramembranous ossification, bone resorption, and collagen/proteolytic catabolic processes, all pointing to bone development and extracellular matrix remodeling. While some terms pertain to broader tissue remodeling (e.g., decidualization, thyroid hormone response, immune activity), the dominant theme centers on skeletal formation and matrix turnover.","confidence":"Medium","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0001957","count":11},{"id":"GO:2000179","count":11},{"id":"GO:0060448","count":11},{"id":"GO:0051603","count":11},{"id":"GO:0097067","count":11}]},{"hash":"309499081941358002","title":"Unknown","description":"GO terms are highly diverse, spanning TORC1 signaling, transcription, mRNA transport, and several tissue- and development-specific processes (sperm axoneme assembly, lens differentiation, hearing-related detection). There is no clear shared function across all terms, so a single coherent label cannot be assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1131646721934996222","title":"Immune response and apoptotic regulation","description":"Based on GO terms emphasizing innate and antiviral defense, TNF signaling, regulation of the JNK cascade, and apoptotic regulation, the proteins appear to cluster around immune signaling and cell fate control, with ubiquitin-mediated proteolysis linking these processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0045087","count":6},{"id":"GO:0051607","count":5},{"id":"GO:0033209","count":4},{"id":"GO:0090073","count":4}]},{"hash":"1139694162244935209","title":"Rho/Ras GTPase signaling and cell migration","description":"The top GO terms point to small GTPase\u2013mediated signal transduction, activation of GTPase activity, and regulation of Ras/Rho pathways, all of which tie to cytoskeletal remodeling and cell movement. Supporting terms like filopodium assembly and cell migration reinforce a focus on actin dynamics and motility. Some immune-related terms appear but are less representative of the main theme. Overall, the cluster seems centered on GTPase-driven signaling that governs cytoskeletal changes and migration.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0001865","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1676745645535043311","title":"Embryonic Development and Tissue Differentiation","description":"The terms cluster around embryogenesis, patterning, and organ/tissue formation\u2014cartilage morphogenesis, left-right patterning, placental and endocrine development, trophoblast and endocardial EMT, and extracellular matrix biosynthesis\u2014indicating a cohesive theme of developmental differentiation across tissues. The plant cytokinin pathway term appears as an outlier; overall, the set points to vertebrate development rather than a single specialized pathway. The lack of network edges may simply reflect dispersed components of this broad developmental program.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009736","count":2},{"id":"GO:0060536","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0035270","count":1}]},{"hash":"126361661414937472","title":"Unknown","description":"The top GO terms cover mitochondrial fission, sensory perception of sound, GPCR signaling, protein tetramerization, regulation of cyclin-dependent kinase activity, vacuole fusion, glycogen metabolism regulation, calcium signaling, and macroautophagy regulation. They do not reveal a single cohesive function or theme for the entire cluster, suggesting diverse or noisy annotations rather than a common biological role; thus I cannot assign a specific, representative label beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000266","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0000079","count":1}]},{"hash":"272265039073872890","title":"Membrane Ion Transport and Vesicle Loading","description":"This cluster is enriched for transmembrane transport terms across various ions (sodium, potassium, phosphate, nitrate, nitrite) and a term related to neurotransmitter loading into synaptic vesicles, suggesting a membrane transport/regulation theme. The presence of a protein ubiquitination term and some sugar metabolism terms may reflect regulatory or metabolic contexts surrounding transport proteins rather than implying a single, unified function. Overall, the dominant signal is membrane transport with vesicle involvement.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0015757","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0035725","count":2}]},{"hash":"301436722975620597","title":"Chromatin remodeling and rRNA transcription regulation","description":"These proteins cluster around chromatin dynamics: rDNA heterochromatin formation, transcription initiation-coupled chromatin remodeling, DNA replication\u2013dependent chromatin assembly, and nucleus organization, including regulation of RNA Pol I\u2013driven rRNA transcription. The dominant GO terms point to chromatin structure and nucleolar transcription control, suggesting a cohesive role in nuclear chromatin regulation. Some terms related to growth or cell migration are peripheral to the main theme but do not override the chromatin-centric pattern.","confidence":"High","size":14,"edges":63,"triangles":158,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":12},{"id":"GO:1904815","count":11},{"id":"GO:0045815","count":11},{"id":"GO:1901837","count":11},{"id":"GO:0035264","count":11}]},{"hash":"1486320734882036539","title":"Spermatogenesis and male gonad development","description":"The top GO terms are dominated by male gonad development and spermatogenesis, suggesting proteins cluster around male reproductive/germ cell development. Some additional terms (retina development, apoptosis regulation) may reflect broader annotations or multifunctional proteins, but the core theme is germ cell formation and testis development.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":3},{"id":"GO:0007283","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0043154","count":3},{"id":"GO:0033689","count":3}]},{"hash":"1314990059364269760","title":"Developmental differentiation and signaling pathways","description":"This cluster centers on terms related to organ and tissue development\u2014particularly heart structures (right ventricle, sinoatrial node), muscle and pancreas cell fate\u2014along with broader differentiation processes like pigmentation and inner ear development, and regulatory signaling such as Notch and circadian gene expression. Together, these indicate a theme of developmental differentiation governed by signaling pathways.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0003219","count":12},{"id":"GO:0043433","count":12},{"id":"GO:0043473","count":12},{"id":"GO:0032922","count":12},{"id":"GO:0060921","count":12}]},{"hash":"936941528814624685","title":"Developmental Transcription Regulation","description":"The cluster centers on transcriptional control (positive/negative regulation of RNA polymerase II and miRNA transcription) with broad developmental roles across tissues (neural, pancreas, primitive streak) and immune lineage differentiation (macrophage and dendritic cells), suggesting proteins involved in regulating gene expression during development rather than a single pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":4},{"id":"GO:0030194","count":4},{"id":"GO:0031017","count":4},{"id":"GO:0045944","count":4}]},{"hash":"1848821120485679139","title":"Organogenesis and Tissue Development","description":"The top GO terms point to development and morphogenesis across several organ systems: heart (ventricular morphogenesis, cardiac muscle proliferation), circulatory/vascular development, skeletal muscle and ureter development, neuron migration, oocyte growth, and establishment of cell polarity, plus wound healing. This suggests the cluster comprises proteins involved in general organogenesis and tissue development across multiple lineages rather than a single tissue-specific pathway.","confidence":"Medium","size":14,"edges":70,"triangles":186,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055010","count":14},{"id":"GO:0014822","count":13},{"id":"GO:0072189","count":13},{"id":"GO:0002074","count":13},{"id":"GO:0072358","count":13}]},{"hash":"1066038130630683292","title":"Wnt-regulated tissue differentiation","description":"Top GO terms indicate a shared role in developmental differentiation, centered on negative regulation of canonical Wnt signaling, with multiple tissues represented (endoderm, skeletal muscle, cardiac muscle, trachea cartilage, cornea). This suggests the cluster reflects Wnt-modulated differentiation programs across several lineages, with a few terms related to immune signaling (interferon-beta and Fas) that may be context-dependent. ","confidence":"High","size":14,"edges":57,"triangles":118,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0090090","count":2},{"id":"GO:0035987","count":2},{"id":"GO:0032072","count":1},{"id":"GO:0032728","count":1},{"id":"GO:0060534","count":1}]},{"hash":"2176010804352530254","title":"Ubiquitin-regulated immune signaling and cell activation","description":"The top GO terms cluster around ubiquitin-related processes (deubiquitination, ERAD) alongside innate antiviral defenses (defense and innate immune responses, viral release) and signaling/cell-activation pathways (platelet activation, axon guidance, calcium release, GTPase activity). This suggests a module where ubiquitin-mediated regulation controls immune signaling as well as broader cellular activation and cytoskeletal dynamics.","confidence":"Medium","size":14,"edges":10,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":2},{"id":"GO:0042981","count":2},{"id":"GO:0030168","count":2},{"id":"GO:0048846","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1401324991487781395","title":"Metanephric tubule morphogenesis signaling","description":"These proteins are enriched for GO terms related to metanephric kidney development, especially proximal and distal tubule morphogenesis, suggesting a role in tubule formation. Supporting cues come from Rho signaling and cellular responses to mechanical stimuli, which are common in morphogenetic processes and cytoskeletal remodeling. Some terms appear as background or cross-species annotations, but the core theme centers on kidney tubule morphogenesis and its signaling context.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072237","count":3},{"id":"GO:0036303","count":3},{"id":"GO:0072287","count":3},{"id":"GO:0071226","count":3},{"id":"GO:0035023","count":3}]},{"hash":"945476819459291889","title":"Nematode Embryogenesis and Molting","description":"This cluster centers on nematode development and reproductive processes, with GO terms pointing to embryonic axis specification, early development, proteolysis during morphogenesis, and the molting cycle involving the cuticle. While a couple terms (like fin morphogenesis and cadmium response) are less specific, the dominant themes are nematode embryogenesis, reproduction, and cuticle-related development, suggesting a cohesive developmental/molting program.","confidence":"Medium","size":14,"edges":16,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043050","count":2},{"id":"GO:0007313","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0048632","count":2},{"id":"GO:0060468","count":2}]},{"hash":"1401494756988102300","title":"Rho GTPase signaling and transcription regulation","description":"Based on the top GO terms, the cluster is enriched for processes regulating GTPase activity and Rho signaling, plus DNA-templated transcription; these point to proteins involved in cell signaling and transcription control. A few terms relate to development (spinal cord, forebrain, skeletal system), but the dominant themes are signaling via Rho GTPases and transcriptional regulation. Immune defense and translation initiation terms appear as peripheral associations rather than core features. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0021510","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0001731","count":2}]},{"hash":"1975001345052636829","title":"Epithelial cell migration and polarity signaling","description":"These proteins cluster around processes governing cell movement and the establishment of epithelial polarity. The top terms point to cell migration; epithelial cell polarity; actin filament bundle assembly; and signaling events such as EGFR and TGF-beta pathways, which regulate cytoskeletal dynamics via Rho-family GTPases and tyrosine phosphorylation. The presence of mechanosensing and ubiquitination terms further supports coordinated regulation of adhesion, cytoskeleton, and signal transduction during motile, polarized epithelial states. Overall, the cluster appears to represent a module of cytoskeletal remodeling and signaling that drives epithelial cell migration and polarity.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0090162","count":3},{"id":"GO:0051017","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0071560","count":3}]},{"hash":"269330336380665870","title":"RNA Transcription and Translation Initiation","description":"The top GO terms cluster around core gene expression processes: transcription initiation and termination, rRNA processing, and translation initiation, indicating proteins involved in the transcription-translation machinery. A few metabolic/regulatory terms appear as outliers, but the dominant signal is gene expression control. ","confidence":"High","size":14,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006367","count":2},{"id":"GO:0006413","count":2},{"id":"GO:0006364","count":1},{"id":"GO:0006353","count":1}]},{"hash":"1152605716242675588","title":"Ubiquitin-Dependent Proteolysis and Stress Response","description":"The top GO terms point to ubiquitin-mediated protein degradation (including ubiquitin-dependent catabolism, polyubiquitination, SCF-dependent degradation, and K11-linked ubiquitination) along with stress-related signals (cadmium response and unfolded protein response). While there are additional hints of translation initiation and innate immunity, the dominant theme is proteostasis managed by the ubiquitin-proteasome system under cellular stress.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071276","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0070979","count":5},{"id":"GO:0090526","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1410722666829225922","title":"Bacterial Cell Envelope Biosynthesis and Antibiotic Response","description":"This cluster shows strong representation of envelope-related biosynthesis (lipoteichoic acid, lipopolysaccharide, cell wall organization) along with antibiotic biosynthesis and response, plus membrane-associated metabolic processes (menaquinone) and related cellular activities, pointing to proteins involved in envelope assembly and antibiotic interactions.","confidence":"High","size":14,"edges":25,"triangles":36,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0070395","count":2}]},{"hash":"1302702337603561533","title":"Signaling and secretion across tissues","description":"This cluster is enriched for GO terms centered on cellular signaling and secretion, including GPCR signaling, B cell receptor signaling, insulin and neurotransmitter secretion, and dense core granule maturation. These shared functions point to a general theme of signaling cascades governing secretion across different cell types, with eye development and locomotion terms reflecting broader neurodevelopmental and behavioral contexts tied to signaling networks.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":2},{"id":"GO:1900477","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0045725","count":2},{"id":"GO:0030948","count":2}]},{"hash":"1655054330532663694","title":"TGF-beta signaling regulation","description":"Most terms point to regulation and signaling in the TGF-\u03b2/SMAD axis (cellular response to TGF-\u03b2, TGF-\u03b2 receptor signaling, SMAD complex assembly), with additional support from related signaling cross-talk (NF-\u03baB). Nuclear export and vesicle trafficking terms suggest modulation of signaling components' localization. A few terms (DNA replication, photosystem stoichiometry) seem less connected and may reflect broader roles or annotation noise, but the dominant pattern supports a TGF-\u03b2 signaling regulation role.","confidence":"Medium","size":14,"edges":33,"triangles":25,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0046827","count":9},{"id":"GO:0006260","count":6},{"id":"GO:0010991","count":6},{"id":"GO:0035970","count":6},{"id":"GO:0000173","count":6}]},{"hash":"755759537171825282","title":"RNA Processing and TOR Signaling","description":"The top terms cluster around RNA processing (splicing, methylation, transport) and transcription, plus TORC1 signaling and cell division cues, suggesting a group of proteins coordinating gene expression with growth signaling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0038202","count":4},{"id":"GO:0036265","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0070262","count":4}]},{"hash":"1160012510283644304","title":"Embryonic Development and Eye Differentiation","description":"The top GO terms cluster around early development (brain development, gastrulation) and tissue differentiation (lens fiber cell differentiation, pigmentation), suggesting a role in embryogenesis and ectoderm-derived tissue formation. Additional terms for ribosomal assembly, GTPase regulation, and ubiquitin-mediated proteolysis point to coordinated control of protein synthesis, signaling, and turnover during development. Overall, the cluster seems centered on developmental programs with emphasis on eye-related tissues and morphogenesis.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0036265","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0000027","count":3},{"id":"GO:0016049","count":2}]},{"hash":"596968520707990561","title":"Translation initiation and preinitiation complex","description":"The two strongest terms are translation reinitiation and formation of translation preinitiation complex, which directly point to initiation of protein synthesis. Other terms are diverse and do not form a cohesive theme, but the dominant signal is initiation of translation, so the cluster is best described as focused on translation initiation machinery.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0032781","count":2}]},{"hash":"2188105166827518297","title":"Exocytosis and vesicle trafficking","description":"The terms point to membrane trafficking and exocytic processes, notably calcium-regulated lysosome exocytosis and presynaptic dense core vesicle exocytosis, along with related intracellular transport and membrane repair activities. Some terms are more divergent (transcription regulation, egg activation, apoptosis), but the dominant signal is vesicle dynamics centered on secretion and membrane handling.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045945","count":1},{"id":"GO:0071236","count":1},{"id":"GO:0007343","count":1},{"id":"GO:1990927","count":1},{"id":"GO:0016540","count":1}]},{"hash":"653533822285122603","title":"Skeletal development and ECM biosynthesis","description":"This cluster is anchored by GO terms tied to bone formation (intramembranous ossification), extracellular matrix (heparin proteoglycan and chondroitin sulfate biosynthesis), and development-related processes (multicellular organism development, cell differentiation) as well as responses to mechanical stimuli, all of which point to skeletal tissue remodeling and ECM construction. Some terms like luteolysis and bile acid catabolism are less related and may reflect broader metabolic context or noise, but the core signal aligns with bone development and ECM biosynthesis.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001957","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0001554","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0007275","count":2}]},{"hash":"2015751580329273596","title":"Mitochondrial Translation & ER Organization","description":"The top GO terms cluster around mitochondrial protein synthesis (mitochondrial translation and glutaminyl-tRNAGln transamidation) and mitochondrial distribution, plus endoplasmic reticulum organization, suggesting a theme of mitochondrial translation machinery and organelle dynamics/ER-mitochondria interactions. Some terms are peripheral or broad (e.g., ureter development, glucocorticoid signaling), but the core signals point to mitochondria-centric processes. ","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":5},{"id":"GO:0070681","count":4},{"id":"GO:0007029","count":4},{"id":"GO:0009062","count":4},{"id":"GO:0019876","count":4}]},{"hash":"1775769547458090235","title":"Neuroimmune and Dopaminergic Signaling","description":"The cluster mixes neural sensory processes (pain perception, temperature response, thermogenesis) with glial involvement (astrocyte chemotaxis, GDNF production) and immune/dopaminergic regulation (LPS response, dendritic cell differentiation, prepulse inhibition, and dopamine receptor signaling), suggesting a coherent theme of neuroimmune interactions modulating dopaminergic circuits and sensorimotor gating.","confidence":"Medium","size":14,"edges":63,"triangles":116,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0071502","count":13},{"id":"GO:0002024","count":13},{"id":"GO:2000458","count":12},{"id":"GO:0014829","count":12}]},{"hash":"756792714924497419","title":"Glycan Metabolism and Cell Signaling","description":"The strongest common thread is carbohydrate/glycan metabolism and catabolic processes (galactose, fucose, keratan sulfate proteoglycan, glycosphingolipid, and general glycoside catabolic processes). This points to a core theme of glycan remodeling/degradation. Some terms extend to cell-surface interactions and signaling, including regulation of entry of bacteria into host cells, T cell costimulation, and glutamatergic synaptic transmission, suggesting the proteins may participate in glycan-mediated signaling that links immune and neuronal contexts. However, the cluster appears metabolically focused with broader potential roles, so a cohesive but not exclusively defined function is indicated. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035641","count":2},{"id":"GO:0031295","count":2},{"id":"GO:2000535","count":2},{"id":"GO:0016139","count":2},{"id":"GO:0006004","count":2}]},{"hash":"246049215957333755","title":"Axon guidance and cranial nerve development","description":"The top GO terms cluster around neuronal pathfinding and cranial nerve development, including axon extension and guidance (commissural neurons, trigeminal ganglion, facial nerve organization), otic placode development, and semaphorin-plexin signaling. VEGF receptor signaling and coronary morphogenesis appear as additional signals but the dominant pattern points to neural crest/cranial nerve development and axon guidance. Medium","confidence":"","size":14,"edges":74,"triangles":203,"max_degree":13,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0060982","count":14},{"id":"GO:0048842","count":14},{"id":"GO:0021828","count":13},{"id":"GO:0071679","count":13},{"id":"GO:0048010","count":13}]},{"hash":"1424315992408518608","title":"Immune and Developmental Signaling","description":"The cluster shows enrichment in multiple signaling and regulatory processes: NOD1 signaling, IL-12 production regulation, and Wnt signaling point to innate immune and developmental signaling; alongside apoptosis, cell cycle, and epithelial polarity components, suggesting a broader regulatory module coordinating immune responses, cell fate, and tissue organization.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0033028","count":3},{"id":"GO:0090162","count":3},{"id":"GO:2000171","count":3}]},{"hash":"1625255549569679663","title":"RNA Modification and Cofactor Biosynthesis","description":"The cluster shows enrichment in RNA-related processes (rRNA base methylation, tRNA queuosine biosynthesis) alongside multiple biosynthetic pathways for essential cofactors (lipoate, thiamine, protoporphyrinogen/heme precursors, and related modifications). The presence of translation as a top term supports a link to ribosome-associated biology, suggesting these proteins participate in RNA modification and small-molecule cofactor biosynthesis.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006782","count":1},{"id":"GO:0042426","count":1},{"id":"GO:0019475","count":1},{"id":"GO:0009228","count":1}]},{"hash":"1995630625090062938","title":"Neural-immune and glial signaling","description":"The top GO terms point to neural signaling processes (adenylyl cyclase-activating GPCR signaling, dopamine receptor regulation, prepulse inhibition) and glial involvement (astrocyte chemotaxis regulation, glial-derived neurotrophic factor production), complemented by immune and vascular roles (lipopolysaccharide response, dendritic cell differentiation, vascular smooth muscle contraction, blood pressure regulation). This pattern suggests a cluster centered on CNS/neural signaling with glial and immune interactions and some vascular regulation, rather than a single purely metabolic function. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":13},{"id":"GO:0045777","count":13},{"id":"GO:0010579","count":13},{"id":"GO:2000458","count":12},{"id":"GO:0014829","count":12}]},{"hash":"308090312792621832","title":"Developmental signaling and vesicle trafficking","description":"The cluster\u2019s top GO terms point to multiple signaling pathways (GPCR, Wnt, NOD2) and processes linked to vesicle secretion (neurotransmitter secretion, exocytosis), alongside developmental events like metanephric collecting duct development and branching morphogenesis of blood vessels. While cell cycle and spindle assembly appear, the dominant theme seems to be signaling integrated with secretion during development, rather than a single narrow function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0072205","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0001569","count":3},{"id":"GO:0042994","count":3}]},{"hash":"2222063623608215611","title":"Antiviral dsRNA sensing and interferon signaling","description":"The cluster shows strong representation of innate immune terms, including innate immune response, response to exogenous dsRNA, and positive regulation of interferon-beta production, along with xenophagy regulation and PI3K/AKT signaling, suggesting a cohesive antiviral/dsRNA sensing theme despite some transcription-related terms.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0046827","count":3},{"id":"GO:0046626","count":3},{"id":"GO:0000902","count":3}]},{"hash":"54330118373138588","title":"Axon guidance and synapse formation","description":"Several GO terms point to neural connectivity and development, including axonal fasciculation, corpus callosum development, neuromuscular junction development, and positive regulation of synapse assembly. While a couple of terms touch on translation and chromatin localization, the dominant theme is guidance and assembly of neural connections, justifying a label focused on axon guidance and synapse formation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060157","count":2},{"id":"GO:0051770","count":2},{"id":"GO:0007528","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0006412","count":2}]},{"hash":"2016696912189912449","title":"Cytoskeleton remodeling and epithelial differentiation","description":"The cluster\u2019s GO terms cluster around cytoskeletal dynamics (Rho signaling, stress fiber regulation), cell adhesion (integrin-mediated), and epithelial differentiation processes (lens fiber, brush border), suggesting proteins that participate in cytoskeleton remodeling coupled with epithelial tissue specialization. Some terms also touch on neuron-related plasticity and ubiquitin turnover, but the shared theme appears to center on structural cell organization and adhesion in differentiated epithelia.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0070306","count":3},{"id":"GO:2000060","count":3},{"id":"GO:0001845","count":3}]},{"hash":"1094032792588066942","title":"Nuclear transport and chromatin assembly","description":"This cluster shows a clear tilt toward nuclear processes: nuclear pore complex assembly, ribosomal protein import into the nucleus, and DNA replication-dependent chromatin assembly, along with transcription regulation by RNA polymerase III. Although there are some signaling-related terms (kinase and GTPase regulation) and endothelial proliferation signals, the dominant theme is nuclear transport and chromatin organization.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0070262","count":2},{"id":"GO:0045945","count":2},{"id":"GO:0006335","count":2},{"id":"GO:0071230","count":2}]},{"hash":"2202752669242500490","title":"mRNA processing and translation regulation","description":"Top GO terms cluster around regulation of RNA splicing via the spliceosome and components of translation initiation and reinitiation, indicating a cohesive theme of controlling gene expression at RNA processing and translation stages. Some viral-host interaction terms appear, but the core signal points to RNA metabolism and translation control.","confidence":"Medium","size":13,"edges":34,"triangles":20,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":6},{"id":"GO:0048026","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0048025","count":4},{"id":"GO:0002188","count":4}]},{"hash":"169031881270626131","title":"Eye and neural development","description":"Most top GO terms cluster around eye development (camera-type eye, retina morphogenesis, embryonic eye development) and neural differentiation/fate specification (neuroblast differentiation, subpallium neuron fate, oligodendrocyte fate), indicating proteins involved in ocular and brain development; some terms (osteoblast development, respiratory regulation) may reflect broader tissue expression or pleiotropy.","confidence":"High","size":13,"edges":76,"triangles":265,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0002087","count":8},{"id":"GO:0002076","count":8},{"id":"GO:0060041","count":8},{"id":"GO:0006366","count":7},{"id":"GO:0060441","count":6}]},{"hash":"1248421007605107575","title":"Ubiquitin-Dependent ERAD and Peroxisomal Import","description":"The top GO terms cluster around ubiquitination biology\u2014K6-, K11-, and K48-linked ubiquitination, autoubiquitination, ubiquitin chain formation\u2014together with processes like ubiquitin-dependent ERAD and protein import into the peroxisome matrix. This suggests a cohesive group of proteins involved in ubiquitin signaling for protein quality control in the ER and for peroxisomal targeting, with some broader links to cell cycle and development. Medium","confidence":"","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0085020","count":7},{"id":"GO:0030433","count":6},{"id":"GO:0016558","count":6},{"id":"GO:0070936","count":6},{"id":"GO:0051865","count":6}]},{"hash":"1607618987234071696","title":"mRNA Splicing and Translation Initiation","description":"This cluster is driven by terms related to spliceosome-mediated mRNA splicing (including alternative splicing and positive regulation of splicing) and to translation initiation/reinitiation (including preinitiation complex formation and IRES-dependent initiation), indicating a cohesive theme of RNA processing and translation control; developmental terms like brain development and blastocyst formation appear contextually but do not define the core function. ","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0007420","count":3},{"id":"GO:0006376","count":3},{"id":"GO:0045292","count":3}]},{"hash":"1789204937621866720","title":"RNA processing and translation initiation","description":"This cluster is dominated by terms related to translation initiation and ribosome assembly (translation reinitiation, preinitiation complex formation, IRES-dependent initiation, regulation of translational initiation, small-subunit processome assembly) and also includes several RNA processing/splicing terms (mRNA modification, spliceosome regulation, alternative splicing, mRNA stabilization). Together, these indicate a cohesive RNA-centric theme centered on mRNA maturation and its translation.","confidence":"Medium","size":13,"edges":67,"triangles":187,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0001825","count":7},{"id":"GO:0016556","count":7},{"id":"GO:0075522","count":7}]},{"hash":"545477009912674940","title":"Ribosome biogenesis and translation","description":"This cluster centers on translation and ribosome biogenesis: GO terms such as translation (GO:0006412), ribosomal large subunit assembly (GO:0000027), ribosomal large subunit biogenesis (GO:0042273), and assembly of large subunit precursor of preribosome (GO:1902626) indicate a coherent theme around ribosome production and protein synthesis. While there are additional terms related to mitotic exit and retina development, they are less represented and likely reflect secondary annotations rather than the main function of the cluster.","confidence":"High","size":13,"edges":73,"triangles":235,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0000027","count":3},{"id":"GO:0010458","count":2},{"id":"GO:0007093","count":2},{"id":"GO:0032781","count":2}]},{"hash":"2221837664211182116","title":"Diverse Signaling, Trafficking, and Immune Response","description":"The proteins show a collage of GO terms ranging from cellular responses to various stimuli (e.g., interleukin-1, defense against fungus, response to ether) to protein transport between the Golgi and plasma membrane, and even developmental signals (hippocampus development). With no edges or cohesive pathway, this cluster seems to be a heterogeneous collection involved in general signaling, trafficking, and immune-related responses rather than a single, well-defined function. ","confidence":"Low","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000249","count":3},{"id":"GO:0014823","count":2},{"id":"GO:0014070","count":2},{"id":"GO:0045862","count":2},{"id":"GO:0021766","count":2}]},{"hash":"2253011651728651610","title":"Transcription Regulation and Chromatin Remodeling","description":"The top GO terms cluster around transcription control and chromatin state, including DNA-templated transcription, nucleosome disassembly, and histone modification. While there are development- and signaling-related terms present, the common thread is gene expression regulation via chromatin dynamics, suggesting these proteins function in transcriptional regulation with chromatin remodeling contexts.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0060765","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0000132","count":2},{"id":"GO:1903758","count":2}]},{"hash":"2030990643019483110","title":"Nuclear Stress Response and Chromatin Regulation","description":"The cluster features GO terms tied to nutrient- and amino-acid\u2013related stress responses (glucose starvation, cellular response to amino acid stimulus) alongside nuclear processes such as DNA replication-dependent chromatin assembly, nuclear pore complex assembly, and transcription regulation by RNA polymerase III, plus modulation of protein desumoylation and serine dephosphorylation. Although a couple of terms are clear outliers (lipopolysaccharide biosynthesis, endothelial proliferation), the predominant themes center on nuclear regulation and chromatin dynamics under stress.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":3},{"id":"GO:0009103","count":2},{"id":"GO:0006535","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0045945","count":2}]},{"hash":"1286662956824737466","title":"Mitosis and ER-Golgi trafficking","description":"The top terms cluster around mitotic processes (spindle orientation, cell division, mitochondrial inheritance) and vesicle transport between the endoplasmic reticulum and Golgi (ER to Golgi and Golgi to ER), with ubiquitin-related activity also appearing. This suggests a shared theme of cell division coupled with intracellular cargo handling and protein turnover, rather than a single precise pathway. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0000132","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0007339","count":3},{"id":"GO:0000209","count":2}]},{"hash":"1725701674343569553","title":"Transcription and DNA metabolism in cell cycle","description":"The top GO terms point to DNA-templated transcription and several cell-cycle\u2013related DNA processes (G2/M regulation, mitotic DNA replication checkpoint, DNA recombination) as strongest signals, with supporting links to chromatin remodeling (histone catabolic process). Some terms (viral process, Purkinje cell migration) seem incidental noise, but the core theme is transcriptional control coupled with DNA metabolism during the cell cycle.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0010971","count":2},{"id":"GO:0071733","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0033314","count":2}]},{"hash":"704869796115617390","title":"RNA Splicing, Export, and Translation Regulation","description":"This cluster is enriched for processes related to RNA processing and post-transcriptional control: mRNA splicing via spliceosome, mRNA export from the nucleus, ribosomal subunit export, and regulation of translational initiation, along with ncRNA- and miRNA-mediated gene silencing. The convergence of spliceosome-mediated splicing, nuclear export, and translational control suggests a cohesive module coordinating RNA maturation and gene expression at multiple levels. Confidence: High","confidence":"","size":13,"edges":15,"triangles":10,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0000055","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0035278","count":3}]},{"hash":"975330001703367230","title":"Membrane solute transporters","description":"The proteins show a convergence on transmembrane transport of diverse solutes (sugars, vitamins, nitrate, selenite, urate, neurochemical loading into vesicles, etc.), indicating a unit of membrane transporter activity rather than a single substrate pathway. This supports labeling the cluster as membrane solute transporters.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":4},{"id":"GO:0097080","count":4},{"id":"GO:0015771","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0098700","count":4}]},{"hash":"1895752800146847379","title":"Mitotic and neural development signaling","description":"This cluster's top GO terms span both cell cycle regulation (mitotic cell cycle, G2/M transition) and neural development/synaptic function (axonogenesis, long-term synaptic potentiation, visual perception, excitatory postsynaptic potential), with an additional heart development term and an ABA-signaling term that may reflect broad developmental signaling or cross-species annotation. Together, they suggest proteins involved in general developmental signaling that can influence both proliferation and neural connectivity rather than a single pathway.","confidence":"Medium","size":13,"edges":34,"triangles":45,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":13},{"id":"GO:0000086","count":12},{"id":"GO:0043065","count":12},{"id":"GO:0060291","count":12},{"id":"GO:0007507","count":12}]},{"hash":"970643323947571354","title":"Beta-lactam Antibiotic Catabolism and Response","description":"This cluster shows enrichment for GO terms tied to beta-lactamase activity regulation, beta-lactam antibiotic catabolic processes, and general antibiotic response, suggesting a functional grouping around processing or resisting beta-lactam antibiotics. Additional terms like NOD1 signaling, IL-12 regulation, and neuronal differentiation appear but are less representative of the core theme. Overall, the dominant signals revolve around antibiotic handling and degradation pathways.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033252","count":4},{"id":"GO:0019876","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0030655","count":4},{"id":"GO:0007205","count":3}]},{"hash":"2284177534090196238","title":"Membrane Transporters","description":"This cluster is dominated by diverse transmembrane transport GO terms (vitamins, xenobiotics, potassium and other ions, sugars, nitrate, selenite, trehalose) and neurotransmitter loading into synaptic vesicles, indicating a group of proteins whose primary function is membrane transport across varied substrates.","confidence":"High","size":13,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":13},{"id":"GO:0006855","count":13},{"id":"GO:0071805","count":12},{"id":"GO:0042908","count":12},{"id":"GO:1904659","count":11}]},{"hash":"2237909992553398791","title":"Metal Ion Transport and Calcium Homeostasis","description":"Reasoning: Several top GO terms indicate transport of metal ions (cadmium, copper, zinc) across membranes and maintenance of intracellular calcium levels, pointing to a core theme of metal ion transport and calcium homeostasis. Other terms touch on biosynthetic and metabolic processes and regulatory responses, which may reflect multifunctionality or annotation noise. The dense connectivity supports a cohesive module centered on ions and transport.","confidence":"Medium","size":13,"edges":57,"triangles":148,"max_degree":11,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006564","count":5},{"id":"GO:0046839","count":5},{"id":"GO:0070574","count":5},{"id":"GO:0019373","count":5},{"id":"GO:0097755","count":5}]},{"hash":"433596809044625043","title":"Retroviral life cycle and proviral latency","description":"The top GO terms cluster around key retroviral processes: entry into host cells and nuclei, reverse transcription (RNA-templated DNA biosynthesis), DNA recombination and integration, and establishment of proviral latency, culminating in DNA replication. This collection strongly points to the retroviral lifecycle and genome integration into the host, with additional terms reflecting host-pathogen interaction via cellular machinery like N-linked glycosylation. Overall, the cluster is best described as retroviral replication and latency.","confidence":"High","size":13,"edges":20,"triangles":6,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006487","count":3},{"id":"GO:0075732","count":3},{"id":"GO:1903704","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0006260","count":3}]},{"hash":"2152639782597089540","title":"Bacterial Central Metabolism and Biosynthesis","description":"The proteins are strongly associated with core metabolic processes (TCA cycle, 2-oxoglutarate and serine biosynthesis) and diverse biosynthetic routes (menaquinone, phylloquinone, fatty acids, LPS, antibiotics), suggesting a cohesive bacterial metabolism and biosynthesis cluster rather than a single pathway.","confidence":"High","size":13,"edges":75,"triangles":256,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006564","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0019700","count":3},{"id":"GO:0006103","count":3},{"id":"GO:0010124","count":2}]},{"hash":"1596584555955579989","title":"Vascular remodeling and proteolysis","description":"This cluster centers on tissue remodeling and proteolytic processes (proteolysis, plasminogen activation, fibrinolysis) with concurrent endothelial barrier regulation and angiogenesis. Immune-related terms (response to lipopolysaccharide, complement activation) suggest inflammatory signaling within the vascular context, tying together remodeling, proteolysis, and vascular and immune functions. The transcription regulation term is less central, but may be incidental to broader regulatory roles. Overall, the set points to coordinated vascular remodeling with proteolysis and innate immune involvement.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0048771","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0031639","count":2}]},{"hash":"108416603468534195","title":"RNA and Protein Modification Cluster","description":"The top GO terms are dominated by RNA modification (tRNA wobble uridine, rRNA) and various post-translational modifications (N-terminal trimethylation, arginine hydroxylation), indicating a shared focus on molecular modifications to both RNA and proteins. Additional terms related to ubiquitin and lipid biosynthesis, xenobiotic response, and senescence appear peripheral to the core theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002098","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0090398","count":5},{"id":"GO:0018012","count":5},{"id":"GO:0006744","count":5}]},{"hash":"1435177287675250949","title":"Organelle gene expression and ribosome assembly (mitochondria, plastids)","description":"This cluster centers on mitochondrial transcription and ribosome assembly, plus plastid rRNA transcription and chloroplast organization, suggesting a cohesive theme of organelle gene expression and ribosome biogenesis in plant cells; tangential terms like RNA splicing and cell-cycle processes are less central.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:0061668","count":1},{"id":"GO:0006393","count":1},{"id":"GO:1903108","count":1},{"id":"GO:0008380","count":1}]},{"hash":"2180819288111021675","title":"Neuroimmune-vascular signaling","description":"The dominant GO terms point to signaling pathways (GPCR signaling, adenylate cyclase activation, Rho signaling), vascular functions (blood pressure regulation, smooth muscle contraction), and immune/nervous system interplay (immune response, dendritic cell differentiation, astrocyte chemotaxis), with an additional note on cellular energy metabolism (electron transport chain). Together, these terms suggest a cluster centered on coordinated signaling across neural, immune, and vascular contexts. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0046849","count":6},{"id":"GO:0006955","count":6}]},{"hash":"283352269352172744","title":"Inflammation-Driven Angiogenesis","description":"This cluster is enriched for inflammatory responses to bacterial components (lipopolysaccharide, muramyl dipeptide) and general inflammatory signaling, paired with processes in vascular remodeling such as sprouting angiogenesis, cell migration, and vein morphogenesis. Additional terms on hyaluronan biosynthesis and response to mechanical stimulus point to extracellular matrix dynamics and tissue remodeling during inflammation. Together, these terms suggest proteins cooperating in inflammation-associated vascular remodeling.","confidence":"High","size":13,"edges":5,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032496","count":9},{"id":"GO:1900127","count":9},{"id":"GO:0071260","count":9},{"id":"GO:0007157","count":9},{"id":"GO:0071372","count":9}]},{"hash":"1773588987362551623","title":"Ubiquitin-dependent protein degradation regulators","description":"This cluster is dominated by GO terms tied to ubiquitination and ubiquitin-dependent protein catabolic processes (ubiquitin ligation, autoubiquitination, and regulation of ubiquitin-dependent proteolysis). Additional terms mention regulation of JNK signaling and other developmental/immune pathways, which are often modulated via ubiquitination. The core signal points to proteins involved in ubiquitin-mediated protein turnover and its regulation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0070534","count":7},{"id":"GO:0051865","count":7},{"id":"GO:2000059","count":6},{"id":"GO:0046328","count":6}]},{"hash":"743039777825529912","title":"Developmental Differentiation Across Tissues","description":"The GO terms point to transcriptional control (DNA-templated transcription) and differentiation across multiple tissues (skin, lens, oligodendrocytes, pigmentation, gastrulation), with a TGF-beta response, suggesting these proteins collectively participate in developmental programs rather than a single pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0048709","count":3}]},{"hash":"1142466871829716370","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060416","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0070306","count":2}]},{"hash":"82940490785144330","title":"Endosomal trafficking and organelle organization","description":"These proteins cluster around processes of endosome transport (early to late endosome, endosome to lysosome) and lysosome/endosome organization, indicating a shared function in the endomembrane system and vesicle trafficking. While a few terms such as sarcomere organization and eye development are more peripheral, the dominant pattern points to intracellular transport and organelle maintenance as the core theme. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0045022","count":1},{"id":"GO:0008333","count":1},{"id":"GO:0007040","count":1},{"id":"GO:0007032","count":1}]},{"hash":"520571683228168945","title":"Circadian Ubiquitin-Proteasome Regulation","description":"Top GO terms cluster around ubiquitin-dependent protein degradation (proteasomal and autophagy-related) and circadian rhythm control, including SCF-mediated proteolysis, K63-linked ubiquitination, and circadian sleep/wake regulation. The shared theme is proteostasis linked to circadian timing.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0042752","count":7},{"id":"GO:0051260","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0070534","count":4}]},{"hash":"573456500417438475","title":"Cell adhesion and ECM remodeling","description":"The terms cluster around integrin signaling, calcium-independent cell-matrix adhesion, substrate-dependent migration, extracellular matrix assembly regulation, and extravasation, all pointing to cell-ECM interactions and remodeling. Peripheral terms like blood coagulation, complement activation, mitotic spindle assembly, and dendrite regeneration exist but do not override the central ECM/adhesion theme. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007229","count":5},{"id":"GO:0070208","count":5},{"id":"GO:0090307","count":5},{"id":"GO:0007161","count":4},{"id":"GO:0006929","count":4}]},{"hash":"305829263327780800","title":"Unknown","description":"The terms are highly diverse, spanning DNA damage response (cellular response to X-ray), RNA processing (mRNA processing, histone mRNA catabolic process), protein modification (ubiquitination), general signaling and growth processes, and even lineage/vascular terms, with no clear, single shared function tying the cluster together. This inconsistency suggests no cohesive theme to assign a specific, concise label beyond Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071481","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0048714","count":2},{"id":"GO:0043276","count":2},{"id":"GO:0006397","count":2}]},{"hash":"922001202380748821","title":"Cardiac muscle contraction and heart development","description":"The top GO terms overwhelmingly point to cardiac physiology and heart development, including outflow tract morphogenesis, cardiac muscle cell action potential during contraction, and regulation of ventricular repolarization, which together describe cardiac muscle function and heart formation. A few terms relate to other tissues (immune signaling, kidney development, neuronal differentiation) but are less representative of the cluster's core signal. Confidence reflects the clear cardiac-related pattern despite some outliers.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003151","count":2},{"id":"GO:0060083","count":1},{"id":"GO:0045083","count":1},{"id":"GO:0060307","count":1},{"id":"GO:0086002","count":1}]},{"hash":"1314212048047606189","title":"Ubiquitin-Mediated Protein Quality Control","description":"This cluster centers on ubiquitin-related processes such as ER-associated degradation (ERAD), deubiquitination, and aggrephagy/aggresome formation, which together reflect a module of protein quality control and turnover. While it also includes terms related to signaling and trafficking (calcium channel regulation, endocytosis, TLR3 signaling), the dominant theme is ubiquitin-driven protein homeostasis and degradation pathways.","confidence":"Medium","size":12,"edges":31,"triangles":32,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0016579","count":5},{"id":"GO:1901340","count":4},{"id":"GO:0034140","count":4},{"id":"GO:0030474","count":4}]},{"hash":"1787533616298337986","title":"Unknown","description":"The GO terms cover a highly diverse set of processes across plants and animals (fungiform papilla formation, plant cell wall biogenesis, multiple organ development events), along with general cellular processes (cell migration, microtubule regulation, nucleus\u2013vacuole junction assembly). There isn\u2019t a single cohesive function or pathway linking these proteins, indicating the cluster is functionally heterogeneous rather than a specific biological module.","confidence":"","size":12,"edges":17,"triangles":7,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0061198","count":1},{"id":"GO:0060769","count":1},{"id":"GO:2000017","count":1},{"id":"GO:0071681","count":1},{"id":"GO:0009833","count":1}]},{"hash":"1357827810536622078","title":"Embryonic Development and Organ Morphogenesis","description":"The top GO terms point to broad embryonic patterning and organ formation across multiple tissues (hindbrain rhombomeres, pharyngeal system, ectoderm, digits, liver ducts, heart node fate, neuron migration, endoderm fate). The presence of diverse developmental processes suggests a general developmental/morphogenetic role rather than a single tissue-specific function. The androgen secretion term appears as a minor outlier but does not override the overall developmental theme.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0021571","count":11},{"id":"GO:2000836","count":11},{"id":"GO:0060037","count":11},{"id":"GO:0001705","count":11},{"id":"GO:0061011","count":11}]},{"hash":"1478778162793932170","title":"Embryonic development and organ morphogenesis","description":"This cluster centers on embryonic development and tissue/organ formation across multiple contexts (in utero development, hindlimb morphogenesis, prostate and trachea development, gonad development) and includes transcriptional regulation during these processes, suggesting a general developmental program rather than a single pathway. ","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":7},{"id":"GO:0042551","count":6},{"id":"GO:0060534","count":5},{"id":"GO:0008584","count":5},{"id":"GO:2000288","count":5}]},{"hash":"1591237807515013218","title":"Immune signaling and cytoskeletal remodeling","description":"This cluster centers on immune-related signaling and cytoskeletal dynamics, with terms like NK cell\u2013mediated cytotoxicity, regulation of Rho and Ras signaling, ERK cascade regulation, and filopodium assembly. These together suggest a cohesive theme of signaling control and cytoskeletal remodeling in immune or hematopoietic cells, despite some broader terms like DNA replication and cell morphogenesis appearing as well.","confidence":"Medium","size":12,"edges":7,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0042267","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0046847","count":3}]},{"hash":"793031691602011797","title":"RNA translation regulation and stress granule dynamics","description":"The strongest terms center on RNA metabolism: translational initiation control, stress granule assembly, and mRNA decay/processing body regulation, suggesting a shared function in RNA processing and stress response; the included DNA damage and inflammatory signaling terms reflect broader stress-response coordination.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":2},{"id":"GO:0045947","count":1},{"id":"GO:0043124","count":1},{"id":"GO:0030330","count":1},{"id":"GO:0002091","count":1}]},{"hash":"1725045464275467037","title":"Immune Cell Differentiation and Signaling","description":"The enriched terms cluster around differentiation of immune cells (T cells, NK T cells, B cells), alongside cytokine production (IL-4) and related signaling processes (PDGF, insulin signaling) and cell migration. Despite one DNA repair term, the dominant theme is immune cell development and intercellular signaling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046638","count":2},{"id":"GO:0006281","count":2},{"id":"GO:2001275","count":2},{"id":"GO:0001865","count":2},{"id":"GO:0002333","count":2}]},{"hash":"2052624327217149106","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms are centered on ubiquitination and ubiquitin-dependent proteolysis (including ERAD, autoubiquitination, polyubiquitination, and K63-linked ubiquitination), indicating the cluster is mainly involved in tagging proteins for degradation and quality control. Some secondary terms (vitamin D response, X chromosome dosage compensation, and signaling regulation) may reflect broader or nearby processes but do not override the dominant ubiquitination/degradation theme.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0000209","count":4},{"id":"GO:0070534","count":4}]},{"hash":"138585453485585393","title":"Neuronal adhesion and paranode assembly","description":"The terms cluster around neuron\u2013neuron/axon\u2013glia adhesion (homophilic/heterophilic adhesion), synapse assembly, and paranodal/juxtaparanodal axon localization, suggesting a function in axon\u2013glia interactions and synaptic organization; a few terms about bone and gland morphogenesis are less consistent with this theme but do not dominate the set.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":7},{"id":"GO:0007157","count":6},{"id":"GO:0007156","count":6},{"id":"GO:0071205","count":6},{"id":"GO:0030913","count":6}]},{"hash":"2240691679945732596","title":"Cell-adhesion\u2013driven cytoskeleton signaling","description":"This cluster centers on GO terms related to how cell-cell adhesion regulates actin cytoskeleton organization and associated signaling (GO:0090138) and GTPase activity modulation (GO:0043547), with supporting themes in developmental processes and cell-cycle/apoptotic regulation (GO:0010909, GO:0043065, GO:0045976). While a few terms (including obsolete ones and nuclear import) are peripheral, the strongest cohesive thread is signaling that links adhesion to cytoskeletal dynamics, which guides cell behavior during development and tissue organization.","confidence":"Medium","size":12,"edges":41,"triangles":64,"max_degree":11,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006607","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0086019","count":6},{"id":"GO:1904793","count":6},{"id":"GO:0043065","count":6}]},{"hash":"440888457686968628","title":"Immune signaling and chromatin regulation","description":"The top GO terms point to immune signaling (adaptive immune response, V(D)J recombination, TNF-mediated signaling, RIG-I signaling regulation, NF-kappaB/I-kappaB phosphorylation, JNK cascade) alongside chromatin/epigenetic processes (histone methylation and histone catabolic processes, dosage compensation). This suggests a cluster of proteins involved in regulating immune responses in coordination with chromatin state changes. The lack of dense connections implies a broader, less tightly connected functional group, but the shared themes support the label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009048","count":2},{"id":"GO:0042981","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0033151","count":2}]},{"hash":"1973929727802841081","title":"Unknown","description":"The top GO terms cover a wide range of biology\u2014mRNA decay, regulation of phosphatase activity, centrosome localization, cell proliferation, translation initiation, synapse assembly, responses to cocaine, cartilage development, fungal stimuli, and meiotic cell cycle\u2014without a unifying function. This dispersion suggests the proteins do not share a single cohesive pathway or function, so a singular, specific label is not justifiable.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000288","count":2},{"id":"GO:0010923","count":2},{"id":"GO:1904780","count":2},{"id":"GO:0008285","count":2},{"id":"GO:1903679","count":2}]},{"hash":"878581801179529888","title":"ER protein folding and redox regulation","description":"The top GO terms cluster around endoplasmic reticulum\u2013associated processes: protein folding in the ER, protein repair, and deglutathionylation, plus redox homeostasis and oxidation-reduction activity, and a prolyl hydroxylation modification. There are also transcription-related terms (DNA-templated transcription and negative regulation of transcription by RNA Pol II), suggesting coordinated gene expression control alongside protein quality control. The presence of a viral process term may reflect annotation noise or overlapping pathways but does not outweigh the core theme of ER-associated protein maturation and redox-regulated quality control with transcriptional links.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0018401","count":3},{"id":"GO:0016032","count":3},{"id":"GO:0034975","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0045454","count":3}]},{"hash":"949755559367789002","title":"Neural sensory signaling and drug response","description":"The top GO terms cluster around neural signaling and sensory processing (pain perception, visual perception, visual learning), dopaminergic synaptic transmission, and behavioral responses to psychoactive drugs (cocaine, morphine). ERK1/2 cascade points to MAPK signaling in neurons, supporting a brain-centered theme. Although there is some breadth (e.g., immune-related macrophage chemotaxis, heart development), the dominant signals are CNS-related functions and drug-response pathways, justifying a label focused on neural sensory signaling and drug response.","confidence":"High","size":12,"edges":63,"triangles":191,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0001963","count":9},{"id":"GO:0010759","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0008542","count":9}]},{"hash":"2109986484241542637","title":"Actin Cytoskeleton Remodeling and Contractile Structures","description":"The top GO terms cluster around actin cytoskeleton dynamics (reorganization, filament uncapping) and assembly of contractile machinery (sarcomere, mitotic contractile ring) plus cell polarity/tight junction localization, indicating a cohesive role in actin-mediated shape changes and contractile structures.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071963","count":3},{"id":"GO:1902396","count":3},{"id":"GO:0031532","count":3},{"id":"GO:1900159","count":3},{"id":"GO:0071670","count":3}]},{"hash":"1201706240003485692","title":"CNS Neuroglial signaling and GPCR trafficking","description":"The top GO terms cluster around brain-related glial and neuronal signaling, with emphasis on astrocyte chemotaxis, glial-derived neurotrophic factor production, dopamine receptor signaling, and GPCR internalization. The presence of lipopolysaccharide response and prepulse inhibition links immune signaling to CNS sensory processing, suggesting a group of proteins involved in neuroimmune communication and receptor trafficking in the CNS. The label captures a cohesive theme rather than a single narrowly defined process.","confidence":"Medium","size":12,"edges":21,"triangles":5,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":12},{"id":"GO:0014829","count":12},{"id":"GO:0097029","count":12},{"id":"GO:0060160","count":12},{"id":"GO:0032496","count":12}]},{"hash":"1546528255654615818","title":"Rho GTPase signaling and endocytic trafficking in development","description":"This cluster centers on Rho-family GTPase signaling (positive regulation of GTPase activity; regulation of Rho signaling) and cytoskeletal remodeling, together with endocytic trafficking processes (endocytic recycling; endosome to lysosome transport). The inclusion of morphogenesis-related terms (outflow tract and AV canal development; branching in mammary gland duct morphogenesis) suggests a developmental context where cytoskeletal dynamics and membrane trafficking are essential, making a cohesive theme around signaling, trafficking, and morphogenesis. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0003151","count":2},{"id":"GO:0010923","count":2},{"id":"GO:0031532","count":2},{"id":"GO:1990126","count":2}]},{"hash":"1897725044125230760","title":"RNA processing and RNAi antiviral defense","description":"This cluster centers on RNA metabolism: multiple terms for mRNA and rRNA processing, siRNA processing, and RISC complex assembly. The presence of interferon-alpha response and negative regulation of viral genome replication reinforces an antiviral context linked to RNA silencing pathways. A couple of terms (e.g., chromatid cohesion, homooligomerization) are less connected to RNA biology and may reflect broader cellular processes, but the dominant signal is RNA processing and RNA interference with antiviral potential.","confidence":"High","size":12,"edges":15,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0035455","count":2},{"id":"GO:0045071","count":2},{"id":"GO:0007064","count":2},{"id":"GO:0051260","count":2}]},{"hash":"2146959253571208028","title":"Ubiquitin-mediated protein quality control","description":"The cluster includes GO terms emphasizing ubiquitin-related processes (K6-linked deubiquitination; ubiquitin-dependent ERAD pathway), autophagy of aggregates (aggrephagy), and regulation of endocytosis, pointing to protein homeostasis and trafficking as a common theme. While a few terms relate to development or DNA repair, the dominant shared function appears to be ubiquitin-proteasome/autophagy\u2013based protein quality control. Confidence: Medium","confidence":"","size":12,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1901340","count":2},{"id":"GO:0001828","count":2},{"id":"GO:0034140","count":2},{"id":"GO:0001827","count":2},{"id":"GO:0044313","count":2}]},{"hash":"1876374184385798099","title":"Lipid and secondary metabolite metabolism","description":"The terms cluster around lipid handling (long-chain fatty acid metabolism and import) and broader secondary metabolite pathways (phenylpropanoid metabolism, siderophore biosynthesis, nonribosomal peptide biosynthesis, phenylacetate catabolism), with bioluminescence reflecting metabolic activity. Although a plant-specific term (seed coat development) appears, the dominant signal is diverse metabolism of lipids and secondary metabolites, suggesting a cohesive functional theme.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0010214","count":4},{"id":"GO:0019290","count":4},{"id":"GO:0009698","count":4},{"id":"GO:0008206","count":4}]},{"hash":"1307114862318798529","title":"Unknown","description":"The GO terms span mitochondrial electron transport, various signaling pathways (GPCR and Rho), neuroimmune processes (lipopolysaccharide response, dendritic cell differentiation, dopamine signaling), astrocyte chemotaxis, and vascular functions (blood pressure regulation, smooth muscle contraction). This mix suggests no single cohesive function or pathway umbrella, but rather a heterogeneous set of roles. Therefore a specific, representative cluster name is not supported.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":10},{"id":"GO:0045777","count":10},{"id":"GO:0035025","count":10},{"id":"GO:0010579","count":10},{"id":"GO:2000458","count":9}]},{"hash":"1766104634099509612","title":"Cardiovascular Development and Angiogenesis","description":"The top GO terms center on heart development, angiogenesis, and broader developmental processes (multicellular organism development), with supporting signals from mitotic cell cycle processes and VEGF signaling regulation. This pattern suggests a cluster of proteins involved in cardiovascular formation and blood vessel growth, rather than a general metabolic or purely neural function. Some terms related to synaptic potentiation or muscle activity may reflect shared signaling pathways but do not override the dominant developmental/vascular theme.","confidence":"High","size":12,"edges":41,"triangles":74,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0030948","count":5},{"id":"GO:0060291","count":5}]},{"hash":"1081919828191633295","title":"Lipid Metabolism and Cholesterol Transport","description":"The cluster is dominated by GO terms related to lipid processing and energy metabolism, including fatty acid beta-oxidation, acetyl-CoA catabolic processes, ketone body biosynthesis, cholesterol metabolic processes, and regulation of intracellular cholesterol transport. While a couple of terms reference unrelated processes (sporulation, certain developmental steps) these appear incidental; the core signal is proteins involved in lipid metabolism and cholesterol handling, suggesting a cohesive functional theme around lipid energy production and cholesterol transport.","confidence":"Medium","size":12,"edges":42,"triangles":82,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0014070","count":4},{"id":"GO:0030435","count":4},{"id":"GO:0046356","count":4},{"id":"GO:0008203","count":4},{"id":"GO:1901029","count":4}]},{"hash":"1365603204510728643","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0075732","count":2},{"id":"GO:1903704","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0039651","count":2}]},{"hash":"2117258785142669578","title":"Neural Drug Response and Sensory Processing","description":"This cluster centers on CNS-related neural signaling and behavioral responses to drugs, highlighted by dopamine metabolism regulation, amphetamine/morphine response, prepulse inhibition, and sensory processing signals such as visual learning and phototransduction. While one term about cell wall catabolic processes stands apart, the dominant themes tie to neuronal signaling, sensory perception, and drug-induced modulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":6},{"id":"GO:0008542","count":6},{"id":"GO:0060134","count":5},{"id":"GO:0016998","count":5},{"id":"GO:0051930","count":5}]},{"hash":"1211824042843147283","title":"Cell-surface glycoprotein biosynthesis","description":"The terms cluster around glycosylation and glycan biosynthesis of cell-surface components (O-linked hydroxyproline glycosylation, arabinogalactan protein metabolism, Lewis a epitope, poly-N-acetyllactosamine), plus related processes like seed mucilage and root hair development. This points to a shared function in producing and modifying cell-surface glycans and glycoproteins that mediate cell-cell interactions and development, though the specific organismal contexts vary. ","confidence":"Medium","size":12,"edges":62,"triangles":184,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":4},{"id":"GO:0030311","count":3},{"id":"GO:0007299","count":3},{"id":"GO:0018258","count":3},{"id":"GO:0048354","count":3}]},{"hash":"1326690305059042758","title":"Steroid and Lipid Biosynthesis in Reproductive Development","description":"The top GO terms cluster around lipid metabolism and steroid biosynthesis (testosterone biosynthetic process, prostaglandin biosynthetic process, fatty acid omega-oxidation, lipid hydroxylation) alongside developmental processes of female gonads, mammary glands, and uterus, suggesting a module where lipid-derived signals drive reproductive organ development.","confidence":"Medium","size":12,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0019383","count":4},{"id":"GO:0061370","count":4},{"id":"GO:0008585","count":4},{"id":"GO:0030879","count":4},{"id":"GO:0001516","count":4}]},{"hash":"1219415000023841029","title":"Inflammation and Pain Signaling","description":"The top GO terms cluster around inflammatory and immune responses (inflammatory response, LPS response, T cell homeostasis, blood coagulation) and nociception (sensory perception of pain, response to morphine), with calcium signaling also implicated. A few terms about development or cardiac hypertrophy appear incidental, but the dominant pattern supports a core theme of immune/inflammatory and pain-related signaling.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":3},{"id":"GO:0007275","count":3},{"id":"GO:1903244","count":2},{"id":"GO:0050728","count":2},{"id":"GO:0043278","count":2}]},{"hash":"1345785729477021215","title":"Cell Division and Protein Complex Assembly","description":"Top terms are dominated by cell cycle processes, including cell division and APC-dependent catabolic activity, with protein heterooligomerization suggesting assembly of mitotic complexes. Some outlier terms exist, but the strongest signal points to cell division machinery and protein complex formation.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":3,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0046661","count":6},{"id":"GO:0031145","count":6},{"id":"GO:0050689","count":6},{"id":"GO:0035955","count":6}]},{"hash":"1959801433441632736","title":"Coagulation, Fibrinolysis, and Inflammation","description":"This cluster centers on GO terms for blood coagulation, positive regulation of fibrinolysis, and plasminogen activation, together with nitric oxide biosynthesis and acute-phase/inflammatory responses, suggesting a vascular coagulation-inflammation program. The presence of negative regulation of wound healing and Notch signaling may reflect modulation of tissue repair in an inflammatory context, while defense against Gram-positive bacteria aligns with innate immune activation.","confidence":"High","size":12,"edges":5,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045429","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0051919","count":5},{"id":"GO:0031639","count":5},{"id":"GO:0045746","count":4}]},{"hash":"2135464630488754763","title":"Tissue remodeling and immune cell migration","description":"The non-obsolete terms cluster around tissue remodeling (GO:0048771), plasminogen activation (GO:0031639), and mononuclear cell migration (GO:0071674), with supporting signaling (GO:1900744 regulation of p38MAPK cascade) and growth factor responses (GO:0035729 cellular response to hepatocyte growth factor stimulus). This combination points to extracellular matrix remodeling driven by immune cells and associated signaling events, rather than a single metabolic pathway. Some terms are obsolete, so the signal is present but not perfect.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0019310","count":2},{"id":"GO:0052182","count":2},{"id":"GO:0035729","count":2},{"id":"GO:1900744","count":2}]},{"hash":"2227288295019499318","title":"Developmental signaling and transcriptional regulation","description":"This cluster is enriched for neural tube closure and multicellular development, along with DNA-templated transcription, indicating transcriptional control during development. It also contains signaling-related terms (JUN kinase activity, NF-kappaB transcription factor activity) and responses to estradiol and T cell cytokines, suggesting integration of developmental programs with hormone- and immune-signaling pathways.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001843","count":5},{"id":"GO:0043507","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0030433","count":3}]},{"hash":"480125339539854777","title":"RNAi Machinery and Neuromuscular Signaling","description":"The cluster shows enrichment for RNA interference-related functions (siRNA processing, RISC complex assembly) alongside neuromuscular activities (neuromuscular synaptic transmission, motor behavior, neuromuscular processes). This suggests proteins involved in post-transcriptional gene silencing that also participate in neural/muscular signaling; some general RNA processing terms (rRNA processing) may reflect shared RNA metabolism. A few outliers (erythrocyte differentiation, defense response regulation) could be incidental or multifunctional, but the dominant theme links RNAi machinery with neuromuscular signaling.","confidence":"Medium","size":12,"edges":9,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006364","count":3},{"id":"GO:0021965","count":2},{"id":"GO:0090502","count":2},{"id":"GO:0070919","count":2},{"id":"GO:0035280","count":2}]},{"hash":"666072733366498894","title":"Ribosome biogenesis and translation","description":"These terms collectively point to a theme of ribosome assembly and protein synthesis, including nuclear ribosome export, ribosome biogenesis, and mitochondrial translation, as well as translation-related post-translational modification (diphthamide) and RNA processing steps that couple transcription to translation. The peripheral terms like cell cycle and skeletal muscle differentiation are less central, so the label captures the dominant function without overreaching.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":1},{"id":"GO:0000349","count":1},{"id":"GO:0000288","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0000388","count":1}]},{"hash":"1413547754446084211","title":"Ubiquitin-dependent proteolysis and NF-kB/JNK signaling","description":"The top terms cluster around ubiquitin-mediated protein degradation and inflammatory signaling: TNF signaling, regulation of NF-kB activity, and JNK cascade regulation, with accompanying apoptosis control. There are also hints of chromatin-related regulation (histone modification) and immune rearrangement (V(D)J recombination). These together suggest a theme of ubiquitin-dependent turnover linked to immune signaling and transcriptional regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0009048","count":4},{"id":"GO:0042981","count":4},{"id":"GO:0046328","count":4},{"id":"GO:0033151","count":4}]},{"hash":"2141721951601510128","title":"Transposable elements and proviral integration","description":"The terms cluster around DNA-mobile elements and viral proviral processes (DNA transposition, retrotransposition, DNA integration, proviral latency, viral entry), suggesting a mobilome-centered theme. Some related terms about host-symbiont interactions are present but do not override the core connection to transposable elements and proviral integration.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075732","count":1},{"id":"GO:0032197","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0006313","count":1},{"id":"GO:0039651","count":1}]},{"hash":"567951612038337054","title":"ECM Organization and Cell Adhesion","description":"This cluster is dominated by GO terms for collagen fibril organization and collagen biosynthesis, plus cell adhesion and integrin-mediated signaling, pointing to extracellular matrix (ECM) assembly/remodeling and cell\u2013ECM interactions. Lung development and fibrinolysis regulation fit with ECM remodeling in tissues, while angiogenesis and immune-related terms may reflect broader tissue homeostasis linked to ECM context. Overall, the core theme is ECM organization and adhesion signaling.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0007229","count":2},{"id":"GO:0032964","count":2},{"id":"GO:0030324","count":2}]},{"hash":"838183189996804857","title":"Axon Guidance and Neural Development","description":"The top GO terms converge on neuronal pathfinding and axon organization\u2014axon extension, axon guidance, semaphorin-plexin signaling, paranodal/juxtaparanodal junction components, and sensory neuron guidance\u2014with otic placode development nearby; VEGF signaling and coronary morphogenesis appear as broader developmental context rather than core functions. This makes Axon Guidance and Neural Development a specific, representative cluster label.","confidence":"High","size":12,"edges":6,"triangles":2,"max_degree":4,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0048010","count":10},{"id":"GO:0048846","count":10},{"id":"GO:0014909","count":10},{"id":"GO:0071205","count":10},{"id":"GO:0048842","count":10}]},{"hash":"1300594844120028633","title":"Developmental tissue formation and cell cycle","description":"The cluster is enriched for development-oriented GO terms across tissues (skin development, lung alveolus development, multicellular organism development) along with cell-cycle and microtubule-related processes (mitotic cell cycle, microtubule-based movement), plus immune-relevant signals (T cell homeostasis, hematopoietic stem cell proliferation). This combination suggests proteins involved in both developmental/tissue formation programs and proliferative/cytoskeletal machinery.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007018","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0051260","count":2}]},{"hash":"619213297409217823","title":"Regulation of Angiogenesis and Vascular Development","description":"The top GO terms cluster around angiogenesis (positive and negative regulation), VEGF signaling, and endothelial-related processes, along with embryonic and cardiac morphogenesis, suggesting these proteins collectively influence vascular formation and development. Although complement activation terms are present, the dominant theme remains vascular development and angiogenic regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:2001027","count":4},{"id":"GO:0001701","count":4},{"id":"GO:0001970","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0016525","count":4}]},{"hash":"882513970979005083","title":"Embryo development and vascular biology","description":"Based on the top GO terms, the proteins appear linked to development (skeletal system development, embryo implantation) and vascular biology (blood coagulation, vascular permeability, hypoxia response). Although several terms are obsolete or highly specific, the recurring themes point to roles in embryogenesis and vascular signaling or remodeling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019800","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0071456","count":2}]},{"hash":"857494492396270307","title":"Unknown","description":"The top GO terms span blood coagulation and thrombin signaling, heart and spinal cord development, as well as immune detection, lipid metabolism, and insect hormone synthesis. This mix suggests no single, cohesive functional module for the cluster; the proteins may be involved in multiple disparate pathways rather than a unified process. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070493","count":2},{"id":"GO:0051489","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007596","count":2}]},{"hash":"2239265957286395373","title":"Developmental Transcriptional Regulation","description":"The TOP GO terms cluster around transcriptional control (DNA-templated transcription) and negative regulation of differentiation across multiple tissues (osteoblasts, myotubes, sinoatrial node, pancreatic alpha cells, heart structures), with supporting terms in circadian gene expression and pigmentation. This suggests a broad role in coordinating development and tissue-specific differentiation at the transcriptional level, rather than a single tissue-specific function.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060766","count":11},{"id":"GO:0045668","count":11},{"id":"GO:0006351","count":7},{"id":"GO:0010832","count":7},{"id":"GO:0003219","count":6}]},{"hash":"47380144633832391","title":"Neural sensory processing and drug responses","description":"This cluster is enriched for GO terms related to sensory perception (pain), its modulation (regulation of sensory perception of pain, prepulse inhibition), and pharmacological responses (response to amphetamine, response to morphine) as well as signaling pathways (negative regulation of glutamatergic transmission, ERK cascade). The combination points to neural pathways governing sensory processing and how they are modulated by drugs, with some thermoregulatory context; thus a label focusing on neural sensory signaling and drug responsiveness fits best.","confidence":"High","size":11,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060134","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0051930","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0071502","count":2}]},{"hash":"1036366880922367708","title":"Ribosome biogenesis and translation","description":"This cluster is enriched for ribosome-related processes: large subunit biogenesis/assembly, maturation of SSU-rRNA, and cytoplasmic translation, pointing to components of ribosome production and protein synthesis. A few non-dominant terms like mitotic checkpoint and retina development are present but do not define the cluster. ","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042273","count":3},{"id":"GO:0000027","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0046677","count":2}]},{"hash":"168634193060486262","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1193886973117780626","title":"Cardiac morphogenesis and somitogenesis signaling","description":"This cluster centers on embryonic heart development and segmentation: terms like cardiac right atrium morphogenesis, venous endothelial differentiation, and Notch/Wnt signaling in the regulation of the secondary heart field, along with somite specification and regulation of somitogenesis, point to coordinated heart formation and somitic patterning. Additional terms about vitamin D response and mechanical stimuli fit broader developmental signaling contexts but don\u2019t contradict the core heart/somite theme. Overall, a cohesive label is a development-focused heart morphogenesis and somitogenesis cluster.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:0003213","count":4},{"id":"GO:0033280","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0003270","count":4}]},{"hash":"1741803323543785305","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000480","count":5},{"id":"GO:0000447","count":5},{"id":"GO:0000472","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0000462","count":4}]},{"hash":"2137516856611800857","title":"Nuclear gene expression regulators and transporters","description":"The cluster is enriched for nuclear processes related to gene expression and genome maintenance, including DNA topological changes, DNA replication, and regulation of mRNA splicing via the spliceosome, as well as ncRNA-mediated gene silencing. In addition, several transmembrane transport terms (nitrate, vitamin, galactose, phosphate, potassium) and neurotransmitter loading appear, suggesting the presence of membrane transport proteins alongside regulatory factors. Overall, the data point to a core theme of gene expression regulation with some transport functions, hence this label. ","confidence":"Medium","size":11,"edges":42,"triangles":78,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006265","count":4},{"id":"GO:0048026","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0015706","count":2}]},{"hash":"1218519857163519126","title":"RNA Splicing and Translation","description":"This cluster is enriched for RNA processing and splicing terms (mRNA processing, RNA splicing, spliceosomal tri-snRNP complex assembly) and includes translation-related steps (translational initiation, translation, cytoplasmic translation initiation), suggesting a module that couples RNA maturation with the initiation of protein synthesis. Minor terms like miRNA catabolic process and stress response appear auxiliary rather than defining the core function.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061087","count":2},{"id":"GO:0006397","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0000244","count":1},{"id":"GO:0001732","count":1}]},{"hash":"1995043141621237551","title":"Unknown","description":"The top GO terms span several unrelated biological areas, including RNA processing (mRNA capping, rRNA processing, spliceosomal disassembly), protein homeostasis (negative regulation of protein refolding, ubiquitin-dependent protein degradation), tRNA synthesis, and scattered terms for transcription regulation, G-protein assembly, endothelial proliferation, and visual perception. With no clear, central pathway or theme and no network connections (edges/triangles all zero), there is no consistent function tying the proteins together, so a generic Unknown label is appropriate.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061084","count":2},{"id":"GO:2000059","count":2},{"id":"GO:0006370","count":2},{"id":"GO:2000232","count":2},{"id":"GO:0008616","count":1}]},{"hash":"1521540802891333408","title":"Regulated intracellular signaling and trafficking","description":"These proteins appear tied to regulation of intracellular signaling and trafficking: receptor recycling, endosome size dynamics, intracytoplasmic/ciliary transport, Hedgehog (Smoothened) signaling, and modulation of Rho and synaptic signaling. The terms emphasize regulatory processes across signaling and vesicle trafficking rather than a single enzymatic function, suggesting a cluster focused on signaling and trafficking regulation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060316","count":2},{"id":"GO:1903244","count":2},{"id":"GO:0051036","count":1},{"id":"GO:0034968","count":1},{"id":"GO:0035249","count":1}]},{"hash":"1848395027121267747","title":"Developmental differentiation and signaling","description":"Top terms point to differentiation of specific cell types (osteoblast development, pancreatic B cell differentiation) and regulation of signaling pathways (activin receptor signaling, JNK cascade), suggesting the proteins cluster around developmental differentiation and associated signaling. Some metabolic and obsolete terms appear, likely representing annotation noise rather than core function. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002076","count":2},{"id":"GO:0003309","count":2},{"id":"GO:0033611","count":1},{"id":"GO:0042413","count":1},{"id":"GO:0043427","count":1}]},{"hash":"77645863788811329","title":"Mitochondrial Electron Transport and ROS Handling","description":"This cluster is driven by terms related to mitochondrial energy production (NADH to ubiquinone, ATP synthesis) and detoxifying reactive oxygen species (removal of superoxide radicals). While a few terms appear peripheral (RNA modification, ethanol/LPS responses, aging), the dominant signals point to mitochondrial respiration and oxidative stress management.","confidence":"High","size":11,"edges":52,"triangles":140,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006120","count":2},{"id":"GO:0009451","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0019430","count":2}]},{"hash":"673023726007343494","title":"Phosphorylation-driven signaling and gene regulation","description":"The top GO terms cluster around regulation and signaling through phosphorylation events (positive regulation of protein serine/threonine kinase activity, peptidyl-tyrosine phosphorylation, and protein autophosphorylation), coupled with core gene expression control (translation and transcription regulation). Additional terms point to cell cycle, development, hypoxia response, and pigmentation, suggesting a broader regulatory module with phosphorylation-centered signaling that influences transcription/translation and cellular proliferation. Overall, the core theme is signaling via phosphorylation governing gene regulation and cell-cycle processes.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0043473","count":2}]},{"hash":"702867068157895194","title":"Developmental gene regulation and stress responses","description":"The top GO terms cluster around DNA-templated transcription and multiple developmental processes (forebrain development, neural tube closure, skeletal system development, multicellular development) along with stress-related pathways (ER stress\u2013induced apoptosis and cadmium response) and cell cycle activity. This suggests a cohesive theme of developmental regulation with integrated cellular stress responses, despite no observed interactions in this cluster. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0006349","count":4}]},{"hash":"1702472635687858021","title":"GPCR Signaling and Sensory Development","description":"This cluster centers on GPCR-mediated signaling and sensory/developmental processes, including dopamine receptor signaling, GPCR pathway regulation, and sensory-related development (eye and nose), with related stimulus responses (glucagon, prostaglandin) across species. The common theme appears to be GPCR-driven signal transduction influencing sensory perception and development.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071377","count":1},{"id":"GO:0003380","count":1},{"id":"GO:0048527","count":1},{"id":"GO:0008277","count":1},{"id":"GO:0000750","count":1}]},{"hash":"2129764585064541073","title":"Prostate gland development","description":"The top GO terms show emphasis on male reproductive development, particularly prostate gland development (GO:0030850) and male sex differentiation (GO:0046661), suggesting the cluster centers on male reproductive system development. Other terms (cell division, ER stress\u2013related translation) are broader and less specific, but do not override the reproductive theme. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046661","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0050689","count":2},{"id":"GO:0090526","count":2},{"id":"GO:0008277","count":2}]},{"hash":"2116918198502215809","title":"Neural development and axon guidance","description":"Most prominent GO terms cluster around axon guidance and neuronal development, including sensory neuron axon guidance, axon extension, sympathetic neuron projection guidance, semaphorin-plexin signaling, and otic placode/limbic system development, with supporting pathways like JUN phosphorylation and growth factor receptor signaling (VEGF, HGF). This combination strongly suggests a functional group of proteins involved in neural pathfinding and development rather than other processes.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007258","count":2},{"id":"GO:0048010","count":2},{"id":"GO:1902287","count":2},{"id":"GO:1905040","count":2},{"id":"GO:0048846","count":2}]},{"hash":"511196503742298180","title":"Nervous system development and stress response","description":"The prominent GO terms point to developmental processes in neural tissues (myelination in the peripheral nervous system, retina layer formation) and heart development, suggesting a broad developmental role. The presence of stress-related terms (response to xenobiotic stimulus, redox homeostasis, cellular detoxification) along with apoptotic processes and neuronal signaling components (cAMP response, synaptic vesicle endocytosis) indicates involvement in neural function with cellular stress management. This combination supports a label focused on neural development with related stress-response activities.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0010842","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0071320","count":2}]},{"hash":"2061194589051847165","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071391","count":1},{"id":"GO:1905490","count":1},{"id":"GO:1905812","count":1},{"id":"GO:1905815","count":1},{"id":"GO:0070979","count":1}]},{"hash":"313158507242060575","title":"Nuclear transcription and RNA processing regulation","description":"The protein cluster shows strong enrichment for GO terms tied to nuclear gene expression control: regulation of DNA-templated transcription, transcription start site selection at RNA polymerase II promoter, snRNA transcription by RNA Pol II, and spliceosome-mediated splicing regulation, along with RNA processing events like poly(A) tail shortening. These converge on transcriptional and RNA maturation processes in the nucleus; the fat cell differentiation term appears less central to the core function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0033160","count":2}]},{"hash":"1357472574317661335","title":"Embryonic morphogenesis and neural-vascular development","description":"The top GO terms cluster around embryonic tissue patterning and organogenesis (BMP signaling, mesoderm/endoderm differentiation, boundary specification) plus neural and vascular maturation (dendrite development, myelination, sodium channel clustering, angiogenesis), indicating a cohesive theme of early developmental morphogenesis and neural-vascular differentiation.","confidence":"High","size":11,"edges":50,"triangles":123,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007161","count":8},{"id":"GO:0035987","count":8},{"id":"GO:0030513","count":7},{"id":"GO:0007432","count":7},{"id":"GO:0060068","count":7}]},{"hash":"320173245849125671","title":"Diverse metabolite biosynthesis","description":"The top GO terms span biosynthetic and catabolic processes for a wide range of small molecules, including steroids (glucocorticoids, testosterone), vitamins and cofactors (retinol, retinal, tetrahydrobiopterin), lipids (sphingolipids, mycolic acid), and related catabolic pathways (acetoin, androgen). This suggests a broad metabolic theme rather than a single pathway, so the label reflects diverse metabolite biosynthesis/metabolism.","confidence":"Medium","size":11,"edges":24,"triangles":29,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006704","count":10},{"id":"GO:0045150","count":10},{"id":"GO:0061370","count":10},{"id":"GO:0042572","count":10},{"id":"GO:0006710","count":10}]},{"hash":"1608230338139956272","title":"Amino acid and neurotransmitter membrane transporters","description":"The top GO terms cluster around transmembrane transport of amino acids (L-arginine, D-alanine, D-serine) and a neurotransmitter (GABA), indicating a core function as membrane transporters for small molecules. Additional terms touch on osmotic stress, polyamine transport, and inflammatory signaling (nitric oxide production, macrophage activation), suggesting some immune-related context but not a core function. Overall, the dominant theme is amino acid and neurotransmitter transport across membranes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098713","count":2},{"id":"GO:0042941","count":2},{"id":"GO:0071477","count":2},{"id":"GO:1902269","count":2},{"id":"GO:0043030","count":2}]},{"hash":"2296733071747643909","title":"Steroid and Lipid Metabolism","description":"This cluster centers on GO terms tied to lipid metabolism and steroid hormone biosynthesis across different systems (testosterone biosynthesis, prostaglandin biosynthesis, brassinosteroid homeostasis, fatty acid omega-oxidation, lipid hydroxylation). While there are some developmental terms likely reflecting downstream hormone effects, the dominant theme is lipid/steroid metabolism, justifying a cohesive label. The absence of edges suggests limited network structure but does not diminish the apparent functional grouping. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019383","count":4},{"id":"GO:0061370","count":4},{"id":"GO:0008585","count":4},{"id":"GO:0030879","count":4},{"id":"GO:0001516","count":4}]},{"hash":"646181021389578205","title":"Apoptosis regulation and synapse development","description":"The cluster centers on regulators of cell death and synapse assembly, aligning with neural development; additional terms for pain perception and innate immunity suggest broader roles in immune signaling during development, but apoptosis regulation and synaptic formation are the strongest shared themes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043065","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0016477","count":5}]},{"hash":"1331021826515747277","title":"Neuronal Axon Guidance and Synapse Formation","description":"The cluster is enriched for GO terms related to axon extension and guidance (axon extension, corticospinal neuron axon guidance through spinal cord), juxtaparanode region protein localization, and positive regulation of synapse assembly, indicating a neuronal development theme focused on axon pathfinding and synapse establishment. Some inflammatory and migration terms are present but secondary to the neural connectivity signature.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0048846","count":6},{"id":"GO:0019800","count":5},{"id":"GO:0006954","count":5},{"id":"GO:0014909","count":5}]},{"hash":"2165698012782714578","title":"Skeletal and cardiac muscle development","description":"Based on the GO terms, the cluster shows enrichment for heart development and skeletal muscle regeneration, including negative regulation of striated muscle differentiation, which suggests involvement in muscle development and maintenance. There are also neural development terms and chromatin-related terms, indicating broader developmental regulation by transcriptional control, but the strongest signals center on muscle lineage specification and regeneration.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0048298","count":1},{"id":"GO:0021766","count":1},{"id":"GO:0071168","count":1}]},{"hash":"2047671979740866202","title":"Mitochondrial Metabolite Transport","description":"Top GO terms indicate transmembrane transport of various metabolites into or across mitochondrial membranes (citrate, ATP/ADP, CoA, nucleotides, PLP, glycine), plus fatty acid response and mitochondrial localization terms. This suggests a cohesive function in mitochondrial metabolite trafficking and energy metabolism.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006843","count":11},{"id":"GO:1990544","count":11},{"id":"GO:0036233","count":11},{"id":"GO:0031921","count":11},{"id":"GO:0070542","count":11}]},{"hash":"1810189488758521369","title":"Spermatogenesis-Linked Chromatin Remodeling","description":"The top GO terms cluster around chromatin-associated processes (protein localization to chromatin, chromatin assembly, chromatin remodeling) and germline development (male gonad development, spermatogenesis), suggesting a group of proteins coordinating chromatin regulation during male germ cell development.","confidence":"High","size":10,"edges":13,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":5},{"id":"GO:0008584","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0007283","count":4},{"id":"GO:1904815","count":3}]},{"hash":"657756538596485875","title":"Protein and polyamine acetylation cluster","description":"The cluster is dominated by GO terms related to acetylation, including N-terminal acetylation, peptidyl-lysine acetylation, and acetylation of polyamines like spermidine and putrescine, as well as associated biosynthetic and catabolic processes. This suggests a cohesive theme around acetylation modifications of proteins and amine-containing substrates across the cluster.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030187","count":10},{"id":"GO:0045150","count":10},{"id":"GO:0010125","count":10},{"id":"GO:0032918","count":10},{"id":"GO:0009447","count":10}]},{"hash":"1886722162816526836","title":"Bacterial quinone biosynthesis and tRNA modification cluster","description":"This cluster combines GO terms for quinone biosynthesis (phylloquinone, menaquinone) and antibiotic biosynthetic processes with tRNA modification (wobble uridine modification, tRNA methylation), plus related metabolism (glycolysis) and redox homeostasis. The overarching theme appears to be interconnected metabolic/cofactor biosynthesis and translational modification processes common in bacteria, rather than a single linear pathway, making a concise, representative label: bacterial quinone biosynthesis and tRNA modification cluster.","confidence":"Medium","size":10,"edges":43,"triangles":105,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":4},{"id":"GO:0002098","count":3},{"id":"GO:0042372","count":3},{"id":"GO:0030488","count":3},{"id":"GO:0009234","count":3}]},{"hash":"1635230774740611207","title":"Mitotic Cell Cycle Regulation","description":"This cluster is dominated by GO terms for cell division and the mitotic cell cycle, suggesting proteins involved in controlling progression through mitosis. The presence of kinase activity regulation and autophosphorylation terms supports a regulatory, phosphorylation-driven control mechanism during the cell cycle. Additional terms related to ribosome maturation and mRNA transport may reflect broader biosynthetic needs in proliferating cells, while hypoxia response hints at stress-modulated regulation. Overall, the core theme is mitotic cell cycle control.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0008360","count":2},{"id":"GO:0071902","count":2}]},{"hash":"1842571250233299392","title":"Spliceosome-driven RNA processing and ncRNA regulation","description":"The top terms cluster around spliceosome-mediated RNA processing (mRNA splicing) and regulatory ncRNA\u2013mediated gene silencing, suggesting the proteins function in post-transcriptional RNA metabolism and gene regulation. While other terms (including obsolete or outlier terms like viral genome replication) exist, the core pattern fits RNA processing and ncRNA regulation.","confidence":"Medium","size":10,"edges":7,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:1990416","count":3},{"id":"GO:1904574","count":2},{"id":"GO:0019079","count":2}]},{"hash":"2213393311937773389","title":"Embryonic tissue morphogenesis and transcription regulation","description":"The top GO terms show both transcriptional regulation by RNA polymerase II and widespread embryonic morphogenesis across multiple tissues (neural crest, pancreas, cerebellum, lung, muscle). The combination suggests a cluster of proteins involved in controlling gene expression during development and organizing tissue morphogenesis.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0090190","count":3},{"id":"GO:0001755","count":3},{"id":"GO:0048557","count":3},{"id":"GO:0031018","count":3}]},{"hash":"1484463154836049224","title":"Embryonic development and neural patterning with adhesion","description":"This cluster includes terms tied to embryogenesis (ectoderm formation, ventral spinal cord interneuron specification, female gonad development), cytoskeletal remodeling (lamellipodium assembly) and cell-matrix adhesion, as well as regulatory signaling and transcription, suggesting a theme of developmental processes and neural patterning involving adhesion and movement.","confidence":"Medium","size":10,"edges":25,"triangles":27,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035995","count":10},{"id":"GO:0008588","count":10},{"id":"GO:0001705","count":10},{"id":"GO:2000346","count":10},{"id":"GO:0008585","count":10}]},{"hash":"1404781313744610817","title":"Unfolded Protein Response and Antiviral Defense","description":"Dominant terms point to ER stress and unfolded protein response (ERAD, unfolded protein response, response to unfolded protein, translation initiation regulation in ER stress) together with innate antiviral defenses (innate immune response, defense response to virus, cellular response to dsRNA). A few terms like face morphogenesis and substrate adhesion-dependent cell spreading appear as noise. Overall, the cluster likely represents ER stress\u2013linked innate antiviral processes.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0001666","count":2},{"id":"GO:0060325","count":2},{"id":"GO:0034446","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1033569433152268408","title":"Ubiquitin-Dependent Immune Signaling","description":"This cluster centers on ubiquitin-proteasome\u2013driven protein catabolism (SCF-dependent, autoubiquitination, ERAD) and several immune signaling pathways (T cell receptor signaling, TNF-mediated signaling, Fc-epsilon receptor signaling, and C-type lectin receptor signaling). The co-occurrence of proteolysis and immune receptor\u2013mediated signaling suggests a module linking protein turnover with immune activation and regulation.","confidence":"High","size":10,"edges":26,"triangles":40,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0016032","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0070911","count":3}]},{"hash":"475964837917039196","title":"Organelle protein targeting and vesicle trafficking","description":"The cluster centers on intracellular protein targeting and secretion pathways, including mitochondrial matrix import and outer-membrane insertion, ER retention, COPI vesicle formation/budding, and secretion-related processes (Wnt secretion, amyloid-beta regulation, egg-laying signaling). While some developmental terms appear, the dominant theme is trafficking of proteins to organelles and through the ER-Golgi system, with secretion cues linking to broader signaling contexts.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":1},{"id":"GO:0045040","count":1},{"id":"GO:0048205","count":1},{"id":"GO:1902003","count":1},{"id":"GO:0032525","count":1}]},{"hash":"1735304497545548848","title":"Calcium-regulated vesicle exocytosis and trafficking","description":"This cluster centers on regulation of vesicle exocytosis (including synaptic and lysosomal exocytosis) and endosomal trafficking, with connections to Ca2+-dependent processes and cytoskeletal regulation via Rho signaling. While some terms are broader (brain development, egg activation, transcription), the strongest signals are vesicle cycling and exocytosis control, supporting a cohesive theme.","confidence":"Medium","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:2000300","count":6},{"id":"GO:0035023","count":5},{"id":"GO:0010796","count":5},{"id":"GO:0031384","count":5},{"id":"GO:0007420","count":5}]},{"hash":"1993909284450618129","title":"EGFR Signaling and Membrane Dynamics","description":"This cluster centers on membrane-associated signaling, dominated by EGFR signaling (GO:0007173) and small GTPase-mediated signaling (GO:0007264), with accompanying themes of cell adhesion/spreading (GO:1900026) and regulation of trafficking through the secretory pathway (GO:1903434) and related processes. Additional terms touch on membrane-related metabolism and energy regulation (lipophagy, mitochondrial depolarization). Together, these suggest a cohesive role in coordinating growth-factor\u2013driven signaling with membrane dynamics and cellular adhesion.","confidence":"Medium","size":10,"edges":21,"triangles":16,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900026","count":9},{"id":"GO:0033144","count":9},{"id":"GO:0007173","count":8},{"id":"GO:0060193","count":8},{"id":"GO:1903434","count":8}]},{"hash":"993086271527779801","title":"Plant light-regulated growth and defense","description":"The top GO terms point to light-responsive processes (response to red/far red light) and development (flower development), with additional hints of transcriptional regulation (mediator complex assembly) and defense (antimicrobial peptide biosynthesis). While there are some non-plant terms in the mix, the predominant themes are plant growth influenced by light and associated defense and regulatory processes, suggesting a cohesive cluster about photomorphogenesis and defense pathways.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048630","count":2},{"id":"GO:0010940","count":1},{"id":"GO:0010917","count":1},{"id":"GO:0035794","count":1},{"id":"GO:0010218","count":1}]},{"hash":"98474726593404000","title":"Spliceosome-Mediated mRNA Splicing and Processing","description":"The cluster is dominated by GO terms for mRNA splicing via the spliceosome, small-subunit processome assembly, alternative splicing, and mRNA modification/stabilization, indicating a coherent theme of spliceosome-dependent mRNA processing; additional terms reflect regulation of translation initiation, which can be linked to how splicing affects transcript translation. A blastocyst formation term may reflect developmental contexts but does not override the central mRNA-processing theme.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":6},{"id":"GO:0001825","count":5},{"id":"GO:0016556","count":5},{"id":"GO:0075522","count":5},{"id":"GO:0048026","count":5}]},{"hash":"1704313156206884455","title":"ER-Golgi and endosome transport","description":"This cluster is dominated by GO terms for vesicle transport within the secretory/endomembrane system, including ER-to-Golgi trafficking, endosome-to-Golgi and endosome-to-plasma membrane routes, Cvt pathway targeting to vacuole, and regulation of intracellular protein localization and exocytosis, consistent with a cohesive vesicle trafficking theme in yeast.","confidence":"High","size":10,"edges":7,"triangles":1,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:1903078","count":4},{"id":"GO:0045022","count":4},{"id":"GO:0032258","count":4},{"id":"GO:0034498","count":4}]},{"hash":"2277546748657766313","title":"Spliceosome-Mediated mRNA Processing","description":"This cluster is dominated by GO terms related to RNA splicing and mRNA maturation (spliceosome-mediated and cis splicing, and spliceosomal snRNP assembly), along with polyadenylation-related processes. While there are a few terms pointing to transcription, mitotic cycle, and MAPK signaling, the strongest, most recurrent signals are about splicing and mRNA processing, suggesting the proteins function together in RNA maturation. ","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0038066","count":2},{"id":"GO:0070371","count":2}]},{"hash":"1405152800764250872","title":"Ubiquitin-dependent protein degradation","description":"Most terms describe ubiquitination events and ubiquitin-dependent protein catabolism (K48-linked ubiquitination, autoubiquitination, protein ubiquitination, ubiquitin-dependent protein catabolic process, ERAD). This points to a proteostasis-focused cluster. A few terms relate to receptor turnover and peroxisomal protein trafficking, which can tie into broader protein turnover, while X-chromosome dosage terms are peripheral. Overall, the dominant theme is ubiquitin-mediated proteolysis.","confidence":"High","size":10,"edges":6,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0046621","count":2},{"id":"GO:0038018","count":2},{"id":"GO:0060816","count":2},{"id":"GO:0016558","count":2}]},{"hash":"2085024331515761773","title":"Immune signaling and transcriptional regulation","description":"The top GO terms converge on immune activation and transcriptional control: LPS response, GM-CSF response, T cell receptor signaling, and DNA-templated transcription (including NF-kappaB-related regulation). While terms like cadmium response and cocaine behavioral response are more peripheral, the dominant theme is immune signaling linked to transcriptional regulation.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0051092","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0097011","count":4}]},{"hash":"410483838482736105","title":"Angiogenesis and vascular development","description":"The GO terms cluster around blood vessel formation and cardiovascular development (angiogenesis, fibroblast migration, cardiac muscle contraction), with supportive roles from NO signaling modulation and inflammatory TNF production. Some terms touch on broader development or cell cycle, but the dominant theme is angiogenesis and vascular remodeling. ","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0010751","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0010763","count":3},{"id":"GO:0042535","count":3}]},{"hash":"460882465963220328","title":"Ribosome Biogenesis and Translation","description":"The cluster centers on ribosome production and function, with multiple terms for ribosomal subunit biogenesis, preribosome assembly, and cytoplasmic translation; these give a cohesive theme of ribosome assembly and protein synthesis, while cell cycle/division terms likely reflect proliferation-linked ribosome demand.","confidence":"High","size":10,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:1902626","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1133057368041413352","title":"Viral infection cycle and host interaction","description":"Based on the top GO terms, this cluster centers on steps of the viral life cycle and virus\u2013host interactions: entry and membrane fusion, activation of viral genome replication, virion assembly, release, and proviral latency, with a couple of unrelated terms likely representing noise. The dominant theme is clearly viral infection processes in the host, justifying a concise label that captures the viral lifecycle and host interplay.","confidence":"High","size":10,"edges":30,"triangles":42,"max_degree":9,"top_function":"protein folding","top_go_terms":[{"id":"GO:0044829","count":4},{"id":"GO:0019064","count":4},{"id":"GO:0030260","count":4},{"id":"GO:2000276","count":4},{"id":"GO:1901407","count":4}]},{"hash":"207876565603575030","title":"Embryonic organ and limb morphogenesis","description":"The top GO terms point to developmental morphogenesis across multiple organ systems: limb/fin formation, airway/tracheal and lung morphogenesis, vascular remodeling, and bone formation, with supporting signals such as cytokine production. Even the heart-rate regulation term aligns with cardiac development, suggesting a broad theme of embryonic organ formation and tissue remodeling. This cohesive view justifies a label focused on embryonic organ and limb morphogenesis.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010459","count":3},{"id":"GO:0035116","count":3},{"id":"GO:0001974","count":3},{"id":"GO:0033339","count":3},{"id":"GO:0060535","count":3}]},{"hash":"26131688187819884","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"The cluster is dominated by GO terms tied to ubiquitination and proteasomal degradation (ubiquitin-dependent protein catabolic process, SCF-dependent ubiquitinylation, K48- and K6-linked ubiquitination, polyubiquitination, histone catabolic process, autoubiquitination). This points to a core set of proteins that tag substrates for degradation and regulate proteostasis, including histones, with some involvement in stress-response signaling (TNF pathways, oxidative-stress\u2013driven apoptosis) that often intersect with ubiquitin remodeling.","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0031146","count":5},{"id":"GO:0036205","count":4},{"id":"GO:0085020","count":4},{"id":"GO:1903265","count":4}]},{"hash":"1464778455142296992","title":"Spinal cord development and cell polarity signaling","description":"The cluster centers on developmental signaling topics (spinal cord development, Wnt signaling) coupled with cell adhesion and cytoskeletal organization (cell polarity, actin cortical patches). Endocytic processes (pinocytosis) and membrane trafficking may accompany signaling dynamics, while a few terms around cholesterol storage/foam cell differentiation are less connected but may reflect broader lipid-related signaling contexts. Overall, the dominant theme is development-related signaling tied to polarity and cytoskeleton control.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021510","count":3},{"id":"GO:0010886","count":2},{"id":"GO:0043277","count":2},{"id":"GO:0010744","count":2},{"id":"GO:0071963","count":2}]},{"hash":"454182128189358492","title":"Unknown","description":"The top GO terms are very diverse, spanning Wnt signaling, endocytosis, GPCR signaling, immune pathways, post-translational modification, neuronal differentiation, lipid metabolism, pain response, and general cell growth. There isn\u2019t a single coherent function that ties these proteins together, so a specific, meaningful label isn\u2019t supported by the data.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:0048549","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0045083","count":3},{"id":"GO:0070427","count":3}]},{"hash":"459312678300601402","title":"tRNA modification and nucleotide metabolism","description":"This cluster is driven by GO terms related to tRNA modification and editing (e.g., tRNA wobble editing, tRNA modification) and a set of nucleotide/nucleoside metabolic processes (cytosine, guanine, uridine/deoxycytidine metabolism). Although there is a term about antibiotic response and mitotic cell cycle, the strongest signal centers on RNA processing and nucleotide metabolism, suggesting proteins involved in tRNA maturation and nucleotide turnover. ","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":4},{"id":"GO:0000278","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0019858","count":2},{"id":"GO:0009231","count":2}]},{"hash":"63083143688520203","title":"RNA Splicing and Transcription Regulation","description":"This cluster centers on DNA-templated transcription and multiple RNA processing/splicing terms, including regulation of alternative mRNA splicing via the spliceosome and RNA splicing activities, suggesting a cohesive role in transcription-linked RNA processing.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0009097","count":2},{"id":"GO:0009099","count":2},{"id":"GO:1903507","count":1},{"id":"GO:0000381","count":1}]},{"hash":"1681169546321097542","title":"Methyltransferases (DNA/RNA/Protein)","description":"The top GO terms center on methylation across different substrates: DNA methylation (cytosine/adenine), RNA methylation (tRNA, rRNA, 7-methylguanosine capping), and protein methylation, indicating a cohesive function in methyltransferase activity across nucleic acids and proteins. A couple unrelated terms exist, but the dominant pattern supports a methylation-focused cluster.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090124","count":2},{"id":"GO:0009307","count":2},{"id":"GO:0032775","count":2},{"id":"GO:0009452","count":2},{"id":"GO:0030488","count":2}]},{"hash":"2130916310638410370","title":"Embryonic organogenesis and tissue morphogenesis","description":"The GO terms cluster around embryonic development across multiple tissues\u2014BMP signaling, heart and kidney formation, neural guidance, and collagen-related morphogenesis\u2014indicating a common theme of developmental morphogenesis and organogenesis.","confidence":"High","size":10,"edges":38,"triangles":75,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030513","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0001822","count":3}]},{"hash":"780499453370012129","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1904574","count":10},{"id":"GO:0019079","count":10},{"id":"GO:0042766","count":10},{"id":"GO:0000388","count":10},{"id":"GO:0071441","count":10}]},{"hash":"956023034696572219","title":"Neuroimmune signaling and thermogenic responses","description":"The GO terms converge on neural signaling related to pain and dopamine regulation, sensorimotor gating (prepulse inhibition), and thermoregulation (temperature stimulus, diet-induced thermogenesis), with accompanying immune and vascular context (LPS response, astrocyte chemotaxis, dendritic cell differentiation, blood coagulation, vascular smooth muscle contraction). Taken together, they suggest a cluster centered on neuroimmune regulation of thermogenesis and sensorimotor processes.","confidence":"Medium","size":10,"edges":6,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0007596","count":6},{"id":"GO:2000458","count":5}]},{"hash":"2081297015826246306","title":"EGFR/JAK-STAT signaling and inflammation","description":"The cluster is dominated by EGFR signaling and JAK-STAT\u2013related terms (STAT phosphorylation, signaling via growth hormone receptor pathway), with connections to NF-kappaB regulation and LPS-driven inflammatory responses, plus small GTPase\u2013mediated signaling. This suggests a cohesive module of growth-factor\u2013driven signaling integrated with innate immune/inflammatory regulation. ","confidence":"High","size":10,"edges":32,"triangles":47,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007173","count":10},{"id":"GO:0032271","count":10},{"id":"GO:0045779","count":10},{"id":"GO:0042506","count":10},{"id":"GO:0060397","count":10}]},{"hash":"261044542884149898","title":"Detoxification and Osteoblast Differentiation Signaling","description":"The terms cluster around oxidative detoxification and toxin response, lipid metabolism and prostaglandin biosynthesis, calcium signaling from the sarcoplasmic reticulum, chloride transport, and growth regulation, with explicit mention of osteoblast differentiation. This combination suggests a theme of detoxification and lipid-driven signaling influencing bone formation.","confidence":"Medium","size":10,"edges":25,"triangles":33,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":4},{"id":"GO:0006641","count":3},{"id":"GO:0001516","count":2},{"id":"GO:0010880","count":2},{"id":"GO:1902476","count":2}]},{"hash":"382195002723846562","title":"Steroid hormone biosynthesis and female reproductive development","description":"Top GO terms indicate steroid hormone production and female reproductive tissue development (gonad, mammary gland, uterus), with prostaglandin biosynthesis and related pathways, despite a couple of outlier terms. Confidence: Medium","confidence":"","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051725","count":2},{"id":"GO:0019383","count":1},{"id":"GO:0061370","count":1},{"id":"GO:0008585","count":1},{"id":"GO:0030879","count":1}]},{"hash":"847513100170203313","title":"Unknown","description":"The terms cover a mix of developmental signaling (Wnt pathway and neural tube patterning), pigmentation, sperm function, protein processing, and cell wall organization, with no clear unifying function or pathway connecting them and no interactions observed. This suggests the cluster does not reflect a coherent, single biological function.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090090","count":1},{"id":"GO:0048076","count":1},{"id":"GO:0021532","count":1},{"id":"GO:0071555","count":1},{"id":"GO:1990697","count":1}]},{"hash":"151382348865452227","title":"Cardiac morphogenesis and coronary vasculature development","description":"This cluster is dominated by GO terms tied to heart development and the formation of coronary vasculature, including right ventricle formation, ventricular trabecula morphogenesis, endocardial differentiation, and vasculogenesis in the coronary vessels. The presence of a single obsolete term does not detract from the overall cardiac-development theme. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0003219","count":5},{"id":"GO:0060979","count":5},{"id":"GO:0003169","count":5},{"id":"GO:0003241","count":5}]},{"hash":"489982602722405985","title":"Cell adhesion and developmental morphogenesis","description":"The Top Terms show a combination of cell adhesion (homophilic/heterophilic adhesion) and broad developmental/morphogenesis processes (sarcomere organization, skeletal system development, ossification, neuron migration, salivary gland branching). This suggests proteins in the cluster contribute to tissue organization and cell interactions during development, rather than a single tissue-specific pathway. Symbiont entry into host cell appears as a less central term, likely noise relative to the main adhesion/morphogenesis theme.","confidence":"Medium","size":10,"edges":5,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045214","count":6},{"id":"GO:0046718","count":6},{"id":"GO:0001764","count":6},{"id":"GO:0001501","count":6},{"id":"GO:0043931","count":6}]},{"hash":"750703834421139313","title":"Tissue Morphogenesis and Apoptosis","description":"The top terms point to tissue development, including camera-type eye morphogenesis and skin morphogenesis, along with apoptotic process, suggesting a link to developmental remodeling. Additional terms reflect broader cellular and stress-related processes (dephosphorylation, catabolic and proteasomal degradation, dsRNA response, IL-18 production), indicating the proteins may participate in multiple, not tightly cohesive pathways. Overall, morphogenesis and apoptosis emerge as the most representative theme, but the cluster contains diverse functions beyond that core.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0048593","count":2},{"id":"GO:0043589","count":2},{"id":"GO:0016311","count":1},{"id":"GO:0009056","count":1}]},{"hash":"540588660624597550","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0070306","count":3},{"id":"GO:0043473","count":3},{"id":"GO:0007369","count":3}]},{"hash":"980686438147028984","title":"Unknown","description":"The top terms span transcription, protein ubiquitination, cytoskeletal dynamics, cell death, ion homeostasis, and growth-factor responses, with no single process unifying them and no observed internal edges, suggesting a heterogeneous set rather than a coherent, shared function.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0002634","count":2},{"id":"GO:0016567","count":2},{"id":"GO:1990416","count":1},{"id":"GO:0031037","count":1}]},{"hash":"738815506240842511","title":"RNA processing and translation initiation regulators","description":"This cluster is enriched for RNA processing/splicing activities (mRNA capping, spliceosome regulation/disassembly, alternative splicing regulation) and for translation initiation control (preinitiation complex formation, translation reinitiation, positive regulation of translation), suggesting proteins involved in both RNA maturation and translational regulation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0000390","count":2},{"id":"GO:0048026","count":2}]},{"hash":"1547442756006623528","title":"Unknown","description":"The top GO terms cover mitotic cell cycle and cell division but also lipophagy, mitochondrial depolarization, kidney size regulation, neural development, and small GTPase signaling, indicating a broad, non-cohesive set of functions rather than a single, clear theme for the cluster.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0051301","count":8},{"id":"GO:0060193","count":7},{"id":"GO:1903434","count":7},{"id":"GO:0000755","count":7}]},{"hash":"1591512248691889427","title":"Developmental signaling and apoptosis regulation","description":"The cluster is enriched for both apoptosis regulation and synaptic development terms (positive regulation of apoptotic process; long-term synaptic potentiation; negative regulation of synaptic plasticity), plus muscle development signals (myoblast fusion) and general growth-related processes (DNA replication, centrosome separation, ribosomal gene transcription, sphingolipid biosynthesis). This pattern points to a cohesive, albeit broad, developmental/survival signaling module that could operate across neural and muscular contexts.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043065","count":3},{"id":"GO:0034351","count":3},{"id":"GO:0001324","count":3},{"id":"GO:0031914","count":3},{"id":"GO:0060291","count":3}]},{"hash":"351010296283778892","title":"Neuronal adhesion and synapse organization","description":"This cluster is dominated by GO terms for cell adhesion and synapse organization (including heterophilic adhesion and VGSC clustering), with associated signaling (Rho) and neural activity-related terms (vocalization behavior). While a few developmental terms appear, the strongest signal ties to neuronal cell\u2013cell adhesion and synaptic assembly.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":3},{"id":"GO:0045162","count":2},{"id":"GO:0060665","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0035023","count":2}]},{"hash":"674532588915726205","title":"Myoblast fusion and cytoskeletal remodeling","description":"The strongest signals are positive regulation of myoblast fusion and actin/cytoskeletal remodeling terms (actin cortical patch assembly, regulation of Rho signaling) along with growth factor-responsive and NFAT-related signaling, suggesting a module that coordinates myogenic precursor fusion with cytoskeletal dynamics and signaling; some developmental terms like skin development may reflect broader shared programs but do not override the dominant fusion/cytoskeleton theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901741","count":4},{"id":"GO:0051384","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0006919","count":3},{"id":"GO:0051533","count":3}]},{"hash":"866503296429258180","title":"Vascular Endothelial Development and Signaling","description":"The cluster is enriched for terms tied to blood vessel formation and endothelial regulation, including positive regulation of vasoconstriction, endothelial cell migration, VEGF signaling, BMP signaling, and ERK/MAPK cascades, pointing to vascular development and endothelial signaling as the common theme. Some terms reference broader development (nervous system development, lens differentiation), but the dominant pattern centers on vascular remodeling and signaling pathways.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045907","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0007018","count":2},{"id":"GO:0043536","count":2}]},{"hash":"1294462150996164216","title":"Transmembrane Transporters for Ions and Metabolites","description":"The top GO terms cluster around transporting a variety of substrates across membranes\u2014sugars (galactose, fucose), multiple ions (Na+, K+, phosphate), nitrate/nitrite, and a vesicular neurotransmitter loading process\u2014indicating a shared function as membrane transport proteins across different substrates and compartments.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":9},{"id":"GO:0006004","count":9},{"id":"GO:0035725","count":9},{"id":"GO:0015706","count":9},{"id":"GO:0015707","count":9}]},{"hash":"1401106862030487680","title":"Chromatin organization and transcription regulation","description":"The top terms are dominated by chromatin-related processes: heterochromatin formation, transcription initiation-coupled chromatin remodeling, DNA replication-dependent chromatin assembly, and nucleus organization. These points suggest a cohesive theme around chromatin dynamics and nuclear architecture governing transcription, despite a couple of outliers related to growth and immune cells. Overall, the cluster appears to center on chromatin state control and transcription regulation.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030466","count":2},{"id":"GO:1904815","count":1},{"id":"GO:0045815","count":1},{"id":"GO:1901837","count":1},{"id":"GO:0035264","count":1}]},{"hash":"2094347953618405885","title":"Multisubstrate Transmembrane Transporters","description":"The top GO terms point to transmembrane transport of a wide range of substrates\u2014ions (K+, Na+, phosphate), nitrate, sugars (galactose, arabinose), vitamin\u2014and related processes like neurotransmitter loading into synaptic vesicles. This cohesive theme suggests the proteins function collectively as membrane transporters handling multiple solutes, even though one term (fucose metabolic process) reflects metabolism rather than transport. Confidence in this label is High.","confidence":"High","size":9,"edges":9,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":7},{"id":"GO:0035725","count":7},{"id":"GO:0015706","count":6},{"id":"GO:0098700","count":6},{"id":"GO:0035461","count":6}]},{"hash":"121555870367183632","title":"ECM Remodeling and Signaling","description":"This set of terms centers on remodeling and modification of tissues and extracellular matrices (tissue remodeling; plasminogen activation; molting cycle with collagen/cuticle) and on signaling processes (p38 MAPK regulation, phosphorylation control) that can govern cell movement (mononuclear cell migration) and responses to stimuli. Although one term is obsolete and another relates to host-symbiont interactions, the dominant pattern is extracellular matrix remodeling tied to signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0052182","count":1},{"id":"GO:0035729","count":1},{"id":"GO:1900744","count":1},{"id":"GO:0090201","count":1},{"id":"GO:0048771","count":1}]},{"hash":"1521436690777642741","title":"Neuro-immune and glial signaling cluster","description":"This cluster is dominated by terms tied to neural and glial activity, including astrocyte chemotaxis regulation, GDNF production by glial cells, regulation of dopamine receptor signaling, prepulse inhibition, and GPCR internalization, plus responses to lipopolysaccharide. These collectively point to a coordinated neuro-immune/glial signaling module. A couple of terms (vascular contraction, reproductive process) are more general or peripheral, but do not override the central theme.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":5},{"id":"GO:0014829","count":5},{"id":"GO:0097029","count":5},{"id":"GO:0060160","count":5},{"id":"GO:0032496","count":5}]},{"hash":"1501215040929711725","title":"Membrane Transport and Vesicle Trafficking","description":"This cluster centers on transmembrane transport processes for multiple ions and sugars (sodium, potassium, nitrate/nitrite, phosphate, galactose) and includes a term for neurotransmitter loading into synaptic vesicles, suggesting a shared role in membrane transport and vesicle trafficking, with a supporting link to actin-regulated trafficking via Arp2/3. ","confidence":"High","size":9,"edges":26,"triangles":34,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:2000601","count":3},{"id":"GO:0015757","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0015706","count":2}]},{"hash":"1032909680227754126","title":"Embryogenesis and Organ Development","description":"The top GO terms point to developmental processes across multiple tissues\u2014in utero embryonic development, ureter and circulatory system development, and extraocular muscle development\u2014supported by cell adhesion, which is key for morphogenesis. While other terms (splicing, hypoxia, immune signaling) are more general, the strongest signal is embryonic/organ development, suggesting this cluster reflects developmental programs. Confidence: Medium.","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033092","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0090394","count":2}]},{"hash":"356842852908766416","title":"Vertebrate Embryonic Development and Patterning","description":"The terms cluster around early development and organ specification across tissues\u2014hindbrain rhombomere formation, ectoderm and pharyngeal system development, digit morphogenesis, hepatic duct formation, heart AV node fate, neuron migration, and endodermal fate decisions\u2014suggesting a coherent theme of vertebrate embryogenesis and tissue patterning rather than a single pathway.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021571","count":8},{"id":"GO:2000836","count":8},{"id":"GO:0060037","count":8},{"id":"GO:0001705","count":8},{"id":"GO:0061011","count":8}]},{"hash":"1530472433312010620","title":"Amino acid catabolism and central carbon metabolism","description":"The GO terms are dominated by amino acid catabolic processes (alanine, leucine, lysine) and core carbon metabolism (glycolysis, gluconeogenesis, 2-oxoglutarate metabolism), with related fatty acid biosynthesis (malonyl-CoA, long-chain FA biosynthesis) and sodium transport suggesting metabolic/energetic activity. The pituitary gland development term seems unrelated noise, but the overall theme centers on amino acid breakdown and central metabolic pathways. ","confidence":"High","size":9,"edges":11,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":2},{"id":"GO:0006814","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0006552","count":2}]},{"hash":"212155974536940045","title":"Inflammation and Calcium Ion Signaling","description":"The top GO terms point to an inflammatory response and several calcium-related processes (calcium ion transport, ER calcium concentration), suggesting a shared theme of immune signaling linked to calcium/ion homeostasis. Other terms appear heterogeneous (methylglyoxal response, antibiotic biosynthesis, otolith mineralization), but the inflammation and calcium/ion regulation terms likely capture the core function of this cluster.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006954","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0097238","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0070901","count":1}]},{"hash":"2210039862167867985","title":"Skeletal muscle regeneration and calcium signaling","description":"Based on the top terms, the strongest signals are skeletal muscle tissue regeneration and release of sequestered calcium into the cytosol, indicating muscle repair and Ca2+-dependent signaling processes. Other terms show related muscle adaptation (denervation response, smooth muscle contraction) and some unrelated protein modification terms, suggesting a primary theme of muscle remodeling and calcium signaling with some background noise.","confidence":"High","size":9,"edges":15,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043403","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0018279","count":1},{"id":"GO:0043686","count":1},{"id":"GO:0045232","count":1}]},{"hash":"2254012566185805191","title":"Ribosome Biogenesis and Translation Machinery","description":"This cluster is dominated by protein synthesis-related terms: translation (GO:0006412), ribosome biogenesis (GO:0042254), and ribosomal subunit export from the nucleus (GO:0000055), with supportive signals from tRNA modification (GO:0006400). Together these indicate a cohesive module handling ribosome assembly, maturation, and core translation processes. Other terms such as brain development or fertilization appear only sparsely and do not define the cluster\u2019s primary function.","confidence":"High","size":9,"edges":25,"triangles":37,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0007420","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0042254","count":2}]},{"hash":"599732852428332447","title":"Proteostasis and protein quality control","description":"The cluster is dominated by GO terms tied to maintaining protein homeostasis: protein complex assembly, proteasome regulatory particle assembly, regulation of ubiquitin-specific protease activity, and cellular responses to misfolded proteins and stress granule disassembly. These point to a cohesive proteostasis network involving folding, modification, and degradation. The DNA replication and viral genome replication terms are less clearly connected and may reflect multifunctional proteins or incidental associations, but the core theme fits proteostasis pathways.","confidence":"Medium","size":9,"edges":32,"triangles":59,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":6},{"id":"GO:0006260","count":5},{"id":"GO:1903715","count":4},{"id":"GO:0019079","count":4},{"id":"GO:0070414","count":4}]},{"hash":"2166560622537092720","title":"Vesicle trafficking and secretory pathway regulation","description":"The cluster features multiple GO terms tied to vesicle handling and secretion (synaptic vesicle exocytosis, regulation of the secretory pathway, MVB size, and lipophagy), suggesting a shared function in membrane trafficking and lipid handling. Some terms like heart contraction and cytogamy are unrelated outliers, but the recurrent themes point to cellular transport and membrane dynamics.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060047","count":6},{"id":"GO:0010796","count":6},{"id":"GO:0031384","count":6},{"id":"GO:2000300","count":6},{"id":"GO:0060193","count":5}]},{"hash":"2262598701030708471","title":"Calcium-regulated exocytosis and membrane repair","description":"Based on the top GO terms, the cluster is enriched for calcium-dependent exocytosis events (lysosome exocytosis; presynaptic dense core vesicle exocytosis) and plasma membrane repair, with egg activation and Rho-regulated signaling supporting the cytoskeletal trafficking needed for vesicle fusion. A few terms (antibiotic response, transcription by Pol III, protein autoprocessing, apoptosis regulation) are less connected, suggesting a core theme of vesicle fusion and membrane restoration with calcium control.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0045945","count":2},{"id":"GO:0071236","count":2},{"id":"GO:0007343","count":2},{"id":"GO:1990927","count":2}]},{"hash":"1338641870873328423","title":"Ubiquitin-ERAD Regulators","description":"The top terms point to ubiquitin-related processes (polyubiquitination, autoubiquitination) and ER-associated degradation, suggesting these proteins are regulators of protein quality control in the ER. They also include terms for TNF signaling, necroptosis, TLR signaling, and negative regulation of apoptosis, indicating roles in immune and cell death pathways linked to ubiquitin signaling. A couple of terms touch transcription by RNA polymerase II and cell cycle, implying broader regulatory functions. Overall, these proteins appear connected through ubiquitin-mediated regulation in ERAD and related signaling.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0000122","count":2}]},{"hash":"365964983530252368","title":"Oocyte Polarity and mRNA Localization","description":"This cluster centers on oocyte development and germ plasm assembly, highlighted by oskar/pole plasm mRNA and protein localization and microtubule polarization, plus RNA processing and translation regulation (NMD, translational fidelity, elongation), suggesting a cohesive role in oocyte polarity and translational control.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":1},{"id":"GO:0045451","count":1},{"id":"GO:0000184","count":1},{"id":"GO:0008103","count":1},{"id":"GO:0006397","count":1}]},{"hash":"711366759982210118","title":"RNA processing and translation regulation","description":"These proteins cluster around RNA metabolism and control of translation, with strong representations of mRNA modification, spliceosome-mediated and alternative mRNA splicing, mRNA stabilization, and regulation of translational initiation (including IRES-dependent viral initiation and termination-reinitiation). The presence of small-subunit processome assembly further supports a link to ribonucleoprotein complexes involved in RNA processing and ribosome assembly, while blastocyst formation hints at developmental contexts where such RNA-based control is crucial. Overall, the cluster appears to group RNA processing/splicing factors and translation regulators.","confidence":"High","size":9,"edges":27,"triangles":37,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001825","count":4},{"id":"GO:0016556","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0034462","count":4}]},{"hash":"2211255741175797008","title":"RNA processing and ribosome biogenesis","description":"The cluster centers on RNA metabolism: spliceosome-mediated mRNA splicing and ncRNA-mediated silencing, rRNA maturation, ribosomal subunit biogenesis, and links to mRNA export and translation initiation, indicating a cohesive RNA processing and ribosome assembly function.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0000398","count":6},{"id":"GO:0000466","count":5},{"id":"GO:0000462","count":5}]},{"hash":"1515807612422046180","title":"Developmental signaling and morphogenesis","description":"The GO terms point to developmental processes (axial mesoderm formation, tricuspid valve morphogenesis) and growth factor\u2013driven signaling (cellular response to hepatocyte growth factor, serine phosphorylation of STAT), coupled with regulation of cell proliferation and apoptosis (re-entry into the mitotic cell cycle; positive regulation of programmed cell death and apoptotic process) and epigenetic control (histone H3-S28 phosphorylation). This suggests a cluster centered on signaling and morphogenesis during development, with coordinated control of growth, differentiation, and death.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042220","count":9},{"id":"GO:0035729","count":8},{"id":"GO:0048320","count":8},{"id":"GO:0000320","count":8},{"id":"GO:0033136","count":8}]},{"hash":"1701206039073935752","title":"Nematode Development and Reproduction","description":"The top GO terms cluster around nematode-specific developmental and reproductive processes, including embryonic axis specification, pharyngeal pumping, molting and cuticle formation, and events related to fertilization such as polyspermy prevention. While some terms point to general embryogenesis and morphogenesis, the prominent nematode-associated processes (pharyngeal function and molting) support a cohesive theme of development and reproduction in nematodes.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043050","count":2},{"id":"GO:0007313","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0048632","count":2},{"id":"GO:0060468","count":2}]},{"hash":"835333276730798796","title":"Tissue remodeling and cell migration","description":"The top GO terms cluster around tissue remodeling, extracellular matrix processing (plasminogen activation), and cell movement (mononuclear cell migration). HGF stimulus and p38MAPK regulation indicate signaling pathways that drive morphogenesis and migration, with some terms hinting at organ/tissue-specific remodeling (trophoblast giant cell differentiation, mammary gland epithelial proliferation). Collectively, these proteins likely participate in remodeling processes and migratory signaling rather than a single, narrow function, justifying this label.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0052182","count":3},{"id":"GO:0035729","count":3},{"id":"GO:1900744","count":3},{"id":"GO:0048771","count":3},{"id":"GO:0090201","count":3}]},{"hash":"1265209182439895412","title":"Diverse Substrate Transmembrane Transport","description":"This cluster centers on proteins annotated with a broad set of transmembrane transport functions across many substrates\u2014vitamins, xenobiotics, ions like potassium, sugars, trehalose, nitrate, selenite, and neurotransmitter loading into synaptic vesicles. The variety of substrates and the strong presence of transmembrane transport terms suggest a general membrane transporter role rather than a single-substrate specialist.","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":9},{"id":"GO:0006855","count":9},{"id":"GO:0071805","count":7},{"id":"GO:0042908","count":7},{"id":"GO:0042891","count":6}]},{"hash":"1225438102193221978","title":"Synaptic signaling and plasticity","description":"The cluster shows multiple GO terms tied to neuronal communication and synaptic regulation, including positive regulation of dopamine uptake, synapse assembly, ERK signaling, receptor signaling, and responses to cocaine. These converge on a neuronal signaling/plasticity theme, suggesting the proteins function together in synaptic signaling networks. A couple of outliers (cell wall catabolic processes and heart development) are less consistent with this theme, but do not override the dominant neuronal focus.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016998","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0009253","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0051586","count":3}]},{"hash":"1198106823312425909","title":"Neural signaling and sensory perception","description":"This cluster is dominated by nervous system-related GO terms: dopaminergic synaptic transmission, visual perception and learning, and behavioral response to cocaine, along with ERK1/2 cascade regulation, suggesting a focus on neural signaling and sensory processing. A few outlier terms (immune response to dsRNA, macrophage chemotaxis, heart development) are present but do not define the group. ","confidence":"Medium","size":9,"edges":28,"triangles":36,"max_degree":8,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0043330","count":8},{"id":"GO:0071333","count":8},{"id":"GO:0001963","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0010759","count":5}]},{"hash":"1918636306972257739","title":"Neural signaling and synaptic function","description":"These proteins cluster around neuronal communication, with enrichment in GABAergic signaling, dopaminergic synaptic transmission, excitatory postsynaptic potentials, and postsynaptic membrane organization. Ion transport (sodium and potassium) and membrane depolarization further reflect neuronal excitability, consistent with locomotory behavior and conditioned taste aversion. Overall, the cluster represents neural signaling and synaptic function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001661","count":7},{"id":"GO:0071805","count":7},{"id":"GO:0035725","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0007214","count":7}]},{"hash":"1422723727050357709","title":"Cardiac Development and Conduction","description":"The terms cluster around heart structure and electrical function: regulation of SA node action potential, Purkinje-to-ventricular signaling, left ventricular and outflow tract morphogenesis, and calcium release in cardiac muscle, all pointing to cardiac development, conduction system, and excitation\u2013contraction coupling. Additional terms about stress-induced hypertrophy and calcium handling reinforce the cardiac theme. A couple of terms (ossification and thermogenesis) appear peripheral but do not override the heart-centric signal.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0003151","count":8},{"id":"GO:1903244","count":8},{"id":"GO:0043931","count":8}]},{"hash":"1695908111436415138","title":"Amine acetylation and polyamine metabolism","description":"The top GO terms cluster around acetylation events of amines and polyamines (spermidine acetylation, putrescine acetylation, and peptidyl-lysine N6-acetylation), alongside related metabolic processes (acetoin catabolic, mycothiol biosynthesis). This points to a cohesive theme of acetylation-based regulation and amine metabolism within the group, though a few terms like sporulation, angiogenesis, and melatonin biosynthesis appear as less directly connected noise. Confidence reflects how tightly the terms align around acetylation and polyamine metabolism rather than broader, less-related processes.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":2},{"id":"GO:0030187","count":2},{"id":"GO:0045150","count":2},{"id":"GO:0010125","count":2},{"id":"GO:0032918","count":2}]},{"hash":"495700438625674295","title":"Male Reproductive Development and Cell Cycle","description":"The cluster is enriched for terms related to male reproductive development (prostate gland development, male sex differentiation) and core cell cycle processes (mitotic cell cycle, cell division) as well as steroid hormone receptor complex assembly, pointing to a theme of hormone-driven regulation of proliferation in reproductive tissues. Some terms are broader or less relevant (e.g., striatum development), but the dominant signals link reproductive development with cell division.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030850","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0046661","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0006463","count":4}]},{"hash":"2169088562713657583","title":"Developmental Morphogenesis Signaling","description":"The proteins are tied to developmental and morphogenetic processes across multiple tissues (ear and lung morphogenesis, broader multicellular development, melanocyte migration, orbitofrontal cortex development) and are linked to key signaling pathways (FGFR, VEGF/PDGFR, STAT phosphorylation), suggesting a cohesive theme of growth-factor\u2013driven development and tissue formation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0070640","count":2},{"id":"GO:0042517","count":2},{"id":"GO:0042473","count":2}]},{"hash":"1122361230069495138","title":"Neuroimmune signaling and glial regulation","description":"The top GO terms span nervous system functions (locomotory behavior, prepulse inhibition, dopamine receptor signaling) alongside glial activity (astrocyte chemotaxis, glial cell-derived neurotrophic factor production) and immune responses (response to lipopolysaccharide, dendritic cell differentiation). This pattern points to a cohesive theme where neural signaling is modulated by glial and immune interactions, rather than a single isolated pathway.","confidence":"Medium","size":9,"edges":7,"triangles":2,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":7},{"id":"GO:2000458","count":6},{"id":"GO:0014829","count":6},{"id":"GO:0097029","count":6},{"id":"GO:0060160","count":6}]},{"hash":"1288673455346650992","title":"Ubiquitin-Mediated Regulation and Signaling","description":"The top GO terms cluster around ubiquitin-dependent proteolysis (proteasome/ERAD, histone ubiquitination) and key signaling and cell-cycle processes (NF-kappaB, JNK cascades; apoptosis; spindle checkpoint), plus links to DNA replication initiation and ion channel regulation, suggesting a cohesive theme of ubiquitin-driven regulation of signaling, cell cycle, and genome maintenance.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0030433","count":4},{"id":"GO:0070535","count":4},{"id":"GO:0007249","count":4},{"id":"GO:0009048","count":3}]},{"hash":"2217923962440145070","title":"Unknown","description":"The top GO terms cover a highly diverse mix of processes (lipoteichoic acid and siderophore biosynthesis, phenylpropanoid and bile acid metabolism, nonribosomal peptide biosynthesis, fatty acid metabolism, phenylacetate catabolism, seed coat development, and bioluminescence) across different organisms, with no single coherent function linking them. Therefore, no reliable, specific cluster label can be assigned.","confidence":"","size":9,"edges":34,"triangles":71,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":4},{"id":"GO:0010214","count":3},{"id":"GO:0019290","count":3},{"id":"GO:0009698","count":3},{"id":"GO:0008206","count":3}]},{"hash":"1795821820764073992","title":"RNA processing and translation regulation","description":"Dominant translation term (GO:0006412) with 6 proteins, complemented by RNA-processing and RNA-silencing activities (rRNA processing, snoRNA processing, regulatory ncRNA-mediated gene silencing, RISC complex assembly). This pattern suggests a cluster centered on RNA metabolism and the control of translation through RNA-guided processes. A few plant-development terms appear incidental rather than core to the cluster. Overall, the label captures the main shared function of RNA processing and translation regulation.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:1901194","count":1},{"id":"GO:0006364","count":1},{"id":"GO:0090502","count":1},{"id":"GO:0035280","count":1}]},{"hash":"295240039318212135","title":"Diverse Small-Molecule Biosynthesis and Catabolism","description":"The GO terms include biosynthesis and catabolism of steroids (glucocorticoids, testosterone, androgens), vitamins/cofactors (retinol, phylloquinone, tetrahydrobiopterin), and fatty acids, plus antibiotic response and sporulation, indicating involvement in multiple small-molecule metabolic pathways rather than a single function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0006704","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0045150","count":2},{"id":"GO:0061370","count":2}]},{"hash":"1132497804486629398","title":"Axon Guidance and Neural Development","description":"Most terms center on axon guidance signals (semaphorin-plexin signaling pathway involved in axon guidance; axon extension in axon guidance; sensory neuron axon guidance; sympathetic neuron projection guidance; retinal ganglion cell axon guidance) and neural development topics (neural crest cell migration in autonomic nervous system development; otic placode development). Growth factor receptor signaling terms (VEGF and HGF receptors) are also linked to neural development contexts, reinforcing a theme of signaling governing neural patterning and connectivity. Overall, the cluster reflects axon guidance and broader neural development processes.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0048010","count":2},{"id":"GO:1902287","count":2},{"id":"GO:1905040","count":2},{"id":"GO:0048846","count":2}]},{"hash":"1914591765674523973","title":"Viral Integration and Transposition","description":"The terms strongly point to genome mobility activities: proviral latency establishment, DNA integration and transposition, RNA-templated DNA synthesis, and related viral entry steps, indicating a cohesive theme of viral genome integration and transposition (retroelement-like processes) within the cluster.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0075713","count":6},{"id":"GO:0046718","count":6},{"id":"GO:0015074","count":6},{"id":"GO:0075732","count":5},{"id":"GO:0039651","count":5}]},{"hash":"1575761415507816620","title":"Stress response and calcium-regulated development","description":"Primarily enriched for stress response, with notable calcium signaling regulation and some developmental terms (astrocyte differentiation, neural crest development). This pattern suggests proteins linked to stress-responsive signaling that can modulate Ca2+-dependent development, rather than a single, cohesive pathway. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006950","count":7},{"id":"GO:0085014","count":7},{"id":"GO:0000278","count":2},{"id":"GO:0048708","count":1},{"id":"GO:0099566","count":1}]},{"hash":"1919942204201427826","title":"Viral genome integration and proviral latency","description":"This cluster centers on GO terms like viral entry into the host nucleus, establishment of integrated proviral latency, DNA integration, RNA-templated DNA biosynthesis, and DNA replication/recombination, all pointing to a viral life cycle involving genome integration and latency within the host. Some terms about symbiont entry/apoptosis and stress responses appear tangential but still reflect virus\u2013host interactions. Overall, the theme is viral genome integration and proviral latency with associated DNA metabolism.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0075732","count":3},{"id":"GO:1903704","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0039651","count":3}]},{"hash":"1483703702514777390","title":"Rho-GPCR Cardiovascular Signaling","description":"The cluster shows enrichment for Rho-mediated and GPCR signaling, plus cardiovascular-related processes like positive regulation of blood pressure and cardiac ventricle development, suggesting a cohesive theme around heart/vessel signaling. Some terms are more general or unrelated (e.g., electron transport chain), indicating heterogeneity, so confidence is Moderate (Medium).","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":2},{"id":"GO:0048484","count":2},{"id":"GO:0045777","count":2},{"id":"GO:0035025","count":2},{"id":"GO:0022900","count":2}]},{"hash":"1751033416691238682","title":"Neuronal wiring and synaptic endocytosis","description":"The top GO terms point to neural development and synaptic organization\u2014regulation of synaptic vesicle endocytosis, commissural axon guidance, paranode region localization, and neuronal migration to the hypothalamus\u2014along with circadian rhythm links. While some outliers touch vascular or skeletal processes (VEGF signaling, endochondral bone growth), the dominant theme is neural wiring and synaptic function.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:1900242","count":4},{"id":"GO:0060982","count":3},{"id":"GO:0042748","count":3},{"id":"GO:2000427","count":3},{"id":"GO:0021828","count":3}]},{"hash":"1381009555893567196","title":"Cardiovascular morphogenesis with Notch signaling","description":"This cluster centers on heart development and vascular formation, with terms like ventricular trabecula myocardium morphogenesis, endocardial cushion cell development, and dorsal aorta morphogenesis, plus cell-matrix adhesion and positive regulation of Notch signaling. While some terms touch on other organ morphogenesis (ear, palate), the dominant theme is cardiovascular morphogenesis and Notch pathway involvement.","confidence":"High","size":9,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0007160","count":3},{"id":"GO:2000737","count":2},{"id":"GO:0003222","count":2},{"id":"GO:0061444","count":2}]},{"hash":"245092247367436433","title":"Ubiquitin-mediated degradation and signaling","description":"Top GO terms are centered on ubiquitination (protein ubiquitination, autoubiquitination) and related pathways, including an obsolete ubiquitin-dependent ERAD reference. The presence of regulation terms for TNF signaling, toll-like receptor signaling, apoptosis, and cell cycle suggests this cluster captures proteins involved in tagging substrates with ubiquitin to regulate degradation and thereby modulate multiple signaling pathways, including receptor turnover such as Wnt catabolism. Overall, the shared theme is ubiquitin-driven control of protein stability and signaling.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0051865","count":3},{"id":"GO:1903265","count":2},{"id":"GO:0071901","count":2},{"id":"GO:0016567","count":2}]},{"hash":"1626955099347953424","title":"Golgi-ER Vesicle Trafficking","description":"Proteins in this cluster are dominated by GO terms related to vesicle transport associated with the Golgi and ER (intra-Golgi transport, ER-to-Golgi transport, Golgi ribbon formation, Golgi-related vesicle fusion, and retrograde endosome-to-Golgi transport), suggesting a cohesive role in Golgi- and ER-centered vesicle trafficking. The presence of broader vesicle fusion terms like synaptic vesicle exocytosis and autophagosome docking further supports a general vesicle trafficking context surrounding Golgi-associated processes.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006891","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0042144","count":2},{"id":"GO:0090161","count":2},{"id":"GO:0006888","count":2}]},{"hash":"1587719116165023581","title":"Mitotic Division and Golgi-ER Trafficking","description":"The cluster's top GO terms are dominated by mitosis and cell division (mitotic spindle assembly, mitotic cell cycle, cell division, cell population proliferation) as well as secretory pathway vesicle trafficking (COPII-coated vesicle budding, retrograde vesicle-mediated transport, Golgi to ER). This combination suggests proteins involved in both cell division and Golgi\u2013ER transport, with some growth-related and mechanical stimulus-related signals reinforcing a proliferative, cytoskeletal context.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0090114","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0006890","count":3}]},{"hash":"1680627140703491298","title":"DNA transcription regulation and immune signaling","description":"This cluster is best described by core transcriptional control (DNA-templated transcription and its regulation) and DNA integration, with immune-related signaling terms (IL-4 response and IFN-\u03b2 production) indicating a connection to immune modulation. A few terms point to developmental processes (trachea cartilage, cornea, skeletal muscle), but the strongest signal is transcriptional regulation with immune signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071353","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0032072","count":1}]},{"hash":"1813968482067662195","title":"Actin dynamics and vesicle trafficking regulation","description":"The cluster is dominated by actin-related processes (actin filament organization, Arp2/3-mediated actin nucleation, actin cortical patch assembly, plasma membrane tubulation) and membrane trafficking activities (synaptic vesicle endocytosis, retrograde Golgi-ER transport, regulation of Golgi organization, Rho signaling). This suggests a cohesive module where cytoskeletal remodeling supports vesicle trafficking and Golgi dynamics, with one heart development term appearing but not defining the group.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":3},{"id":"GO:0097320","count":2},{"id":"GO:0007015","count":2},{"id":"GO:2000601","count":2},{"id":"GO:0000147","count":2}]},{"hash":"2213205074997168723","title":"Angiogenesis and Cardiovascular Development Signaling","description":"This cluster is dominated by GO terms tied to VEGF receptor signaling and hepatocyte growth factor response, plus developmental processes like axial mesoderm formation and tricuspid valve morphogenesis, suggesting a core theme of vascular and heart development signaling. There are additional terms related to cell cycle re-entry and apoptosis that commonly accompany developmental and proliferative contexts, though one term (pollen recognition) appears to be an outlier. Overall, the set points toward angiogenesis and cardiovascular morphogenesis as the central theme.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048010","count":5},{"id":"GO:0035729","count":4},{"id":"GO:0048544","count":4},{"id":"GO:0048320","count":3},{"id":"GO:0000320","count":3}]},{"hash":"436139980935656758","title":"Nucleolar rDNA transcription regulation and chromatin remodeling","description":"Most terms converge on transcription control and chromatin remodeling, with strong emphasis on rDNA/nucleolar transcription regulation (e.g., negative regulation of rRNA transcription by RNA Pol I, rDNA heterochromatin formation) and chromatin assembly, suggesting a core function in coordinating transcription with chromatin state at rDNA loci. Some terms (xenobiotic response, vitellogenesis) may reflect broader regulatory roles but do not override the dominant nucleolar transcription/chromatin theme.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0045815","count":3},{"id":"GO:0006335","count":3},{"id":"GO:0051290","count":3}]},{"hash":"1589387235085577467","title":"Otic development and neural axon guidance","description":"The cluster is dominated by ear development terms (otic placode development, inner ear auditory receptor cell differentiation) and neural connectivity terms (axon guidance and axon extension, semaphorin-plexin signaling). While vascular-related terms (VEGF signaling, renal artery morphogenesis) appear, the strongest signals are ear development coupled with neural guidance, suggesting a coordinated inner ear development and neural wiring function.","confidence":"High","size":8,"edges":4,"triangles":1,"max_degree":2,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0061441","count":4},{"id":"GO:1900242","count":4},{"id":"GO:0019233","count":3},{"id":"GO:0042491","count":3},{"id":"GO:0045429","count":3}]},{"hash":"1578112042637738469","title":"Protein quality control and stress response","description":"The terms cluster around transcriptional regulation, protein folding/unfolding, ubiquitin-related processes (SCF disassembly, deubiquitinase activity), and degradation of misfolded proteins, plus a link to respiration regulation and neuronal transport. This points to a shared theme of cellular stress response and protein homeostasis (proteostasis), with some outliers such as viral replication and specific transport terms that may reflect broader regulatory connections. Overall, the cluster seems to reflect proteostasis and stress signaling rather than a single, precise pathway.","confidence":"Medium","size":8,"edges":26,"triangles":44,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0032869","count":3},{"id":"GO:0043335","count":3},{"id":"GO:1990171","count":3},{"id":"GO:1990048","count":3}]},{"hash":"2283654660145183993","title":"Embryonic nervous system and pancreas development","description":"The top GO terms cluster around embryonic morphogenesis, especially nervous system formation (midbrain, dorsal spinal cord, neural crest migration) and pancreatic development (endocrine pancreas development, pancreatic cell differentiation) with related digestive tract morphogenesis. This suggests a cohesive theme of early tissue development across nervous system and pancreatic lineages.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0031018","count":3},{"id":"GO:0030901","count":3},{"id":"GO:0090190","count":2},{"id":"GO:0001755","count":2}]},{"hash":"944293711801071141","title":"Serine and Threonine Metabolism","description":"This cluster centers on serine and threonine-specific metabolic processes, including D-serine biosynthesis, L-serine catabolism, L-threonine biosynthesis, and related intermediates like 2-oxobutyrate. The presence of multiple GO terms tied to serine/threonine biosynthesis and catabolic pathways (even with some obsolete terms) suggests the proteins function together in interconverting these amino acids and their derivatives, indicating a coherent serine/threonine metabolism module.","confidence":"Medium","size":8,"edges":24,"triangles":36,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009310","count":5},{"id":"GO:0046360","count":5},{"id":"GO:0018871","count":5},{"id":"GO:0070179","count":5},{"id":"GO:0019343","count":5}]},{"hash":"909034640474091292","title":"Notch and VEGF signaling in smooth muscle development","description":"This cluster centers on terms related to smooth muscle differentiation and vascular development, including negative regulation of myotube differentiation, positive regulation of smooth muscle cell differentiation, and regulation of VEGF signaling, plus Notch pathway regulation and cardiac ventricle development. While a couple terms touch on neural structures (paranodal junction assembly, synaptic plasticity), the dominant theme ties to vascular smooth muscle differentiation and signaling pathways governing cardiovascular development. Confidence: Medium","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010832","count":2},{"id":"GO:0071318","count":2},{"id":"GO:0031915","count":2},{"id":"GO:2000721","count":2},{"id":"GO:0045747","count":2}]},{"hash":"1198565834749483632","title":"Nuclear Chromatin Regulation and RNA Processing","description":"This cluster is enriched for terms tied to chromatin state (pericentric heterochromatin formation, histone mRNA metabolism) and core nuclear RNA processing activities (tRNA processing, spliceosome assembly, mRNA splicing, RNA Pol II transcription termination, nuclear import). The convergence on chromatin maintenance and RNA processing suggests proteins functioning in nuclear gene expression regulation and chromatin organization.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1990141","count":6},{"id":"GO:0009414","count":6},{"id":"GO:0008334","count":6},{"id":"GO:0008033","count":6},{"id":"GO:0006369","count":6}]},{"hash":"1901479172893069141","title":"Neural development and dendrite morphogenesis","description":"Top GO terms are dominated by nervous system development and neuronal morphogenesis, including neural tube closure, forebrain development, and dendrite morphogenesis, indicating a coherent theme of neural development. Some terms relate to DNA replication and cell cycle re-entry, but these are secondary to the neural development signal. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0007275","count":7},{"id":"GO:0048813","count":7},{"id":"GO:0070059","count":7},{"id":"GO:0001843","count":7}]},{"hash":"1365888835940880036","title":"RNA interference and RNA processing","description":"This cluster is dominated by RNA silencing machinery signals: siRNA processing and RISC complex assembly are explicit GO terms, indicating involvement in RNA interference pathways. Additional RNA processing terms (rRNA processing) and translation-related terms suggest broader RNA metabolism and protein synthesis context, but the strongest theme is RNAi/RISC-related processes.","confidence":"High","size":8,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0002181","count":2},{"id":"GO:0090502","count":2},{"id":"GO:0099132","count":1},{"id":"GO:1990090","count":1},{"id":"GO:0032543","count":1}]},{"hash":"2077313154540009980","title":"RNA processing and translation factors","description":"The cluster is dominated by GO terms related to translation initiation and reinitiation and mRNA processing (spliceosome-mediated splicing, polyadenylation), suggesting the proteins function mainly in RNA maturation and protein synthesis. Developmental terms appear less frequently and may be incidental. Overall, the core theme is RNA processing and translation machinery.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0070306","count":1}]},{"hash":"902882172017647064","title":"Spliceosome-Mediated mRNA Processing","description":"The cluster is dominated by GO terms tied to RNA splicing and processing (positive regulation of mRNA splicing via spliceosome; alternative mRNA splicing via spliceosome; small-subunit processome assembly) along with mRNA modification, stabilization, and regulation of translational initiation (including IRES-dependent translation). This suggests a cohesive group of proteins functioning in RNA processing and post-transcriptional control, with a secondary signal toward translation regulation. The blastocyst formation term is less connected to the core theme but may reflect broader developmental contexts in which these RNA processes are active.","confidence":"High","size":8,"edges":25,"triangles":40,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":5},{"id":"GO:0010610","count":5},{"id":"GO:0001825","count":4},{"id":"GO:0016556","count":4},{"id":"GO:0075522","count":4}]},{"hash":"1184010072671455960","title":"Neural development and synapse assembly","description":"The terms point strongly to neural processes: ROBO signaling for axon guidance, juxtaparanode localization, synapse assembly, learning, and mechanosensory responses, all indicative of neuronal development and connectivity. A couple of terms (ossification, photoreceptor differentiation) are more peripheral, likely reflecting broader developmental annotations, but the core signal supports nervous system development and synaptic organization.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035385","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0007612","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0007275","count":2}]},{"hash":"165989346938525204","title":"Ribosome biogenesis and RNA maturation","description":"This cluster is dominated by terms related to ribosome production (ribosome biogenesis, large subunit preribosome assembly, LSU rRNA maturation) and RNA processing (snoRNA localization, translation, mRNA splicing, ncRNA-mediated regulation). The convergence on rRNA maturation, preribosome assembly, and translation suggests a nucleolar RNA-processing and ribosome assembly role, with auxiliary links to RNA regulation and stress-responsive mRNA stability. ","confidence":"Medium","size":8,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006355","count":2},{"id":"GO:1902626","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0048254","count":2}]},{"hash":"344884610264827662","title":"Embryogenesis and Developmental Regulation","description":"The GO terms are centered on developmental processes such as myoblast fusion, multicellular organism development, and blastocyst development, with notes on regulation of differentiation, indicating a core theme of development and tissue formation. Additional terms for remodeling and molecular control (mammary gland involution, protein sumoylation regulation, protein autoprocessing) support a broader developmental biology and growth-control context.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007520","count":4},{"id":"GO:2001015","count":3},{"id":"GO:0016540","count":3},{"id":"GO:0060056","count":3},{"id":"GO:0033234","count":3}]},{"hash":"2266550061962178134","title":"Basement membrane remodeling and angiogenesis","description":"These proteins cluster around extracellular matrix remodeling and vascular development, with terms for basement membrane organization, collagen catabolic process, blood vessel maturation, and vascular smooth muscle cell proliferation, plus proteolysis and related redox processes. A few unrelated terms (B cell differentiation, imaginal disc eversion, drinking behavior) appear but do not dominate the theme. Overall, the cluster seems to represent basement membrane remodeling and angiogenesis-related functions.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010727","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0001955","count":1},{"id":"GO:0071711","count":1},{"id":"GO:0045579","count":1}]},{"hash":"1884484854850772361","title":"EGFR-Ras-MAPK signaling and endothelial migration","description":"This cluster centers on growth factor\u2013driven signaling, with strong representation of EGFR signaling, positive regulation of ERK1/2 cascade, small GTPase/Ras signaling, and PI3K activity, coupled with endothelial cell migration and vascular remodeling. While some terms (like thymus development) are broader or less specific, the dominant theme is EGFR/Ras/MAPK pathway signaling linked to cytoskeletal changes and endothelial movement. ","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0032869","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0043536","count":2}]},{"hash":"421775606842319615","title":"Axon fasciculation and myelination","description":"This cluster is enriched for neural development terms centered on axon organization and myelination: axonal fasciculation, cell\u2013cell adhesion (homophilic/heterophilic), positive regulation of synapse assembly, and paranodal/juxtaparanodal junctions, plus myelination. These collectively point to a module governing axon wiring and myelin formation during neural development.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0042552","count":4},{"id":"GO:0001501","count":4}]},{"hash":"2077083315188284601","title":"ECM Collagen Synthesis and Tissue Development","description":"The top GO terms center on collagen biosynthesis and breakdown, skin and cartilage development, and tissue morphogenesis (including vascular and podocyte contexts), pointing to a cohesive theme of connective tissue extracellular matrix production/remodeling and associated development. Immune-related terms appear as minor components and do not define the main function of the cluster.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043588","count":6},{"id":"GO:0032964","count":5},{"id":"GO:0003431","count":5},{"id":"GO:0060414","count":5},{"id":"GO:2000478","count":5}]},{"hash":"482791580398995840","title":"Post-transcriptional RNA processing and translation regulation","description":"This cluster is dominated by post-transcriptional RNA processing and translation-related GO terms: rRNA maturation, regulation of mRNA splicing, mRNA modification, poly(A) tail shortening, and translation. The inclusion of oskar mRNA localization (pole plasm) and a blastocyst formation term suggests a developmental context where localized RNA processing/translation occurs. Overall, the set points to coordinated RNA metabolism that controls translation, rather than a single enzymatic activity.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":3},{"id":"GO:0060213","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0045451","count":2}]},{"hash":"1889274579709726304","title":"Neural development and GABAergic signaling","description":"This cluster\u2019s top GO terms center on neural development (spinal cord development; oligodendrocyte progenitor proliferation) and regulation of GABAergic synaptic transmission, suggesting a theme around neural lineage progression and inhibitory signaling. Other terms touch growth regulation, signaling (GTPase activity), and basic cellular processes (rRNA maturation, protein transport), which may reflect broader cellular roles but do not override the strongest neural development signal. Overall, the neural development/synaptic regulation theme best fits the data.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0050830","count":2}]},{"hash":"1678520833349425081","title":"Unknown","description":"The terms span behavioral, metabolic, immune, and host-interaction processes with no single unifying theme, and there are no edges linking the proteins, so there is no coherent function to label; therefore this cluster is Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036343","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0030245","count":1},{"id":"GO:0035641","count":1},{"id":"GO:0010710","count":1}]},{"hash":"745462934568376089","title":"Proviral integration and transcription","description":"The terms cluster around retroviral biology: DNA integration into the host genome, establishment of proviral latency, and various stages of viral transcription, with mentions of host-virus interactions and cell cycle modulation. This suggests a cohesive theme centered on proviral genome life-cycle control rather than general cellular processes.","confidence":"Medium","size":8,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097043","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0015074","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0090074","count":1}]},{"hash":"1821475489121597932","title":"Developmental signaling and morphogenesis","description":"These GO terms cluster around embryonic development and signaling\u2014BMP signaling upregulation, axial mesoderm formation, and broader developmental patterning\u2014with additional terms for morphogenesis across tissues (salivary gland boundary specification, vagina development), vascular development (angiogenesis and lymphangiogenesis regulation), and neural differentiation (dendrite development, myelination, sodium channel clustering) as well as MAPK cascade regulation. The common thread is developmental signaling guiding tissue morphogenesis and maturation.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030513","count":8},{"id":"GO:0007432","count":8},{"id":"GO:0060068","count":8},{"id":"GO:0048320","count":8},{"id":"GO:0050773","count":8}]},{"hash":"1048167180227128901","title":"Developmental gene regulation and cellular stress responses","description":"This cluster shows strong signals for developmental processes such as forebrain development, neural tube closure, skeletal and multicellular development, alongside transcriptional regulation (DNA-templated transcription, regulation of gene expression). It also includes stress-related terms (ER stress\u2013induced apoptotic signaling, cadmium response) and a defense term, suggesting a module where developmental programs intersect with cellular stress responses. Confidence in this label is Medium.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0030900","count":3}]},{"hash":"1800743746945884803","title":"Brown fat differentiation and lipid response","description":"GO terms show a clear emphasis on brown fat cell differentiation and responses to fatty acids, with supportive signals from lipopolysaccharide response, oxidative detoxification, and proteolysis. The presence of skeletal system development and cell adhesion hints at broader tissue remodeling, but the dominant theme is adipogenic differentiation and lipid signaling. This label captures the core function with medium confidence due to some functional spread across terms. ","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":3},{"id":"GO:0070542","count":3},{"id":"GO:0006508","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0098869","count":2}]},{"hash":"1998740895678680977","title":"Developmental signaling and apoptotic regulation","description":"This cluster combines GO terms tied to developmental processes (face and vagina development), retinoic acid signaling, circadian regulation of gene expression, and both positive and negative regulation of apoptosis, along with Rho-mediated signaling. The common thread appears to be regulation of signaling pathways that govern development and cell survival/gene expression, rather than a single, narrowly defined process, hence a label centered on developmental signaling and apoptotic regulation.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0034351","count":3},{"id":"GO:0032922","count":2},{"id":"GO:0043433","count":2}]},{"hash":"1862049472793896915","title":"Neuroimmune signaling and glial activation","description":"The cluster mixes neural processes (prepulse inhibition, dopamine signaling regulation, GDNF production) with glial-specific functions (astrocyte chemotaxis regulation, glial-derived neurotrophic factor production) and immune responses (lipopolysaccharide response, dendritic cell differentiation, xenobiotic stimulus response). This pattern points to neuroimmune crosstalk and glial involvement in modulating neural activity and immune signaling, rather than a single isolated pathway. Probable theme: neuroimmune and glial signaling.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":4},{"id":"GO:0042493","count":4},{"id":"GO:2000458","count":3},{"id":"GO:0014829","count":3},{"id":"GO:0097029","count":3}]},{"hash":"2092073579989071477","title":"Pain and thermogenesis with neuro-immune signaling","description":"The top GO terms cluster around neural processing of pain and temperature-related responses (sensory pain, temperature stimulus, diet-induced thermogenesis, calcium release signaling), supplemented by immune and glial/neural interactions (astrocyte chemotaxis, dendritic cell differentiation, LPS response, dopamine signaling). This suggests a theme of pain/thermogenesis intertwined with neuro-immune signaling, though the network connectivity appears weak, so the association is moderate rather than strong.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0002024","count":8},{"id":"GO:2000458","count":7}]},{"hash":"126290790210414526","title":"Innate immune activation and vascular remodeling","description":"This cluster is dominated by GO terms for innate immune response, acute inflammatory response, immunological synapse formation, and protease/zymogen activation, along with endothelial cell migration. A couple terms relate to development or transcription regulation, but the prevailing theme points to immune signaling and inflammation with vascular remodeling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043542","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0090103","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0001771","count":3}]},{"hash":"1468918366980055820","title":"Fungal beta-glucan cell wall biosynthesis","description":"The strongest signal is the fungal-type beta-glucan biosynthetic process, suggesting these proteins are tied to fungal cell wall construction. Other highlighted terms indicate related cellular processes (morphogenesis, DNA replication) and stress/quality-control responses (unfolded protein response, chaperone-related refolding, heat response), implying a cluster of cell wall biosynthesis components that also engage protein-folding and stress-response mechanisms in fungi.","confidence":"Medium","size":8,"edges":7,"triangles":2,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000902","count":7},{"id":"GO:0006260","count":6},{"id":"GO:0070880","count":4},{"id":"GO:1902037","count":4},{"id":"GO:0031204","count":4}]},{"hash":"211010756087273956","title":"T Cell Signaling and Ubiquitin-Mediated Proteolysis","description":"The cluster is dominated by GO terms for immune signaling (T cell receptor signaling, TNF signaling, non-canonical NF-kappaB) and protein turnover (deubiquitination, SCF- and APC-dependent proteolysis), suggesting a module where immune signaling is closely linked to ubiquitin-proteasome\u2013mediated regulation and transcriptional control. Minor terms like Wnt PCP and amino acid metabolism indicate additional signaling cross-talk but do not override the core theme. ","confidence":"Medium","size":8,"edges":21,"triangles":25,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":3},{"id":"GO:0033209","count":3},{"id":"GO:0016579","count":3},{"id":"GO:0006357","count":2},{"id":"GO:0010972","count":2}]},{"hash":"1247086421936297768","title":"Metabolic Salvage and Catabolic Pathways","description":"The top GO terms point to a collection of catabolic and salvage processes across different substrates (nicotinamide/nicotinate salvage, uracil and creatinine catabolism, nitrogen utilization) with some signaling/ion homeostasis elements (cAMP response, monoatomic anion homeostasis). This mix suggests a broad metabolic processing theme rather than a single specific pathway, hence a label focused on metabolic salvage and catabolism. ","confidence":"Medium","size":8,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006769","count":3},{"id":"GO:1904524","count":3},{"id":"GO:0002047","count":3},{"id":"GO:0006212","count":3},{"id":"GO:0019358","count":3}]},{"hash":"1258741709199773694","title":"Developmental signaling and cell migration","description":"Based on the top terms, the proteins are enriched for cell migration and multicellular organism development, with supporting signals from cellular responses to peptide hormones and cAMP, and involvement in apoptosis. This pattern points to a theme of signaling pathways that regulate development and cell movement, with other terms representing ancillary regulatory processes. Therefore, a concise label capturing this developmental signaling and motility theme fits best.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0071320","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0071375","count":2},{"id":"GO:0006915","count":2}]},{"hash":"1774432753088670868","title":"Steroid Hormone Biosynthesis and Female Reproductive Development","description":"Based on the top GO terms, the cluster is enriched for testosterone biosynthetic process, androgen metabolic process, prostaglandin biosynthetic process, lipid hydroxylation, and developmental terms related to female gonad, uterus, and mammary gland. These collectively point to steroid hormone production and female reproductive development as the central theme, with some plant-specific terms (brassinosteroid homeostasis, camphor catabolic process) likely reflecting cross-kingdom annotations but not dominating the signal.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":6},{"id":"GO:0008209","count":6},{"id":"GO:0019383","count":4},{"id":"GO:0008585","count":4},{"id":"GO:0030879","count":4}]},{"hash":"1637086751094527424","title":"Unknown","description":"The terms cover prostaglandin biosynthesis, reproductive development, hormone biosynthesis, vitamin D response, chromatin organization, and plant metabolism, with no single shared function linking the proteins. This appears to be a mixed or multi-functional cluster rather than a coherent pathway.","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0019383","count":2},{"id":"GO:0061370","count":2}]},{"hash":"1278562060441649973","title":"Ubiquitin-Mediated Proteolysis and NF-\u03baB Signaling","description":"The cluster is dominated by ubiquitin-dependent protein catabolic processes (including SCF-dependent proteasomal degradation and various ubiquitin linkages: K48, K63, K6) and by regulation of protein ubiquitination, which points to a proteostasis core. The presence of mitotic G1 DNA damage checkpoint signaling and autoubiquitination suggests cell-cycle and damage-response links, while positive regulation of canonical NF-\u03baB signaling indicates downstream signaling coordination. Together, these terms define a cohesive theme around ubiquitin-mediated proteolysis with broader regulatory signaling roles.","confidence":"High","size":8,"edges":14,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0042787","count":4},{"id":"GO:0031571","count":4},{"id":"GO:1902916","count":4},{"id":"GO:0070534","count":4}]},{"hash":"1147017502484726028","title":"Protein modification and cell cycle control","description":"This cluster centers on post-translational modification of proteins\u2014sumoylation and neddylation\u2014with regulation of the cell cycle (including endomitotic cycles). While other terms touch on growth regulation, autophagy, and metabolism, the strongest theme is ubiquitin-like modifications coordinating cell cycle processes, likely in a yeast-like context.","confidence":"Medium","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":5},{"id":"GO:0051726","count":4},{"id":"GO:0050832","count":3},{"id":"GO:0045116","count":3},{"id":"GO:0061504","count":3}]},{"hash":"1536713541798847787","title":"Cardiac development and cell cycle regulation","description":"This cluster centers on heart development pathways, with strong signals for axial mesoderm formation and tricuspid valve morphogenesis, and includes proliferative cues (mitotic cell cycle, DNA replication, re-entry into mitotic cell cycle) and growth signaling (HGF response) that commonly accompany cardiac development. The presence of apoptotic regulation terms also aligns with developmental remodeling. Altogether, the functions point to a coherent cardiac development module intertwined with cell cycle control.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0006260","count":8},{"id":"GO:0035729","count":7},{"id":"GO:0048320","count":7},{"id":"GO:0000320","count":7}]},{"hash":"2121477274855708663","title":"Calcium signaling and cytoskeletal dynamics","description":"Based on the GO terms, the proteins cluster around signaling events that involve calcium release into the cytosol, regulation of GTPase activity, and cytoskeletal remodeling (axon guidance, pinocytosis, mechanical response, platelet activation). Although some terms touch on development or defense, the dominant theme is signaling pathways coordinating growth, movement, and endocytosis via calcium signaling and small GTPases, suggesting a general signaling/cytoskeleton remodeling cluster.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0048549","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1364239158903319894","title":"Neural development and synaptic signaling","description":"This cluster\u2019s top GO terms are dominated by neural-related processes: axonal fasciculation, PNS myelination, synapse assembly, locomotion, and response to cocaine, with NF-kappaB signaling potentially involved in neuronal activity. A few terms (lung development, T cell homeostasis, DNA replication, apoptotic process) appear less central, but the neural development/synaptic theme is the strongest signal.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007250","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0007413","count":2},{"id":"GO:0031987","count":2},{"id":"GO:0022011","count":2}]},{"hash":"154662381399044919","title":"Glutathione-dependent detox and metabolic stress","description":"The dominant GO signals in this cluster relate to glutathione metabolism and detoxification: glutathione metabolic process and glutathione derivative biosynthetic process, detoxification of nitrogen compounds, toxin catabolic process, and a starvation response. While a couple of terms (sensory perception of smell, translation-related term) are less clearly connected, the core set points to redox balance, detoxification, and metabolic stress adaptation. This supports a cohesive label centered on detox and glutathione metabolism rather than unrelated functions.","confidence":"Medium","size":8,"edges":20,"triangles":22,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":3},{"id":"GO:0002182","count":3},{"id":"GO:1901687","count":3},{"id":"GO:0070458","count":3},{"id":"GO:0042994","count":3}]},{"hash":"282188640395082210","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000480","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0000472","count":2}]},{"hash":"1086601370820471492","title":"Rho-Dependent Filopodium/Microspike Assembly","description":"The top GO terms are centered on Rho-regulated actin dynamics, with direct emphasis on filopodium and microspike assembly, indicating actin cytoskeleton remodeling as the main shared function. The other terms are diverse and less representative of a single theme, so the most informative label is about cytoskeletal organization driven by Rho signaling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0030035","count":2},{"id":"GO:0071049","count":1},{"id":"GO:0009048","count":1}]},{"hash":"2149832069429883419","title":"Retroviral integration and latency","description":"The GO terms cluster around retroviral life cycle steps: viral entry into the host nucleus, reverse transcription (RNA-templated DNA biosynthesis), DNA integration, and establishment of proviral latency, with supporting roles in DNA replication and recombination. A few terms related to symbionts and development appear as noise, but the dominant theme is proviral genome integration and latency.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075732","count":2},{"id":"GO:1903704","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0039651","count":2}]},{"hash":"1938817077605236584","title":"Neuronal GTPase signaling and synaptic regulation","description":"The cluster centers on small GTPase signaling (Ras, Rho) and regulation of the JNK cascade, together with synaptic processes such as glutamate secretion, chemical synaptic transmission, and NMDA receptor activity. It also includes neural development/migration terms (radial glia process extension) and a behavior-related term (grooming regulation), all pointing to a cohesive theme of neuronal signal transduction linked to synaptic function and development. This combination suggests a specific, cohesive module rather than unrelated functions.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0021816","count":2}]},{"hash":"993397079270750538","title":"Eye development and vision","description":"This cluster's top GO terms center on eye-related biology: camera-type eye photoreceptor cell differentiation and visual perception, with supporting signals such as VEGF pathway regulation in ocular contexts. Additional terms touch on microglia development and immune-cell signaling, but the strongest signal points to eye development and visual function.","confidence":"High","size":8,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0014005","count":4},{"id":"GO:1901223","count":4},{"id":"GO:0060219","count":4},{"id":"GO:1900746","count":4},{"id":"GO:0007601","count":4}]},{"hash":"1201702790840834376","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms are strongly centered on ubiquitin-mediated proteolysis (ubiquitin-dependent protein catabolic process; SCF-dependent proteasomal ubiquitin-dependent protein catabolic process; ubiquitin-dependent ERAD), indicating a cohesive theme of proteostasis and protein turnover. While several development-related terms (neural tube closure, lens fiber differentiation, gastrulation, pigmentation) appear, they are more likely downstream or contextual roles influenced by protein turnover rather than the cluster\u2019s core function. Thus the primary representation is ubiquitin-mediated degradation, with developmental terms as broader context.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0031146","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0001843","count":5}]},{"hash":"1079779382182137641","title":"Ribosome biogenesis and LSU export","description":"The top GO terms are dominated by ribosome-related processes: maturation of 5.8S rRNA and LSU rRNA, and export of the large ribosomal subunit from the nucleus, indicating involvement in ribosome assembly and rRNA processing. Additional terms reflect broader cellular processes or annotation breadth, but the core signal is ribosome biogenesis.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0090110","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0043547","count":2}]},{"hash":"844099193478405282","title":"Ubiquitin-Dependent Regulation and Antiviral Defense","description":"The top GO terms show a strong emphasis on ubiquitin-mediated protein turnover (ubiquitin-dependent proteolysis and polyubiquitination) and several regulatory/defense-related processes (antiviral transcription inhibition, suppression of viral release, circadian regulation, synapse assembly, and necroptosis regulation). This suggests a functional cluster centered on ubiquitin-driven regulation that modulates signaling and antiviral responses, with additional peripheral roles in synaptic organization and circadian control. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0000209","count":3},{"id":"GO:0060386","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0031664","count":2}]},{"hash":"158141810934851384","title":"Mitochondrial Metabolite Transporters","description":"GO terms indicate transport of various metabolites across mitochondrial membranes (citrate, ATP/ADP, CoA, pyrimidine nucleotides, PLP) and related substrates, suggesting mitochondrial carrier proteins that mediate inner-membrane transport.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006843","count":7},{"id":"GO:1990544","count":7},{"id":"GO:0036233","count":7},{"id":"GO:0031921","count":7},{"id":"GO:0070542","count":7}]},{"hash":"793783473805364319","title":"Chromatin remodeling and nuclear organization","description":"These proteins are enriched for GO terms centered on chromatin dynamics and nuclear structure, such as transcription initiation-coupled chromatin remodeling, DNA replication\u2013dependent chromatin assembly, and nucleus organization, with additional links to chromatid cohesion and nucleolar transcription regulation. This points to a cohesive cluster of chromatin regulators and nuclear architectural components rather than cytoplasmic pathways, though a few terms touch on development. ","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904815","count":1},{"id":"GO:0045815","count":1},{"id":"GO:1901837","count":1},{"id":"GO:0035264","count":1},{"id":"GO:0006335","count":1}]},{"hash":"50838338971982155","title":"Gonadal Development and Steroid Hormone Biosynthesis","description":"The cluster is dominated by terms for female gonad development, uterus, and mammary gland development, along with testosterone biosynthetic and prostaglandin biosynthetic processes, indicating a theme centered on reproductive organ development and lipid-based hormone pathways. Lipid oxidation and hydroxylation terms further support hormone metabolism, though a few plant-specific terms appear; the core signal points to reproductive development tied to steroid/hormone biosynthesis. ","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":5},{"id":"GO:0060065","count":5},{"id":"GO:0019383","count":4},{"id":"GO:0061370","count":4},{"id":"GO:0030879","count":4}]},{"hash":"95230423379791722","title":"Embryonic development and stem cell maintenance","description":"The cluster centers on developmental processes (blastocyst formation, mesodermal differentiation, third ventricle development) and transcriptional regulation, with a notable term for maintenance of stem cell populations and chromatin-associated regulation (RITS localization, histone methylation). This combination suggests proteins act in coordinating embryogenesis with stem cell states and transcriptional control, despite some older/obsolete annotations.","confidence":"Medium","size":7,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001825","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0034630","count":1},{"id":"GO:0048333","count":1},{"id":"GO:0021678","count":1}]},{"hash":"253691679406120933","title":"Vertebrate embryonic development and neural maturation","description":"These proteins show a strong association with vertebrate development, as evidenced by GO terms like in utero embryonic development, gastrulation, pituitary gland development, and neuron maturation. While some metabolic (alanyl- and propylene catabolic processes) and stress-response terms appear, the developmental annotations are the clearest signal, suggesting a role in embryonic patterning and neural differentiation. The occurrence of alternative splicing hints at regulatory control during development as well.","confidence":"Medium","size":7,"edges":16,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0021983","count":3},{"id":"GO:0042853","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0042551","count":3}]},{"hash":"386911349287011807","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0042551","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0042853","count":2}]},{"hash":"1017439768199365672","title":"Mitochondrial dynamics and stress signaling","description":"The dominant GO terms relate to mitochondria\u2014cardiolipin metabolism, mitochondrial fusion under stress, membrane potential regulation, and morphogenesis\u2014with aging and lipid localization also appearing. Other terms (ERAD, excretion, cadherin adhesion, TLR3 signaling) are less central but may reflect broader cellular responses; overall, the cluster seems to group proteins involved in mitochondrial function and stress signaling.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001302","count":4},{"id":"GO:1900210","count":2},{"id":"GO:1990046","count":2},{"id":"GO:0010918","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1636970736239768744","title":"Rho GTPase\u2013driven migration and polarity","description":"This cluster centers on small GTPase signaling (Rho family) and regulation of GTPase activity, with functions in cytoskeletal remodeling, podosome assembly, and cell migration, plus establishment of epithelial cell polarity. Vesicle trafficking terms (COPI coating, vesicle budding, exocytosis) suggest coordinated membrane dynamics during polarized movement. Overall, the dominant theme is Rho GTPase\u2013mediated control of motility and polarity, with some associated trafficking processes.","confidence":"Medium","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0090162","count":3},{"id":"GO:0043547","count":3}]},{"hash":"22440249740166687","title":"Diverse solute transporters","description":"This cluster shows multiple transmembrane transport GO terms across a broad set of substrates (glucose, galactose, trehalose, nitrate, urate, vitamins, selenite, dehydroascorbic acid) plus a vesicular neurotransmitter loading term, indicating a group of membrane transporter proteins with diverse substrate specificities rather than a single, tight pathway.","confidence":"High","size":7,"edges":16,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":7},{"id":"GO:0097080","count":7},{"id":"GO:0015771","count":7},{"id":"GO:0015706","count":7},{"id":"GO:0098700","count":7}]},{"hash":"1622437138956204315","title":"Muscle contraction and cardiac electrophysiology","description":"The top GO terms cluster around muscle excitation-contraction and cardiac electrical activity: smooth muscle contraction involved in micturition; regulation of ventricular cardiac muscle cell membrane repolarization; cardiac muscle cell action potential involved in contraction; and bundle of His cell action potential. These collectively point to muscle physiology, particularly cardiac/smooth muscle excitability. Other terms like pain response, circadian regulation, and CO response are broader or peripheral to this core theme, so the dominant signal remains muscle contraction and cardiac electrophysiology.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060083","count":4},{"id":"GO:0060307","count":4},{"id":"GO:0086002","count":4},{"id":"GO:0048265","count":4},{"id":"GO:0050856","count":4}]},{"hash":"598027722411492816","title":"Unknown","description":"The GO terms span nuclear localization, Gram-negative outer membrane assembly, TGF-beta signaling regulation, cell cycle/cytokinesis, chaperone-related refolding, synapse organization, neuron differentiation, and motility\u2014all very disparate processes. There is no clear common function tying these proteins together, so Unknown with None confidence is appropriate.","confidence":"","size":7,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1900180","count":1},{"id":"GO:0043165","count":1},{"id":"GO:0030512","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0051085","count":1}]},{"hash":"1879135722153120395","title":"Neuronal Synapse Signaling and Development","description":"The top GO terms cluster around neuronal function: calcium ion transport across membranes, neurotransmitter secretion, and clustering of voltage-gated potassium channels\u2014all core to synaptic signaling and neuron activity. Also, protein localization to the synapse and terms related to visual perception and vocalization behavior point toward nervous system-specific functions. While there are some general terms about cell cycle and development, the strongest cohesive theme across the terms is neuronal/synaptic signaling and development.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":2},{"id":"GO:0035418","count":2},{"id":"GO:0071625","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0007269","count":2}]},{"hash":"493956245497092938","title":"Neuronal development and microtubule organization","description":"The cluster is dominated by GO terms for neuron differentiation, neuron migration, and mechanosensory behavior, along with microtubule-associated processes such as cytoplasmic microtubule organization and microtubule nucleation. This points to a group of proteins coordinating neuronal development and cytoskeletal dynamics critical for neurite outgrowth and mechanosensory signaling. Some translation and polymerization terms may reflect broader cellular remodeling, but the central theme is neuronal development linked to microtubule regulation.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030182","count":7},{"id":"GO:0031122","count":6},{"id":"GO:1905789","count":6},{"id":"GO:0001764","count":6},{"id":"GO:2000767","count":6}]},{"hash":"2124166463996206622","title":"Nuclear transcription and chromatin dynamics","description":"This cluster is dominated by GO terms tied to nuclear processes: transcription regulation by RNA polymerase II, chromatin remodeling (histone exchange and nucleosome mobilization), and DNA recombination. These point to a shared function in controlling chromatin state and transcription in the nucleus, with some ancillary terms relating to signaling and apoptosis that are less central to the core theme. Overall, the most representative theme is nuclear transcriptional control and chromatin dynamics.","confidence":"Medium","size":7,"edges":14,"triangles":11,"max_degree":6,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0045944","count":3},{"id":"GO:0000742","count":3},{"id":"GO:0043486","count":3},{"id":"GO:0042766","count":3},{"id":"GO:0006310","count":3}]},{"hash":"556794010381043554","title":"Protein and Polyamine Acetylation","description":"The top GO terms are dominated by acetylation-related processes, including N-terminal protein acetylation, peptidyl-lysine N6 acetylation, spermidine acetylation, and putrescine acetylation, plus related catabolic/biosynthetic steps. A few terms (sporulation, melatonin biosynthesis, mycothiol biosynthesis, centromeric cohesion) are less directly tied to acetylation but do not override the acetylation signal. Overall, the cluster appears to center on acetylation/modification pathways.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":2},{"id":"GO:0030187","count":2},{"id":"GO:0045150","count":2},{"id":"GO:0010125","count":2},{"id":"GO:0006474","count":2}]},{"hash":"540403156573691083","title":"Neuronal cytoskeleton and differentiation","description":"The term set centers on microtubule dynamics and cytoskeletal organization (cytoplasmic microtubule organization, microtubule nucleation, protein polymerization) and neuronal development processes (neuron migration, neuron differentiation), with additional signals of translation regulation that often accompany cytoskeletal remodeling. While there is one cytokinesis term and an IL-4 response term, the dominant pattern points to cytoskeletal remodeling guiding neuronal differentiation and migration.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0031122","count":5},{"id":"GO:1905789","count":5},{"id":"GO:0001764","count":5}]},{"hash":"1430524959616455563","title":"Unknown","description":"The top GO terms are highly diverse, spanning vesicle formation, teichoic acid transport, uterus development, GTPase regulation, DNA binding, meiotic processes, tRNA clustering, viral processes, and cell division. There is no single coherent biological function or pathway that ties these terms together for this set of proteins, so a meaningful, specific label cannot be assigned beyond Unknown. ","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070676","count":2},{"id":"GO:0015777","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0043388","count":2}]},{"hash":"2098538181434689312","title":"Membrane-anchored regulators of signaling and organelle dynamics","description":"The cluster includes proteins linked to membrane targeting (tail-anchored insertion into the ER) and multiple negative regulatory roles across calcium signaling, mitochondrial fusion, neurotransmitter secretion, and signaling pathways (TLR3), suggesting a theme of membrane-associated regulation of intracellular signaling and organelle dynamics.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071816","count":6},{"id":"GO:0014070","count":6},{"id":"GO:1901340","count":6},{"id":"GO:0000753","count":6},{"id":"GO:0034140","count":6}]},{"hash":"2236096206166169942","title":"Neural-Glial Signaling and Immune Modulation","description":"This cluster centers on brain-related signaling and glial-immune interactions. Terms like regulation of astrocyte chemotaxis and positive regulation of glial-derived neurotrophic factor production point to glial involvement, while dopamine receptor signaling modulation, prepulse inhibition, and response to lipopolysaccharide reflect neural signaling and immune responsiveness. GPCR internalization and stress-related apoptotic pathway regulation further support a neuroimmune/glial module. While some terms are peripheral, the dominant theme is neural communication with glial and immune components, justifying a coherent neural-glial-immune label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000458","count":2},{"id":"GO:0014829","count":2},{"id":"GO:0097029","count":2},{"id":"GO:0060160","count":2},{"id":"GO:0032496","count":2}]},{"hash":"153869751901340823","title":"GPCR\u2013Opsin Signaling and Cardiac Development","description":"The cluster is dominated by GO terms for G protein-coupled receptor signaling, particularly adenosine and adrenergic receptor pathways, along with GPCR-opsin signaling and adenylate cyclase activation, pointing to a coherent GPCR-opsin signaling module. The inclusion of heart development and related cell proliferation terms suggests a cardiac development context where GPCR signaling influences proliferation and signaling cascades. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001973","count":5},{"id":"GO:0071880","count":5},{"id":"GO:0001975","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0022400","count":4}]},{"hash":"1717269926001230266","title":"Neural development and morphogenesis","description":"The cluster contains several neural development terms (dopaminergic neuron axon guidance, radial glial differentiation, sensory perception of sound) alongside broader morphogenesis processes (cell migration in heart development, adhesion, keratinization, ureter maturation). This combination points to proteins involved in developmental differentiation and tissue formation, with a notable emphasis on neural development, though not exclusively. ","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0003273","count":2},{"id":"GO:0007156","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0051796","count":1}]},{"hash":"611557260308247617","title":"Translation initiation and ER-Golgi trafficking in proliferating cells","description":"This cluster shows strong representation of translation initiation terms (translation reinitiation, formation of translation preinitiation complex) together with vesicle trafficking between the ER and Golgi, and markers of cell proliferation and division. The co-occurrence suggests a core theme of active protein synthesis and secretory pathway activity in a proliferative context, with a few outliers related to chromatin regulation or germline-specific processes that are less central to this core function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0006890","count":2},{"id":"GO:0051301","count":2}]},{"hash":"798019914752574578","title":"Cardiac Ion Transport and Action Potential Regulation","description":"The cluster centers on calcium and potassium ion transport and ventricular action-potential regulation, tying to cardiac muscle excitability and membrane repolarization. The presence of ossification, circadian regulation, and stress responses likely reflects broader calcium signaling and general physiological responsiveness rather than a single narrowly defined function.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045188","count":3},{"id":"GO:0098911","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0098703","count":3},{"id":"GO:0071805","count":3}]},{"hash":"883825788072380426","title":"Mitotic Regulation and Development","description":"This cluster groups proteins associated with cell cycle control (kinetochore localization, G2/M transition, mitotic cell cycle, CDK activity) and developmental processes (angiogenesis, heart development, multicellular organism development), with additional signals related to apoptosis, autophagy, and neuronal plasticity. The strongest common thread appears to be coordination of cell division timing with broader developmental programs, rather than a single, narrow pathway. ","confidence":"Medium","size":7,"edges":8,"triangles":4,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034501","count":4},{"id":"GO:0045736","count":4},{"id":"GO:0016239","count":3},{"id":"GO:0000086","count":3},{"id":"GO:0001525","count":3}]},{"hash":"904419053709638282","title":"Dendritic spine morphogenesis and Rac signaling","description":"The dominant GO terms cluster around dendritic spine morphogenesis and development, with supporting terms for lamellipodium and ruffle assembly and Rac signal transduction. This reflects actin-driven remodeling processes typical of neuronal spine formation, often linked to hippocampal development. A few terms are more general (lipase activity regulation, protein transport), but the core signal points to Rac-mediated regulation of spine structure in neurons.","confidence":"High","size":7,"edges":15,"triangles":13,"max_degree":6,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0061001","count":5},{"id":"GO:0010592","count":5},{"id":"GO:0097178","count":5},{"id":"GO:0021766","count":5},{"id":"GO:0016601","count":5}]},{"hash":"2129158214901830077","title":"Negative Regulation of Inflammatory Signaling","description":"This cluster is enriched for terms that dampen inflammatory responses, including negative regulation of TNF production, IL-8 and IFN-\u03b2 production, and repression of TLR signaling and LPS-responsive pathways. In addition, there are terms tied to transcriptional control and mRNA splicing, which suggests these proteins may regulate immune gene expression at transcriptional or post-transcriptional levels. A single term about embryo axis specification is an outlier, but overall the pattern points to immune signaling suppression and gene expression regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0032720","count":1},{"id":"GO:0045292","count":1},{"id":"GO:0032717","count":1},{"id":"GO:0032688","count":1}]},{"hash":"777614195341275560","title":"Cardiovascular Development and Angiogenesis","description":"The strongest terms are angiogenesis and heart development, pointing to cardiovascular formation. Additional signals related to cell cycle, apoptosis, and protein phosphorylation suggest coordinated growth and signaling during development. Some terms (neuronal plasticity, Fc receptor signaling, ABA signaling) are less directly tied to heart formation, but may reflect shared signaling networks; overall, the core theme centers on cardiovascular development and angiogenic processes.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0000086","count":4},{"id":"GO:0043065","count":4},{"id":"GO:0060291","count":4}]},{"hash":"1844725490957122522","title":"TGF-beta Signaling in Development and Innate Immunity","description":"Based on the GO terms, this cluster centers on cellular responses to transforming growth factor beta, including regulation of TGF-\u03b2 production, and is linked with innate immune signaling (innate immune response and IFN-\u03b2 regulation), plus several development-related terms (trachea cartilage, cornea) and muscle differentiation, suggesting a cohesive theme of TGF-\u03b2\u2013mediated development and immune regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":2},{"id":"GO:0032911","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0032072","count":1},{"id":"GO:0032728","count":1}]},{"hash":"1971136798888848500","title":"Integrin signaling and ECM-driven cell adhesion/migration","description":"The cluster is dominated by GO terms for integrin-mediated signaling, cell\u2013matrix adhesion, hyaluronan metabolism, and regulation of extracellular matrix assembly, all pointing to ECM remodeling and adhesion-driven cell movement. Additional terms like substrate-dependent migration, extravasation, and cartilage morphogenesis reinforce a theme of cells interacting with and moving through the ECM, particularly in developmental cartilage contexts. Immune-related terms (T cell activation) may reflect context-dependent interactions but do not override the central ECM-adhesion-migration theme.","confidence":"High","size":7,"edges":10,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":6},{"id":"GO:0034113","count":6},{"id":"GO:0030212","count":6},{"id":"GO:0006929","count":6},{"id":"GO:0002291","count":6}]},{"hash":"116684471117305284","title":"Embryonic development and organ morphogenesis","description":"This cluster is dominated by GO terms related to developmental processes across multiple tissues (eye lens, heart, cranial skeleton, neuron migration, organ induction, and general embryogenesis), indicating a cohesive theme of embryonic morphogenesis and organogenesis rather than a single pathway.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0070306","count":2},{"id":"GO:0001764","count":2}]},{"hash":"819956118870723327","title":"Developmental Growth Signaling Proteins","description":"These proteins appear connected to development and signaling, with GO terms covering retina and skin development, endochondral ossification, and cell proliferation, alongside protein-protein interaction and GTPase activity regulation. The transport-related terms are less central to the main theme, suggesting a broader developmental signaling role rather than a single metabolic pathway. Confidence: Medium","confidence":"","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0043547","count":2}]},{"hash":"377969714021913412","title":"Signaling Regulation and Metabolism","description":"This cluster shows enrichment in terms related to modulation of signaling pathways (negative regulation of Notch, positive regulation of PI3K/Akt signaling, positive regulation of synaptic plasticity) and prostaglandin biosynthesis, alongside several metabolic processes (alanine/valine metabolism, formate catabolism) and even sporulation. The dominant theme is regulatory signaling with metabolic context, justifying a label focused on signaling regulation with metabolic aspects.","confidence":"Medium","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0045746","count":3},{"id":"GO:0001516","count":3},{"id":"GO:0031915","count":3},{"id":"GO:0051897","count":3}]},{"hash":"9261559462866664","title":"Developmental differentiation with cell-cycle regulation","description":"This cluster centers on developmental processes (lymphangiogenesis, trophoblast differentiation, forebrain development) and core gene expression/cell-cycle control (DNA replication, DNA-templated transcription, mRNA stabilization, regulation of DNA binding, G1/S transition). The proteins seem linked to development with concurrent regulation of proliferation and transcription, rather than a single precise pathway, hence a general development-plus-cell-cycle theme is most representative.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001946","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006351","count":1},{"id":"GO:0043392","count":1},{"id":"GO:0060718","count":1}]},{"hash":"449457994260931477","title":"Unknown","description":"The top terms show a highly heterogeneous mix of signaling, cell cycle, stress responses, RNA modification, trafficking, and sensory functions with no clear single biological theme linking them, so a generic Unknown label is most appropriate.","confidence":"","size":7,"edges":14,"triangles":16,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0072356","count":5},{"id":"GO:0010224","count":5},{"id":"GO:0002098","count":5},{"id":"GO:0035330","count":5}]},{"hash":"1108221222483708707","title":"Neuronal development and synaptic signaling","description":"The terms cluster around neural processes (visual perception, dendrite morphogenesis, long-term potentiation, potassium ion transport), indicating a neuronal development/synaptic function theme, despite a few terms related to cell cycle or immune responses that may reflect broader cellular roles or pleiotropy.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043065","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0000086","count":4}]},{"hash":"716111657867284918","title":"Mesodermal and cardiac development signaling","description":"The top GO terms point to mesoderm formation (axial mesoderm formation) and heart morphogenesis (tricuspid valve morphogenesis), alongside signaling events such as HGF response and STAT phosphorylation. The inclusion of cell cycle re-entry and apoptosis regulation fits developmental contexts where proliferation and programmed cell death shape organ formation. While a couple of terms are obsolete or broader, the strongest signals cluster around mesodermal development and cardiac morphogenesis with associated signaling. ","confidence":"High","size":7,"edges":6,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035729","count":6},{"id":"GO:0048320","count":6},{"id":"GO:0000320","count":6},{"id":"GO:0033136","count":6},{"id":"GO:0043068","count":6}]},{"hash":"39685924529546788","title":"Cardiac Electrical Activity and Calcium Handling","description":"The top GO terms cluster around regulation of atrial action potential, Purkinje-to-ventricular signaling, left ventricular morphogenesis, and calcium release/detection in the sarcoplasmic reticulum, which together point to cardiac electrophysiology and calcium signaling in heart muscle. A few terms about ossification, skin development, and ubiquitination appear as minor noise, but the dominant theme supports heart muscle electrical activity and calcium dynamics.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098910","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0071313","count":2},{"id":"GO:0014808","count":2}]},{"hash":"945322307058500672","title":"Immune cell activation signaling","description":"The top GO terms cluster around leukocyte signaling and activation: integrin-mediated signaling, T cell activation, B cell differentiation, regulation of phagocytosis, and neutrophil degranulation. Additional terms like hyaluronan metabolic process and phosphatidylinositol dephosphorylation hint at membrane-related signaling and extracellular matrix interactions that support immune responses. Overall, the proteins appear to participate in immune cell communication and activation rather than a single narrow function.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":3},{"id":"GO:0002291","count":3},{"id":"GO:0030212","count":3},{"id":"GO:0046856","count":2},{"id":"GO:0016126","count":2}]},{"hash":"966575623807433531","title":"Unknown","description":"The GO terms span autophagy (autophagosome assembly), various biosynthetic processes (fucose, heparin proteoglycan, arabinan), and multiple embryonic/developmental processes (gastrulation, mesoderm formation, olfactory bulb development, embryonic skeletal joint development), plus plant-specific salicylic acid signaling. The diversity across kingdoms and processes suggests there is no single cohesive function linking these proteins, so a confident, specific cluster-label is not supported.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000045","count":2},{"id":"GO:0009863","count":1},{"id":"GO:0042353","count":1},{"id":"GO:0045743","count":1},{"id":"GO:0030210","count":1}]},{"hash":"68377975559771931","title":"Oxidative Stress and Xenobiotic Detox Response","description":"These proteins cluster around redox balance and detoxification, highlighted by roles in cellular redox homeostasis and oxidant detoxification, plus responses to xenobiotics and lipopolysaccharide. Additional terms for fatty acid signaling, cAMP response, and apoptosis suggest a broader stress-response module linking redox regulation with stimulus-induced signaling and cell fate decisions.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0032496","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0006915","count":2}]},{"hash":"123932382462852588","title":"Unknown","description":"The terms are scattered across nitrogen regulation, stress responses (ethanol, ascorbic acid), light signaling, growth, and prostaglandin-related metabolism, with no single dominant pathway or strong interaction signal (edges 0). There isn\u2019t a cohesive function tying all proteins together based on the top GO terms provided, so a clear label is not supported.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006808","count":2},{"id":"GO:0045471","count":1},{"id":"GO:0071460","count":1},{"id":"GO:0035264","count":1},{"id":"GO:0002182","count":1}]},{"hash":"154601431916242827","title":"ER-Golgi Vesicle Transport and Exocytosis","description":"The top GO terms point to vesicle trafficking along the secretory pathway, especially ER-to-Golgi and intra-Golgi transport, plus Golgi-to-plasma membrane trafficking and exocytic events such as synaptic vesicle exocytosis and receptor insertion. Some terms also reflect membrane fusion and secretory processes (autophagosome docking, mucus secretion). This convergence supports a label centered on vesicle transport and exocytosis within the ER-Golgi-to-plasma membrane axis.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006891","count":2},{"id":"GO:0006888","count":2},{"id":"GO:1990668","count":1},{"id":"GO:0016079","count":1},{"id":"GO:0016240","count":1}]},{"hash":"562355484759578654","title":"N-terminal peptidyl methylation","description":"The top GO terms are dominated by N-terminal peptidyl methylation\u2014trimethylation and dimethylation of residues like alanine, serine, and glycine\u2014indicating a shared function as N-terminal methyltransferases. Other biosynthetic terms are sparse and do not define the cluster's main theme.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070682","count":2},{"id":"GO:0019619","count":1},{"id":"GO:0060702","count":1},{"id":"GO:0051555","count":1},{"id":"GO:0018012","count":1}]},{"hash":"1140241089933048273","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002938","count":1},{"id":"GO:0000453","count":1},{"id":"GO:0090180","count":1},{"id":"GO:0007527","count":1},{"id":"GO:1903212","count":1}]},{"hash":"965716891736626268","title":"Xenobiotic and oxidative stress response","description":"The cluster's top GO terms cluster around cellular responses to chemical stress and redox changes (e.g., response to xenobiotic stimulus, response to toxic substance, hydrogen peroxide biosynthetic process), with additional terms for ethanol and lipopolysaccharide responses. This suggests proteins involved in detoxification and oxidative stress management rather than a single narrow function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0050665","count":2},{"id":"GO:0045471","count":1},{"id":"GO:0043046","count":1}]},{"hash":"2039134769893896510","title":"Viral entry and proviral DNA integration","description":"This cluster is best described by viral infection and genome integration processes, as reflected by GO terms for viral penetration into the host nucleus, establishment of integrated proviral latency, and DNA integration. Additional terms about symbiont entry and apoptosis hint at host-pathogen interactions, though some metabolic terms appear less related, making the core theme primarily viral entry and proviral integration.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075732","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0015074","count":2}]},{"hash":"890068912628827460","title":"Ubiquitin-dependent proteolysis","description":"Most of the top GO terms cluster around ubiquitination and protein degradation pathways (polyubiquitination, ubiquitination, ubiquitin-dependent protein catabolic process, protein autoubiquitination, and ERAD-related terms). While autophagy and cell cycle terms appear, the dominant signal is ubiquitin-mediated tagging and destruction of proteins, indicating a focus on ubiquitin-dependent proteolysis and protein turnover. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0006914","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1099814752412675748","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007584","count":3},{"id":"GO:0070306","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0007369","count":2},{"id":"GO:2000060","count":2}]},{"hash":"1363425207013921649","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0070306","count":2},{"id":"GO:0043473","count":2}]},{"hash":"1883068696648753572","title":"Axon guidance and neuronal migration","description":"The cluster\u2019s top GO terms are dominated by neuronal development themes: commissural and semaphorin-plexin signaling involved in axon guidance, paranode localization, and GnRH neuronal migration to the hypothalamus. While a few terms touch on vascular or skeletal development, the strongest signal is guidance and migration of neurons, supporting a cohesive theme of axon pathfinding and neuronal placement.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048010","count":3},{"id":"GO:0002175","count":3},{"id":"GO:0060982","count":2},{"id":"GO:0042748","count":2},{"id":"GO:2000427","count":2}]},{"hash":"642404604153631888","title":"Heart and vascular development","description":"This cluster is dominated by GO terms tied to cardiovascular morphogenesis and organ development, including right ventricle formation, coronary and dorsal aorta vasculogenesis, and general organ formation. A single outlier term on synaptic transmission is present, but the overall theme aligns with heart/vascular development and organ morphogenesis.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":3,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0051968","count":7},{"id":"GO:0014909","count":7},{"id":"GO:0007161","count":7},{"id":"GO:1990134","count":7},{"id":"GO:0003219","count":6}]},{"hash":"1542956289221808268","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning male sex differentiation, hormone response, plant development, organ development, cellular localization, and hypoxia regulation, with several terms marked obsolete. There is no clear shared function or pathway linking these proteins, so a cohesive label cannot be assigned beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046661","count":1},{"id":"GO:0060416","count":1},{"id":"GO:0019933","count":1},{"id":"GO:1905793","count":1},{"id":"GO:0080037","count":1}]},{"hash":"1548733772703115866","title":"Bacterial cell wall biosynthesis","description":"Based on GO terms such as peptidoglycan biosynthetic process, D-alanine biosynthetic process, and cell wall organization, the dominant functional theme appears to be bacterial cell wall synthesis. Other terms like ribosome biogenesis and threonyl-tRNA aminoacylation are present but seem ancillary, possibly reflecting broad housekeeping roles of these proteins; overall the cluster most plausibly represents cell wall biosynthesis components.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":1},{"id":"GO:0009252","count":1},{"id":"GO:0042206","count":1},{"id":"GO:0030632","count":1},{"id":"GO:0070178","count":1}]},{"hash":"3295056415190313","title":"Diverse Membrane Solute Transport","description":"The top GO terms cluster around transmembrane transport of a variety of substrates\u2014including sugars (glucose, galactose, trehalose), nitrates, urates, vitamins, selenite, and dehydroascorbic acid\u2014and even neurotransmitter loading into synaptic vesicles, pointing to a general membrane transport role rather than a single substrate. This makes \"Diverse Membrane Solute Transport\" a concise, representative label for the cluster.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":2},{"id":"GO:0097080","count":2},{"id":"GO:0015771","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0098700","count":2}]},{"hash":"1653039953250895825","title":"Ubiquitin-mediated quality control and chromatin organization","description":"GO terms point to ubiquitin-dependent pathways (ERAD) and protein ubiquitination, suggesting a theme of protein quality control and turnover, while chromatin-related processes (heterochromatin organization, chromatin localization) indicate a role in chromatin dynamics. The presence of translation and autoubiquitination terms reinforces proteostasis context, with a subset of obsolete histone modification terms still aligning with chromatin regulation. Some terms like insecticide response and neuron apoptotic regulation appear incidental, and the lack of edges reduces connectivity, but the dominant signals support a combined role in protein quality control and chromatin regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0017085","count":2},{"id":"GO:0043524","count":2}]},{"hash":"448374315253697735","title":"Cell signaling and membrane trafficking","description":"This cluster centers on receptor-mediated signaling and membrane trafficking, including EGFR signaling, regulation of endocytosis, cell polarity and cell shape, immunological synapse formation, and centrosome localization, with some links to ER stress\u2013induced apoptotic signaling and broader cellular responses. The common thread is proteins that coordinate signaling at the membrane with intracellular trafficking and polarity, hence the label \"Cell signaling and membrane trafficking.\"","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0014823","count":1},{"id":"GO:0007173","count":1},{"id":"GO:1902237","count":1},{"id":"GO:0032005","count":1},{"id":"GO:0071963","count":1}]},{"hash":"1978190547019433207","title":"Biosynthesis and Metabolic Processes","description":"The GO terms converge on biosynthetic and metabolic activities (dolichol-linked oligosaccharide biosynthesis, glycosphingolipid biosynthesis, carbohydrate metabolism, quercetin glucoside biosynthesis, xenobiotic-related processes), with an additional neuronal localization term (paranode) and some broad cellular processes, suggesting a cluster of proteins tied to diverse metabolic/biosynthetic roles rather than a single pathway. Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0002175","count":3},{"id":"GO:0005975","count":3},{"id":"GO:0052697","count":2},{"id":"GO:0009247","count":2},{"id":"GO:0070980","count":2}]},{"hash":"1960028275984781764","title":"Embryonic heart development and patterning","description":"The top GO terms point to developmental processes with a clear emphasis on heart development, cardiac field regulation, somite formation, and axial patterning, suggesting the proteins function together in early embryonic organogenesis and patterning rather than a single pathway. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0003270","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0061551","count":2}]},{"hash":"1115870062413921430","title":"Chromatin remodeling and transcription control","description":"The proteins cluster around nuclear chromatin dynamics and transcription regulation, as shown by GO terms for chromatin assembly/remodeling, nucleus organization, transcription initiation-coupled remodeling, and rRNA transcription regulation. Additional links to mRNA splicing regulation and ncRNA-mediated gene silencing suggest broader nuclear gene expression control, supporting a cohesive theme of chromatin remodeling and transcription regulation in the nucleus.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":3},{"id":"GO:0048026","count":2},{"id":"GO:0031047","count":2},{"id":"GO:1904815","count":2},{"id":"GO:0045815","count":2}]},{"hash":"1542972078531254929","title":"Chromatin acetylation and cohesion","description":"Top GO terms indicate a theme around acetylation (peptidyl-lysine N6-acetylation; spermidine and putrescine acetylation) plus chromatin-associated processes (subtelomeric heterochromatin formation; mitotic sister chromatid cohesion). This points to a chromatin modification focus mediated by acetylation. Some terms (melatonin biosynthetic process; angiogenesis) may be peripheral annotations. Overall, the cluster appears to reflect chromatin regulation via acetylation.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":4},{"id":"GO:0006348","count":4},{"id":"GO:0030187","count":3},{"id":"GO:0045150","count":3},{"id":"GO:0010125","count":3}]},{"hash":"1871042456525604698","title":"Nuclear RNA processing and transcription machinery","description":"Based on the core GO terms, the cluster centers on nuclear RNA maturation (rRNA processing) and DNA-templated transcription, suggesting RNA processing and transcription factors/components. Peripheral terms (developmental processes, chromatin modification) are less cohesive with the main signal, so the label reflects the strongest shared function among the proteins.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0051567","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000469","count":1}]},{"hash":"1552043203403507000","title":"Neuronal signaling and synaptic potentiation","description":"This cluster is dominated by GO terms related to neural function: positive regulation of synaptic transmission (glutamatergic), AMPA receptor activity, and long-term potentiation, plus myelination in the peripheral nervous system. While there are also broader developmental/morphogenesis terms (pericardium, palatal shelf) and adhesion/migration signals, the strongest and most consistent signal is synaptic signaling and neural development, justifying a neuronal-synaptic labeling. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003344","count":3},{"id":"GO:0033631","count":2},{"id":"GO:1900273","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0034142","count":2}]},{"hash":"1552906711620025785","title":"Proteostasis, circadian regulation, and inflammation","description":"Based on GO terms, the proteins are enriched for ubiquitin-dependent protein catabolic process and PARylation, pointing to roles in proteostasis and DNA damage signaling. The presence of circadian rhythm regulation and inflammatory response suggests an integration of stress responses with circadian control. Other developmental terms are less cohesive, so a label focusing on proteostasis linked to circadian and inflammatory signaling best fits the cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0006954","count":2},{"id":"GO:0042752","count":2},{"id":"GO:0060529","count":1},{"id":"GO:0070212","count":1}]},{"hash":"302318291902708629","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000390","count":2},{"id":"GO:1904876","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0008380","count":2},{"id":"GO:0051096","count":1}]},{"hash":"1419347950094302497","title":"RNA processing and translation regulation","description":"This cluster\u2019s strongest signals are RNA-centric: negative regulation of translational initiation, translation initiation complex formation, and other components of translational initiation and mRNA processing (spliceosome-mediated splicing, mitochondrial mRNA polyadenylation). While a few terms like carotene biosynthesis and IPP pathway regulation appear, they are less central to the core theme, which is RNA metabolism and control of translation. Overall, the set coalesces around RNA processing and regulation of protein synthesis initiation.","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045947","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0010323","count":2},{"id":"GO:2000627","count":2},{"id":"GO:0097222","count":2}]},{"hash":"1202774227185185520","title":"Mitochondrial apoptotic signaling","description":"The GO terms center on mitochondria-related roles in programmed cell death and cytochrome c release (e.g., hydrogen peroxide-mediated PCD, positive regulation of cytochrome c release, and outer membrane protein insertion), suggesting a mitochondrial apoptosis-focused cluster despite limited direct interactions reported. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010421","count":1},{"id":"GO:1903645","count":1},{"id":"GO:1903638","count":1},{"id":"GO:0071560","count":1},{"id":"GO:0090200","count":1}]},{"hash":"971469181846770478","title":"Ribosome biogenesis and translation machinery","description":"Consistent with strong enrichment for translation and ribosome biogenesis terms, plus rRNA maturation, the proteins appear linked to protein synthesis machinery and ribosomal subunit assembly. Other terms are more tenuous, but the dominant theme is ribosome function.","confidence":"High","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0000466","count":1},{"id":"GO:1903146","count":1},{"id":"GO:1903955","count":1}]},{"hash":"1797799329964555860","title":"Muscle and Nervous System Development","description":"The top GO terms point to skeletal muscle fiber development, fiber-type switching, and cardiac muscle hypertrophy regulation, indicating muscle-specific development and adaptation. At the same time, neural-related terms such as regulation of postsynaptic calcium, detection of calcium ion, and myelination in the peripheral nervous system suggest neural signaling and nervous system involvement. The combination implies a theme around neuromuscular development and signaling, even though some terms (e.g., lung differentiation) may be noise. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0099566","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0035562","count":2},{"id":"GO:0014883","count":2},{"id":"GO:0007114","count":2}]},{"hash":"1802711767918768414","title":"Cardiac muscle electrical activity and contraction","description":"The top GO terms include cardiac muscle cell action potential, bundle of His action potential, and regulation of ventricular cardiac muscle cell membrane repolarization, which together point to cardiac electrophysiology and contraction as the core function of this cluster. While other terms (e.g., smooth muscle contraction, immune signaling) appear, the cardiac-related terms dominate, suggesting the cluster mainly reflects cardiac electrical activity with a contractile function.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060083","count":2},{"id":"GO:0071435","count":2},{"id":"GO:0060307","count":2},{"id":"GO:0086002","count":2},{"id":"GO:0048265","count":2}]},{"hash":"765855495148412505","title":"DNA Damage Response and Chromatin Regulation","description":"The top GO terms cluster around nuclear functions: nucleotide-excision repair, PML body organization, protein localization to the nuclear pore, and regulation of DNA binding and chromatin-related processes (histone methylation, proteasomal degradation). These point to a coherent theme of nuclear genome maintenance and transcriptional/chromatin regulation. Cadmium response also ties into DNA damage stress, while some immune signaling terms may reflect broader stress responses rather than core nuclear processes. The absence of edges suggests annotation-based coherence rather than known interactions in this dataset.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":3},{"id":"GO:0070911","count":2},{"id":"GO:0060334","count":2},{"id":"GO:0034126","count":2},{"id":"GO:0030578","count":2}]},{"hash":"1462451731442708234","title":"ECM adhesion and cartilage morphogenesis","description":"The cluster is dominated by GO terms related to extracellular matrix (ECM) interactions and remodeling, including integrin signaling, heterotypic cell\u2013cell and cell\u2013matrix adhesion, hyaluronan metabolism, and regulation of ECM assembly, plus cartilage morphogenesis and cell migration. There are a few outliers (pigmentation, T cell activation) but the core signal points to ECM adhesion/remodeling in developmental contexts, especially cartilage. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":3},{"id":"GO:0007229","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0034113","count":2},{"id":"GO:0030212","count":2}]},{"hash":"1107213472100763031","title":"ERAD and glycoprotein trimming","description":"Most terms cluster around endoplasmic reticulum quality control: mannose trimming involved in glycoprotein ERAD, trimming steps on ER-associated glycoproteins, and positive regulation of retrograde transport from the ER to the cytosol, all pointing to processing and degradation of misfolded glycoproteins. A couple terms (heart development, p53 signaling) appear as less consistent annotations, but the dominant signal is ER-associated degradation and glycoprotein maturation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:1901798","count":1},{"id":"GO:0045736","count":1},{"id":"GO:0000122","count":1},{"id":"GO:1904382","count":1}]},{"hash":"26820478447151989","title":"Neuroinflammatory and vascular signaling","description":"The proteins in this cluster are linked by immune and inflammatory signaling (response to lipopolysaccharide), MAPK/ERK pathway regulation, lipid signaling via phosphatidylinositol biosynthesis, and vascular/neuronal interactions (blood coagulation, smooth muscle contraction, astrocyte chemotaxis, dopamine signaling). Together these terms point to a theme of inflammatory signaling influencing neural and vascular functions, rather than a single isolated process.","confidence":"Medium","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":2},{"id":"GO:0010513","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0051586","count":2}]},{"hash":"1770850619838488826","title":"Cell division and cytoskeleton dynamics","description":"The cluster centers on mitotic/cell division processes (cell division, mitotic spindle assembly, centriole regulation, nucleus organization) and actin dynamics (actin filament depolymerization), with additional signals of vesicle trafficking (multivesicular body assembly/sorting, exosomal secretion regulation). This suggests a cohesive theme around coordinating division with cytoskeletal remodeling and vesicle trafficking, despite limited connectivity among members.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0000920","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0090307","count":2}]},{"hash":"769494092465952609","title":"Neural development signaling pathways","description":"The cluster centers on neural development and neuron-associated processes (nervous system development, neurogenesis, myelination, sodium channel clustering) and includes key developmental signaling pathways (Hedgehog via Smoothened, Roundabout/Slit, BMP). While angiogenesis and kidney development appear, they can reflect broader developmental signaling context; overall, the proteins seem to participate in neural development signaling modules.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0007224","count":5},{"id":"GO:0022008","count":5},{"id":"GO:0035385","count":5}]},{"hash":"196455704555927586","title":"Unknown","description":"The terms are scattered across diverse regulatory roles (peptidyl hydroxylation, cell cycle regulation, defense response, transcriptional regulation, GPCR signaling, and metabolism) with no single cohesive function linking the proteins. Because there isn\u2019t a clear shared theme, a specific, representative label can\u2019t be confidently assigned beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042264","count":2},{"id":"GO:0046661","count":1},{"id":"GO:0031145","count":1},{"id":"GO:0050689","count":1},{"id":"GO:0035955","count":1}]},{"hash":"2083268826452406890","title":"Mitosis and genome maintenance","description":"The proteins here cluster around cell-cycle control and genome integrity: G2/M transition, chromosome segregation, heterochromatin maintenance, and global nucleotide-excision repair, indicating a cohesive role in ensuring proper mitosis and DNA repair. A few terms related to immune signaling and hormone response may reflect broader or cross-species annotations, but the dominant pattern supports mitosis and genome maintenance.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032020","count":6},{"id":"GO:0006344","count":6},{"id":"GO:0007059","count":6},{"id":"GO:0000086","count":6},{"id":"GO:0090089","count":6}]},{"hash":"480786207778589500","title":"Diverse biosynthesis and carbohydrate metabolism","description":"The GO terms span multiple biosynthetic and catabolic pathways\u2014amino acid, cofactor, nucleotide sugar, and glycan biosynthesis (histidine, cobalamin, GDP-mannose, O antigen, LPS, glycogen) and carbohydrate catabolism (galactose, inosine) as well as central metabolism (oxaloacetate). This suggests a cluster of proteins involved in diverse metabolic biosynthesis rather than a single function.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000105","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0006107","count":2},{"id":"GO:0006148","count":2},{"id":"GO:0019255","count":2}]},{"hash":"524511786945315716","title":"Skeletal muscle development and sarcomere organization","description":"This cluster is enriched for GO terms tied to skeletal muscle fiber development, sarcomere organization, and thin filament assembly, indicating a shared role in muscle structure formation. The dominant muscle-related terms (skeletal muscle fiber development, sarcomere organization, skeletal muscle thin filament assembly) point to muscle assembly and maturation, while other terms may reflect broader developmental processes or context. ","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":4},{"id":"GO:0071963","count":3},{"id":"GO:0090131","count":3},{"id":"GO:0043486","count":3},{"id":"GO:0048741","count":3}]},{"hash":"1494060236778978460","title":"Steroid and lipid metabolism with vitamins","description":"The top GO terms point to biosynthesis and metabolic processes involving steroids (glucocorticoid, testosterone/androgen), various lipids (sphingolipid, methyl-branched fatty acids), and vitamins (retinol, phylloquinone, tetrahydrobiopterin), indicating a cohesive theme around steroid and lipid metabolism with vitamin-related pathways. Some terms like sporulation and acetoin catabolism appear as less related outliers, but do not override the dominant metabolic theme.","confidence":"Medium","size":6,"edges":9,"triangles":4,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006704","count":4},{"id":"GO:0030435","count":4},{"id":"GO:0045150","count":4},{"id":"GO:0061370","count":4},{"id":"GO:0042572","count":4}]},{"hash":"181632614056813888","title":"Unknown","description":"The terms include neural-related processes (synaptic plasticity, learning, vesicle endocytosis) and epithelial/tissue development (epithelial polarity, prostate gland development, skeletal system development), plus stress and stimulus responses. This mix suggests no single cohesive function tying all proteins together, so a concise, representative label cannot be confidently assigned.","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0071456","count":4},{"id":"GO:0031915","count":4},{"id":"GO:0060528","count":4}]},{"hash":"1779481451718446183","title":"Neural signaling and sensory perception","description":"The terms are dominated by neural activity: dopaminergic synaptic transmission, sensory perception (pain and vision), visual learning, behavioral response to cocaine, and ERK signaling, all pointing to neuronal communication and sensory processing. A few terms (macrophage chemotaxis, heart development) are peripheral or pleiotropic, but the central theme remains neural signaling. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001963","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0010759","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0008542","count":6}]},{"hash":"175955359246927608","title":"Embryonic Development and Morphogenesis","description":"The GO terms point to a broad set of developmental and morphogenetic processes across tissues, including BMP signaling regulation, axial mesoderm formation, retina morphogenesis, organ boundary specification, angiogenesis, and neural differentiation. This suggests a cluster tied to embryonic development and tissue morphogenesis rather than a single specific function.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030513","count":4},{"id":"GO:0007432","count":4},{"id":"GO:0060068","count":4},{"id":"GO:0048320","count":4},{"id":"GO:0050773","count":4}]},{"hash":"2260548188041790939","title":"Glycolysis and TCA Cycle","description":"The cluster is dominated by core energy-producing pathways: glycolytic process, pyruvate decarboxylation to acetyl-CoA, and the tricarboxylic acid cycle. These terms indicate central carbon metabolism and ATP generation, with a few ancillary biosynthetic or signaling terms that are less central to the main theme. ","confidence":"High","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":3},{"id":"GO:0006086","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0033512","count":3}]},{"hash":"1339328762901827874","title":"Protein folding and oligomerization","description":"This cluster is dominated by GO terms for proteins forming homooligomers/hexamers and undergoing folding/unfolding, suggesting roles in protein assembly and domain stability. A few terms relate to stress-induced complex remodeling or vesicle transport, but the strongest common theme is oligomerization and folding.","confidence":"Medium","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0043335","count":3},{"id":"GO:1990171","count":3},{"id":"GO:1990048","count":3},{"id":"GO:0071712","count":3}]},{"hash":"278134807642089335","title":"Developmental signaling and cell cycle regulation","description":"This cluster features developmental GO terms (axial mesoderm formation, tricuspid valve morphogenesis) alongside growth factor signaling (response to hepatocyte growth factor), and cell cycle/mitosis terms (mitotic centrosome separation, re-entry into mitotic cell cycle) plus apoptosis regulation (positive regulation of programmed cell death, apoptotic process) and STAT signaling. The common thread appears to be proteins involved in developmental signaling that coordinate cell proliferation, differentiation, and programmed cell death during organogenesis, particularly heart development, with links to mitotic control. ","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007100","count":6},{"id":"GO:0035729","count":5},{"id":"GO:0048320","count":5},{"id":"GO:0000320","count":5},{"id":"GO:0033136","count":5}]},{"hash":"1665396445594522663","title":"Plant cell wall biosynthesis and O-glycosylation","description":"The cluster shows strong enrichment for plant cell wall\u2013related processes: plant-type secondary cell wall biogenesis, mucilage biosynthesis, glucuronoxylan and homogalacturonan biosynthesis, and cell wall organization, plus protein O-linked glycosylation pathways linking to cell wall glycoproteins. This points to a coherent role in constructing and modifying the plant cell wall through polysaccharide biosynthesis and protein glycosylation, despite a few outlier terms.","confidence":"High","size":6,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043403","count":2},{"id":"GO:0009834","count":1},{"id":"GO:0005978","count":1},{"id":"GO:0010192","count":1},{"id":"GO:0010417","count":1}]},{"hash":"100921390386617431","title":"GlcNAc/Glucosamine Metabolism and Pentose Phosphate Pathway","description":"The cluster highlights carbohydrate metabolism terms, including N-acetylglucosamine and glucosamine catabolic processes, UDP-N-acetylglucosamine biosynthesis, and pentose phosphate shunt activities. This points to flux through GlcNAc pathways and PPP, common in bacterial metabolism and cell-wall precursor production; the dormancy-related term suggests stress-adaptation in a host-associated context, but the core signal is carbohydrate metabolism, so this name fits well.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006950","count":2},{"id":"GO:0085014","count":2},{"id":"GO:0006046","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0006043","count":1}]},{"hash":"2210243987607150131","title":"Oxidative stress response and prostaglandin synthesis","description":"This cluster shows strong representation of oxidant detoxification (cellular oxidant detoxification), glutathione derivative biosynthesis, and prostaglandin production via the cyclooxygenase pathway, indicating a cohesive theme around redox homeostasis and inflammatory lipid signaling. Additional terms like response to ethanol and ascorbic acid further support stress-response context, while the translation elongation and cell-matrix adhesion terms may reflect broader cellular processes. Overall, the dominant signal points to antioxidant pathways linked to eicosanoid biosynthesis.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":4},{"id":"GO:0009072","count":3},{"id":"GO:0045471","count":2},{"id":"GO:0071460","count":2},{"id":"GO:0002182","count":2}]},{"hash":"847944639924148774","title":"Cerebellar neuron and glial development","description":"This cluster is dominated by terms tied to cerebellar development and neural differentiation (cerebellar cortex formation, Bergmann glial cell differentiation, neuron development, and regulation of axon regeneration), suggesting a cohesive theme of cerebellar neural development with supporting general signaling terms.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":4},{"id":"GO:0021697","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0008285","count":3}]},{"hash":"80264209052843439","title":"Neurotransmitter signaling and behavioral responses","description":"This cluster is dominated by GO terms for neurotransmitter pathways (glutamate receptor signaling, octopamine, norepinephrine, dopamine metabolism) and behavioral/learning processes (visual learning, mating behavior, pain response, amphetamine response). A single vascular remodeling term is a minor outlier, but the overall signal points to neural signaling coordinating behavior. ","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1900449","count":2},{"id":"GO:0001974","count":2},{"id":"GO:0048047","count":2},{"id":"GO:0071927","count":2},{"id":"GO:0048265","count":2}]},{"hash":"1299321250484409290","title":"Cardiovascular vessel formation and heart development","description":"Top GO terms indicate vasculogenesis and heart/vessel morphogenesis, including coronary vascular morphogenesis, vein formation, and dorsal aorta development, pointing to a cardiovascular development theme. Some terms are obsolete or neural-related, but the dominant signal is heart and blood vessel formation.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0043536","count":2},{"id":"GO:0003219","count":2},{"id":"GO:0060979","count":2},{"id":"GO:0003169","count":2}]},{"hash":"147642657275167596","title":"Developmental Signaling and Gene Regulation","description":"This cluster shows enrichment in transcriptional control (DNA-templated transcription), protein regulation via ubiquitination and deubiquitination, and signaling pathways tied to development (axonogenesis, heart development) as well as stress/hormone signaling (ABA). The inclusion of inflammatory and pain-perception terms may reflect broader sensory and immune roles or cross-kingdom annotations, but the dominant theme appears to be regulation of gene expression and developmental signaling.","confidence":"Medium","size":6,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0006281","count":2}]},{"hash":"1035750648716381558","title":"Neural development and MAPK signaling","description":"Based on the top GO terms, the cluster is enriched for nervous system development (nervous system development, hippocampus development) and signaling pathways involving MAPK cascades (ERK/JNK), plus neuronal apoptotic regulation. The presence of mechanical stimulus response aligns with neural signaling contexts. A few immune-related terms are present but appear less central, so the neural development and MAPK signaling theme best represents the cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0021766","count":5},{"id":"GO:0032729","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0043525","count":5}]},{"hash":"1297204502936625961","title":"DNA maintenance and ubiquitin-proteasome regulation","description":"The cluster\u2019s most represented GO terms center on DNA repair, DNA replication, and DNA recombination, each with two occurrences, alongside two ubiquitin-proteasome\u2013related degradation terms (ERAD and SCF-dependent). This points to a shared role in genome maintenance coupled with protein quality control, with a few peripheral signals related to apoptosis regulation and mitochondrial import, but the core theme remains DNA maintenance with proteostasis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006310","count":2}]},{"hash":"947925871314036165","title":"RNA processing and translation regulation","description":"This cluster centers on RNA metabolism and post-transcriptional control. Dominant terms include mRNA modification, alternative mRNA splicing via the spliceosome, and small-subunit processome assembly, pointing to RNA processing and ribosome biogenesis. Additional terms for mRNA stabilization and regulation of translational initiation (including IRES-dependent mechanisms) suggest a broader theme of post-transcriptional gene regulation at both RNA processing and translation steps. A few terms like blastocyst formation are less clearly connected, but the shared functions mainly revolve around RNA maturation and control of mRNA fate and translation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001825","count":2},{"id":"GO:0016556","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0034462","count":2}]},{"hash":"2119522218323574602","title":"MAPK Signaling Regulators and Proliferation","description":"Top GO terms point to positive regulation of ERK1/ERK2 cascade, serine/threonine kinase activity, and protein autophosphorylation, all core aspects of MAPK signaling and kinase regulation that drive cell proliferation and development. Additional terms like mitotic spindle assembly and brain development support a theme of signaling controlling growth and developmental processes, while some outliers (bioluminescence, COPII vesicle budding) appear less connected. Overall, the cluster appears to consist of proteins that modulate MAPK signaling and related proliferative/developmental pathways. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008218","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0008283","count":2}]},{"hash":"1986117212857068242","title":"Stress-Responsive Transcription Regulation","description":"Most top terms point to transcriptional control by RNA polymerase II and stress-responsive regulation (DNA-templated transcription; transcription from Pol II promoter; responses to heat, oxidative stress, and toxins like sodium arsenite). This indicates the cluster centers on transcriptional programs activated or repressed under cellular stress. A few terms about meiosis or placental development are less directly related, likely annotation spillover, but the dominant signal is stress-induced transcription regulation, with protein homotrimerization suggesting transcription factor complexes.","confidence":"Medium","size":6,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007143","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0061408","count":2},{"id":"GO:1900427","count":2},{"id":"GO:0070207","count":2}]},{"hash":"43352667628669529","title":"Steroid and lipid metabolism with reproductive development","description":"The Top Terms include prostaglandin biosynthetic process and fatty acid omega-oxidation, lipid hydroxylation, plus development terms for female gonad, mammary gland, and uterus. This pattern suggests a cluster centered on lipid-derived hormone production (steroids/prostaglandins) and related metabolic steps, with a prominent tie to reproductive tissue development. Some terms (e.g., camphor catabolic process, brassinosteroid homeostasis) may reflect cross-species annotations of lipid metabolism, but the dominant signal supports a cohesive theme around steroid/lipid metabolism and reproductive development.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":3},{"id":"GO:0019383","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0008585","count":2},{"id":"GO:0030879","count":2}]},{"hash":"1657464998167078081","title":"Multisubstrate membrane transporters","description":"The cluster is dominated by GO terms for transport across the plasma membrane of diverse substrates (glucose, trehalose, selenite, organic cations, vitamins, urate, xenobiotics) and a related metabolic response to glucose availability, indicating a group of membrane transport proteins with broad substrate specificity rather than a single substrate. This justifies a label focusing on multisubstrate membrane transport activity.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":5},{"id":"GO:0097080","count":5},{"id":"GO:0015771","count":5},{"id":"GO:0070715","count":5},{"id":"GO:0035461","count":5}]},{"hash":"606850638709331725","title":"Unknown","description":"The top GO terms are a disparate mix of organ development (ureter, prostate gland, organ identity maintenance), cell cycle regulation, hormone signaling, ubiquitination, lipid biosynthesis, and even stress/metabolite responses, with no clear, single functional theme tying the proteins together. There are no edges or coherent pathway signals to define a specific cluster function, so an Unknown label with None confidence is appropriate.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072189","count":2},{"id":"GO:0007346","count":2},{"id":"GO:2000324","count":2},{"id":"GO:1903071","count":2},{"id":"GO:0030850","count":2}]},{"hash":"423134177478134570","title":"Fertilization and Angiogenesis Signaling","description":"The cluster shows enrichment for reproductive processes (egg activation, acrosome reaction) alongside vascular development (angiogenesis, endothelial migration) and broad signaling pathways (EGF response, PI signaling, IL-12 signaling, Ras regulation). This points to a group of signaling regulators with roles spanning fertilization-related events and angiogenic signaling, rather than a single narrow function.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043536","count":6},{"id":"GO:0007343","count":6},{"id":"GO:0035722","count":6},{"id":"GO:0001525","count":6},{"id":"GO:0032735","count":6}]},{"hash":"174047808092436155","title":"Blood coagulation and fibrinolysis regulation","description":"This cluster is dominated by GO terms related to coagulation and fibrinolysis (blood coagulation, plasminogen activation, fibrinolysis, Factor XII activation, regulation of fibrinogen), with added links to complement activation and lipopolysaccharide response, suggesting an inflammatory-coagulation axis. The central theme is activation and regulation of coagulation and fibrinolytic pathways.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":3},{"id":"GO:0002542","count":3},{"id":"GO:0014909","count":3},{"id":"GO:0030194","count":3},{"id":"GO:0031639","count":3}]},{"hash":"2033645986994883594","title":"Basement membrane remodeling and vessel maturation","description":"The GO terms point mainly to extracellular matrix (basement membrane) remodeling and associated processes (basement membrane organization, collagen catabolic process, proteolysis) and to vascular development (blood vessel maturation), suggesting a coherent theme of ECM remodeling linked to angiogenesis. A few terms are more general or outliers (peptidoglycan catabolic process, imaginal disc eversion), but they do not override the dominant ECM/vascular remodeling signal. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030307","count":2},{"id":"GO:0009253","count":1},{"id":"GO:0010727","count":1},{"id":"GO:0001955","count":1},{"id":"GO:0006508","count":1}]},{"hash":"803941900250360635","title":"Neuronal Synaptic Signaling and Circadian Regulation","description":"The GO terms cluster around neural communication and synaptic activity: membrane depolarization, action potential, postsynaptic membrane organization, and acetylcholine receptor signaling (including nicotine response), with dopaminergic modulation and chloride transport\u2014all core to synaptic transmission. The inclusion of circadian sleep/wake cycle regulation suggests a broader neural signaling framework tied to timing, making this a coherent neuronal signaling and circadian function cluster.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051899","count":6},{"id":"GO:0032226","count":6},{"id":"GO:1905906","count":6},{"id":"GO:0001941","count":6},{"id":"GO:0071294","count":6}]},{"hash":"2246671620042680136","title":"Chromatin remodeling and transcription regulation","description":"This cluster centers on chromatin dynamics and transcription control, with GO terms for nucleosome mobilization, histone modification, RNA Pol II transcription initiation/regulation, and protein localization to chromatin, indicating a shared role in regulating transcription via chromatin state (despite some obsolete terms). ","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":3},{"id":"GO:0061408","count":2},{"id":"GO:0045898","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0043966","count":2}]},{"hash":"747588975097238015","title":"RNA splicing and translation regulation","description":"These proteins show a cohesive pattern around post-transcriptional RNA processing and control of translation: multiple terms point to mRNA splicing and spliceosome assembly (alternative mRNA splicing, small-subunit processome assembly, regulation of mRNA splicing), together with mRNA maturation/stabilization and regulation of translational initiation (including IRES-dependent viral initiation and translational termination-reinitiation). The combination suggests a functional cluster focused on RNA processing and translation control, with a minor note that blastocyst formation appears as a developmental context. ","confidence":"High","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001825","count":3},{"id":"GO:0016556","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0034462","count":3}]},{"hash":"721772773649498934","title":"Chromatin Organization and Histone Modification","description":"The top GO terms cluster around chromatin biology: histone methylation (H3K27, H3K4), nucleosome assembly and positioning, heterochromatin organization, and localization to chromatin. A couple of miscellaneous terms exist but the dominant signal is chromatin structure and epigenetic regulation, justifying this label.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0098532","count":2},{"id":"GO:0016584","count":2},{"id":"GO:0070828","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0071169","count":2}]},{"hash":"2120653605654583812","title":"Vertebrate embryonic development and neural patterning","description":"These terms cluster around broad embryonic development across multiple tissues (ectoderm formation, rhombomere development, pharyngeal system development, digits, hepatic duct, heart node fate) and neural migration, suggesting a general developmental program with neural patterning. The negative regulation of transcription by RNA polymerase II implies transcriptional control mechanisms underlying these processes, rather than a single specialized pathway.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0021571","count":3},{"id":"GO:2000836","count":3},{"id":"GO:0060037","count":3},{"id":"GO:0001705","count":3}]},{"hash":"417119203418786852","title":"ECM Remodeling and Fibrinolysis","description":"This cluster is enriched with GO terms for tissue remodeling, plasminogen activation, fibrinolysis, extracellular matrix disassembly, and blood coagulation, pointing to a coordinated role in ECM proteolysis and the fibrinolytic/coagulation balance. Some other terms appear incidental and not central to the main theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048771","count":2},{"id":"GO:0031639","count":2},{"id":"GO:0042730","count":2},{"id":"GO:0014909","count":2},{"id":"GO:1902947","count":2}]},{"hash":"1515007301651901949","title":"Heart Development and Vascular Growth Signaling","description":"The most represented terms point to cardiovascular development and growth signaling, with cardiac muscle cell growth, vascular endothelial proliferation, and growth-factor signaling (HGF, leptin). A few terms relate to cellular stress and protein turnover, which may accompany cardiac function but do not override the core cardiovascular theme.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902237","count":3},{"id":"GO:0035729","count":3},{"id":"GO:0003247","count":3},{"id":"GO:2000655","count":3},{"id":"GO:2000777","count":3}]},{"hash":"960665254420952569","title":"Acetylation- and polyamine metabolism","description":"The top GO terms show a strong enrichment for acetylation-related processes (spermidine acetylation, putrescine acetylation, peptidyl-lysine N6-acetylation) alongside related metabolic activities (acetoin catabolic, melatonin biosynthetic, mycothiol biosynthetic). This suggests a core theme centered on acetyltransferase-driven modification and polyamine metabolism, even though a few terms like angiogenesis and mitotic cohesion may reflect broader or cross-species annotations. Confidence: Medium","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":5},{"id":"GO:0030187","count":5},{"id":"GO:0045150","count":5},{"id":"GO:0010125","count":5},{"id":"GO:0032918","count":5}]},{"hash":"658390648626834014","title":"N-terminal methyltransferases","description":"The top GO terms are dominated by methylation, with explicit N-terminal peptidyl methylation of alanine, serine, and glycine, plus general methylation. This strongly suggests a group of N-terminal protein methyltransferases; other terms (flavonol, lignin, melatonin biosynthesis) reflect broader SAM-dependent methyltransferase activity across pathways. Despite lack of edges, the shared function is clear: N-terminal protein methylation enzymes.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032259","count":2},{"id":"GO:0051555","count":1},{"id":"GO:0018012","count":1},{"id":"GO:0030187","count":1},{"id":"GO:0035573","count":1}]},{"hash":"986479695289473510","title":"RNA and protein methyltransferases","description":"The GO terms are dominated by methylation-related activities: peptidyl-lysine dimethylation/trimethylation, N-terminal glycine methylation, and rRNA methylation, along with rDNA heterochromatin formation, which together point to enzymes responsible for RNA and protein methylation and associated chromatin regulation. A couple of outliers (antibiotic biosynthesis, responses to amines) appear less central. Overall, the cluster likely groups methylation enzymes involved in transcriptional/chromatin and RNA modification.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018027","count":3},{"id":"GO:0018013","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0018023","count":2},{"id":"GO:0000183","count":2}]},{"hash":"187696997271251099","title":"Cardiovascular and retinal development","description":"GO terms cluster around cardiac development (heart development, ventricular cardiac muscle tissue morphogenesis), and angiogenesis, plus retinal cone cell development, indicating a shared developmental program for heart/vasculature and retina. While metabolic-related terms (leptin response, triglyceride homeostasis) appear as well, the dominant signal is developmental morphogenesis in these tissues, suggesting the cluster reflects developmental regulation rather than a single discrete activity.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904468","count":2},{"id":"GO:1903799","count":2},{"id":"GO:0044320","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0055010","count":2}]},{"hash":"1238896184561476919","title":"Monosaccharide and sugar-acid catabolism","description":"Most GO terms describe diverse catabolic processes for sugars and sugar acids (rhamnose, glycerol, L-arabinose, fucose, D-glucuronate, xylulose, gluconate, etc.), indicating a functional cluster of carbohydrate breakdown. A few terms like quorum sensing and IL-13 response seem peripheral or noisy, but the dominant theme is carbohydrate catabolism. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019301","count":1},{"id":"GO:0019563","count":1},{"id":"GO:0019569","count":1},{"id":"GO:0042355","count":1},{"id":"GO:0019640","count":1}]},{"hash":"582751167327111159","title":"Ribosome biogenesis and translation control","description":"Most top terms center on translation and its initiation/regulation (translation, formation of translation preinitiation complex, IRES-dependent initiation, translation reinitiation, regulation of translation, regulation of translational fidelity) plus ribosome assembly activities (ITS2 cleavage, ribosome disassembly) and fidelity maintenance. Together, these terms point to a cluster of proteins involved in assembling the ribosome and controlling the translation process, including initiation and fidelity. ","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0000448","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0006417","count":1},{"id":"GO:1990145","count":1}]},{"hash":"1905573203806394022","title":"Ribosome Biogenesis and Translation","description":"This cluster hubs around translation and ribosome assembly, with terms for mitochondrial and cytoplasmic translation, ribosomal subunit and preribosome assembly, and translation termination, pointing to proteins involved in ribosome synthesis and protein production in both compartments.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":2},{"id":"GO:0045600","count":1},{"id":"GO:0032981","count":1},{"id":"GO:0090070","count":1},{"id":"GO:0006412","count":1}]},{"hash":"1625837365344138676","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0031564","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0046825","count":1}]},{"hash":"496071426280499311","title":"Axon Guidance and Paranodal Localization","description":"The cluster\u2019s terms cluster around axon development and targeting, including localization to paranode and juxtaparanode regions and semaphorin-plexin signaling for axon guidance, plus neuronal projection extension and guidance (sympathetic neurons, trigeminal nerve organization) and neural crest migration. This points to a cohesive role in axon pathfinding and organization of neural connections, with some broader developmental context. ","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0002175","count":4},{"id":"GO:1902287","count":4},{"id":"GO:0071205","count":4},{"id":"GO:0097490","count":4},{"id":"GO:0097491","count":4}]},{"hash":"229780425154675562","title":"Neuroimmune-Vascular Regulation","description":"The proteins show enrichment across immunity (blood coagulation, LPS response, dendritic cell differentiation), nervous system functionality (prepulse inhibition, dopamine signaling modulation, astrocyte chemotaxis, GDNF production), and vascular processes (smooth muscle contraction). This pattern suggests a theme of interconnected neuroimmune and vascular signaling rather than a single isolated pathway, justifying a label focused on neuroimmune-vascular regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:2000458","count":3},{"id":"GO:0014829","count":3},{"id":"GO:0097029","count":3},{"id":"GO:0060160","count":3}]},{"hash":"1892514479008521297","title":"Cardiac and Retinal GPCR-cAMP Signaling","description":"This cluster's top GO terms cluster around GPCR-mediated signaling that activates adenylate cyclase and modulates GTPase activity, linking heart development and regulation of cardiac contraction with opsin-driven visual signaling. The presence of amphetamine response and protein phosphorylation reinforces a shared theme of GPCR-driven signal transduction affecting both cardiac and visual pathways.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":3},{"id":"GO:0055117","count":3},{"id":"GO:0022400","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007190","count":3}]},{"hash":"947708417131677139","title":"mRNA Splicing and Translation Regulation","description":"GO-term analysis reveals strong enrichment for spliceosome-mediated splicing regulation (positive and negative), alternative splicing, and processome assembly, along with mRNA modification/stabilization and regulation of translational initiation (including IRES-dependent initiation). These collectively indicate a core role in post-transcriptional mRNA processing and control of translation initiation, justifying the chosen label.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":5},{"id":"GO:0001825","count":4},{"id":"GO:0016556","count":4},{"id":"GO:0048026","count":4},{"id":"GO:0075522","count":4}]},{"hash":"2087811955351869577","title":"RNA Splicing and Translation Regulation","description":"The top terms center on spliceosome-mediated and alternative mRNA splicing, spliceosome assembly, and mRNA modification, indicating a core focus on RNA processing. Additional terms point to regulation of translational initiation and IRES-dependent translation, suggesting broader RNA-level control that includes translation. Taken together, the cluster appears to group proteins involved in RNA processing/splicing with regulatory roles in translation, justifying a label that foregrounds RNA splicing and translation control.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0001825","count":1}]},{"hash":"1030988626316660781","title":"Glial-immune signaling and GPCR regulation","description":"The GO terms converge on neural-glial interactions and immune modulation (astrocyte chemotaxis, glial neurotrophic factor production, LPS response, dendritic cell differentiation) along with regulation of GPCR signaling (dopamine receptor signaling, GPCR internalization). This suggests a theme of neuroimmune communication with GPCR trafficking involvement, rather than a single canonical pathway. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":4},{"id":"GO:0014829","count":4},{"id":"GO:0097029","count":4},{"id":"GO:0060160","count":4},{"id":"GO:0032496","count":4}]},{"hash":"982402868785855307","title":"Enteric Nervous System and Gut Signaling","description":"This cluster centers on gut innervation and motility (enteric nervous system development, peristalsis) and includes related neural signaling (ERK cascade, dopamine receptor regulation) as well as gut-associated immune and glial interactions (astrocyte chemotaxis, dendritic cell differentiation, LPS response). The combination suggests a coherent theme of gut-brain axis regulation combining neural control of GI function with local immune signaling.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":4},{"id":"GO:0030432","count":4},{"id":"GO:0048484","count":4},{"id":"GO:0070374","count":4},{"id":"GO:2000458","count":3}]},{"hash":"233010875890590582","title":"Inflammation and vascular immune responses","description":"The cluster is dominated by GO terms for inflammatory and immune responses (response to lipopolysaccharide, inflammatory response, defense response to bacterium, response to xenobiotic stimulus) and pain perception, indicating innate immune activation. It also includes terms tied to vascular regulation (positive regulation of vasoconstriction, vascular-associated smooth muscle contraction) and immune\u2013neuronal cross-talk (astrocyte chemotaxis, dendritic cell differentiation), suggesting a cohesive theme of inflammation coupled with vascular and neural immune interactions.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032496","count":5},{"id":"GO:0006954","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0042742","count":5},{"id":"GO:0042493","count":5}]},{"hash":"1497759384372685401","title":"Light-sensing and circadian regulators","description":"This cluster\u2019s top GO terms cluster around light detection, phototransduction, magnetoreception, circadian rhythm and regulation of gene expression, with supporting terms like photoprotection and photoreactive repair. Together they point to proteins involved in light-driven sensing and circadian control, so the name captures the shared function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050980","count":2},{"id":"GO:0045187","count":2},{"id":"GO:0045475","count":2},{"id":"GO:0032922","count":2},{"id":"GO:0000719","count":2}]},{"hash":"1331299956397062000","title":"HGF-Responsive Developmental Signaling and Apoptosis","description":"The GO terms indicate responses to hepatocyte growth factor, developmental processes like axial mesoderm formation and valve morphogenesis, STAT pathway signaling, and regulation of apoptosis and cell cycle re-entry. This points to a cohesive theme of growth-factor\u2013driven development coupled with cell fate and survival decisions, rather than a single molecular function.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035729","count":4},{"id":"GO:0048320","count":4},{"id":"GO:0000320","count":4},{"id":"GO:0033136","count":4},{"id":"GO:0043068","count":4}]},{"hash":"799058557298509867","title":"Ribosome Biogenesis and Translation Fidelity","description":"The Top Terms are dominated by ribosome-related processes: translation, ribosome biogenesis, SSU-rRNA maturation, and small subunit assembly, along with maintenance/positive regulation of translational fidelity. This points to a cluster of proteins involved in assembling the ribosome and ensuring accurate translation. A single term on antibiotic response may reflect antibiotic interactions with the ribosome but does not override the dominant ribosomal theme. Therefore, a label referencing ribosome biogenesis and translation fidelity is appropriate.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0045903","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0000028","count":1}]},{"hash":"975809883172677753","title":"RNA processing and translational regulation","description":"The cluster prominently features GO terms for mRNA processing/splicing (includes mRNA modification, spliceosome-related assembly and alternative splicing) alongside regulation of translational initiation and mRNA stabilization, as well as ribosome biogenesis (small-subunit processome assembly) and viral translation initiation/termination concepts. This points to a cohesive theme of RNA processing and control of translation, with a note that a blastocyst formation term may reflect developmental expression rather than a core function of all members.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001825","count":5},{"id":"GO:0016556","count":5},{"id":"GO:0075522","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0034462","count":5}]},{"hash":"181150931266901012","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by translation-related functions (GO:0006412) and ribosome assembly/biogenesis terms (GO:0042256, GO:0042273, GO:0045727), suggesting a core theme of protein synthesis machinery. A few transcription-related and stress-response terms are present but far less represented, so the primary signal points to ribosome assembly and translation. ","confidence":"High","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0031564","count":1},{"id":"GO:0006353","count":1},{"id":"GO:0006354","count":1},{"id":"GO:0034644","count":1}]},{"hash":"2269607394958892339","title":"Macrophage activation and inflammatory cytokine production","description":"This cluster\u2019s GO terms cluster around innate immune activation by macrophages/monocytes, including positive regulation of IL-6 and TNF production, chemokine production, T cell migration, and defense against viruses, plus macrophage differentiation and calcium signaling linked to activation. The shared theme is inflammatory immune signaling driven by macrophages/monocytes.","confidence":"High","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2000406","count":1},{"id":"GO:0045728","count":1},{"id":"GO:0032469","count":1},{"id":"GO:0010742","count":1},{"id":"GO:0006816","count":1}]},{"hash":"1006375331881983023","title":"Embryonic development and muscle morphogenesis","description":"The top GO terms cluster around embryonic development and morphogenesis, including embryonic morphogenesis, planar polarity, and BMP signaling regulation, plus muscle-specific processes like sarcomere organization and muscle contraction. This suggests a group of proteins involved in broad developmental programs with a particular emphasis on muscle development and tissue patterning, rather than a single, cohesive pathway. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030513","count":2},{"id":"GO:0007432","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0006936","count":2},{"id":"GO:0048598","count":2}]},{"hash":"698548409753438703","title":"Unknown","description":"The terms span multiple, unrelated areas (metabolism, dsRNA response, immune signaling, development, RNA modification, and protein turnover) with no clear shared function tying the proteins together, so a concise, coherent label is not supported.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090526","count":2},{"id":"GO:0071360","count":2},{"id":"GO:2001199","count":1},{"id":"GO:0038095","count":1},{"id":"GO:0001825","count":1}]},{"hash":"1688961968600662054","title":"Viral life cycle and host mitochondrial metabolism","description":"The top GO terms include several viral processes (host-mediated activation of viral genome replication, fusion of virus membrane with host, virion assembly, viral release) alongside mitochondrial energy metabolism (mitochondrial electron transport, complex II assembly), suggesting a theme of virus\u2013host interactions that intersect host energy pathways. Protein folding is present as a general cellular process, but the viral lifecycle terms dominate the functional thread. This label aims to reflect both viral progression and potential host metabolic involvement.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034553","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0044829","count":1},{"id":"GO:0019064","count":1},{"id":"GO:0030260","count":1}]},{"hash":"117021996764635024","title":"Unknown","description":"The GO terms associated with these five proteins span very different biological processes (EGFR signaling, lipase regulation, secretory pathway regulation, cytogamy, lipophagy, mitochondrial depolarization, kidney size, small GTPase signaling, axonogenesis, gene expression regulation), with no clear shared function or pathway. The lack of a cohesive theme and the absence of edges among the proteins suggest there isn\u2019t a single interpretable cluster label beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007173","count":1},{"id":"GO:0060193","count":1},{"id":"GO:1903434","count":1},{"id":"GO:0000755","count":1},{"id":"GO:0061724","count":1}]},{"hash":"2135182056802153659","title":"Neural synaptic plasticity and brain development","description":"The terms are dominated by neural processes: long-term synaptic potentiation, brain development, regulation of synaptic vesicle exocytosis, and protein ubiquitination, pointing to activity-dependent synaptic remodeling and neuronal maturation. Additional terms on oligodendrocyte differentiation and signaling support a broader neural development/signal-transduction theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0031384","count":2}]},{"hash":"351489261249216700","title":"Cerebellar cortex development and Bergmann glia differentiation","description":"This cluster is enriched for cerebellum-focused developmental terms: cerebellar cortex formation and Bergmann glial cell differentiation, with supporting neural development and axon regeneration regulation. While other terms (insulin signaling, cell proliferation, immune signaling) are broader, the cerebellar development theme is the most coherent across the top GO terms.","confidence":"High","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2001275","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0048679","count":4},{"id":"GO:0021697","count":4},{"id":"GO:0008286","count":4}]},{"hash":"814846158543889653","title":"Neural development and axon guidance signaling","description":"The top GO terms cluster around neural development and axon guidance, including semaphorin-plexin signaling, axon extension, sensory neuron and sympathetic neuron guidance, and otic placode development. VEGF and HGF receptor signaling also appear, which can influence neural development and axon pathfinding. A few terms related to immunity and catechin response are present but secondary, so the dominant theme is neuronal development and axon guidance.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0048010","count":3},{"id":"GO:1902287","count":3},{"id":"GO:1905040","count":3},{"id":"GO:0048846","count":3},{"id":"GO:0097374","count":3}]},{"hash":"2135403119590951103","title":"Mitotic ubiquitin-dependent proteolysis","description":"Based on the GO terms, the cluster centers on mitotic progression and regulated protein degradation via ubiquitin and ubiquitin-like modifiers, with strong signals for G2/M transition, mitotic cell cycle, chromosome segregation, and SCF-dependent proteolysis. ISG15 conjugation also appears, suggesting broader ubiquitin-like modification involvement. Altogether, these terms point to a cohesive function in ubiquitin-mediated regulation of mitosis.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0001701","count":4}]},{"hash":"509864130883125469","title":"Mitochondrial Electron Transport and ROS Metabolism","description":"This cluster is dominated by terms tied to mitochondrial respiration and redox balance, including mitochondrial electron transport steps (ubiquinol to cytochrome c, cytochrome c to oxygen), cytochrome c linking to heme, and hydrogen peroxide metabolism/ROS-related processes, as well as apoptosis-related activation by cytochrome c. A few terms like sodium ion transport or photosynthesis are peripheral or reflect broader cellular energy contexts, but the core theme points to mitochondrial energy production and oxidative stress regulation.","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":2},{"id":"GO:0034465","count":1},{"id":"GO:0008635","count":1},{"id":"GO:0018063","count":1},{"id":"GO:0006122","count":1}]},{"hash":"1766350571889150065","title":"Chromatin remodeling and histone modification","description":"The cluster's terms cluster around chromatin dynamics: histone acetylation/modification, histone exchange, chromatin remodeling, and regulation of transcription, plus DNA repair. Despite some obsolete terms, the overarching theme is chromatin-based regulation of gene expression and genome maintenance, with hints of development-related transcription programs such as rhombomere and pharyngeal development.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043968","count":1},{"id":"GO:0043486","count":1},{"id":"GO:0002225","count":1},{"id":"GO:0043967","count":1},{"id":"GO:0042993","count":1}]},{"hash":"1899962436069516757","title":"Embryonic ECM adhesion and BMP signaling","description":"The terms point to extracellular matrix remodeling (collagen fibril organization) and cell\u2013cell adhesion (homophilic adhesion) combined with developmental signaling (BMP pathway) and organogenesis (axial mesoderm, thymus, salivary gland boundary). This suggests a cluster centered on embryonic tissue morphogenesis guided by ECM and BMP signaling, with some neural development overlap (synapse assembly). Therefore the label emphasizes ECM adhesion and developmental signaling as the core theme.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0051898","count":1},{"id":"GO:0030513","count":1}]},{"hash":"204706550517827572","title":"Axon Guidance and Neuronal Development","description":"This cluster shows a strong pattern of axon guidance and nervous system development: semaphorin-plexin signaling; sympathetic neuron projection guidance; branchiomotor neuron axon guidance; trigeminal nerve organization; paranodal junction assembly and juxtaparanode localization. There is also regulation of synaptic vesicle endocytosis, suggesting neuronal connectivity. A few terms like kidney development and smoothened signaling may reflect broader developmental roles rather than core function of the cluster. Therefore, Axon Guidance and Neuronal Development.","confidence":"High","size":5,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902287","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0097491","count":3},{"id":"GO:0021785","count":3},{"id":"GO:1900242","count":3}]},{"hash":"2268561413695273094","title":"Nuclear DNA Replication and RNA Processing","description":"This cluster is dominated by GO terms for DNA replication and DNA-templated transcription, with additional RNA-processing (spliceosome) and chromatin-related activities, pointing to nuclear genome-maintenance and RNA maturation functions; a developmental term appears but is not the primary signal.","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0006351","count":3},{"id":"GO:1904574","count":2},{"id":"GO:0019079","count":2}]},{"hash":"1235558638173118652","title":"Neuronal Synaptic Signaling and Excitability","description":"This cluster is centered on neuronal communication and membrane excitability, as reflected by terms for membrane depolarization, action potential, postsynaptic membrane organization, and acetylcholine/dopaminergic receptor signaling. Additional GO terms point to modulation of neural signaling (chloride transport, zinc, nicotine) and broader neural regulation (REM sleep/circadian rhythms), with a note on amyloid fibril formation linked to neural pathology. Overall, the data cohere around synaptic transmission and neuronal excitability.","confidence":"High","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051899","count":5},{"id":"GO:0032226","count":5},{"id":"GO:1905906","count":5},{"id":"GO:0001941","count":5},{"id":"GO:0071294","count":5}]},{"hash":"1452792655447826351","title":"Neuronal axon guidance and synaptic vesicle regulation","description":"The top GO terms cluster around neuronal processes: regulation of synaptic vesicle endocytosis, commissural neuron axon guidance, and protein localization to the paranode region of axons, plus GnRH neuronal migration, which supports a theme of neuronal development and synaptic function. Some vascular/bone terms (coronary morphogenesis, VEGF signaling, endochondral bone growth) may reflect broader developmental signaling or annotation noise, but the dominant signal points to neuronal axon guidance and synaptic vesicle regulation.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:1900242","count":4},{"id":"GO:0060982","count":3},{"id":"GO:0042748","count":3},{"id":"GO:2000427","count":3},{"id":"GO:0021828","count":3}]},{"hash":"754032226717380036","title":"Neuronal Synaptic Vesicle Trafficking","description":"The strongest GO signals point to synaptic transmission and vesicle cycling in neurons (exocytosis/endocytosis regulation and excitatory postsynaptic potentials), with brain development context (substantia nigra). Shared involvement of GTPase activity supports vesicle trafficking roles, making the neuronal synaptic vesicle trafficking theme most representative, despite a few broader terms present.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043388","count":3},{"id":"GO:0016237","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0035690","count":3}]},{"hash":"1001745624961051874","title":"Organogenesis and tissue development","description":"Based on the prominence of GO terms related to broad organismal development and tissue/organ-specific development (lung mesenchyme, thymus, cartilage condensation, cardiac muscle proliferation, VEGF signaling), the proteins appear to participate in organogenesis and morphogenesis across multiple tissues rather than a single, cohesive pathway. Some terms are broad or obsolete, but the common theme is developmental processes shaping organs and tissues.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0060484","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0032148","count":2},{"id":"GO:0010765","count":2}]},{"hash":"542766627332976740","title":"Neural-Glial Signaling with Immune Interactions","description":"The cluster centers on neural and glial regulatory processes (astrocyte chemotaxis, modulation of dopamine signaling, prepulse inhibition, glial-derived neurotrophic factor production) and includes immune-related activity (lipopolysaccharide response, dendritic cell differentiation), with GPCR internalization suggesting receptor trafficking relevance. Together, these terms point to a module of neural-glial signaling intertwined with immune cross-talk, with some broader signaling context (vascular and osmotic stress-related pathways) that may reflect shared regulatory networks.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":5},{"id":"GO:0014829","count":5},{"id":"GO:0097029","count":5},{"id":"GO:0060160","count":5},{"id":"GO:0032496","count":5}]},{"hash":"296095413243328031","title":"Translation and ncRNA-mediated gene silencing","description":"This cluster is driven by enrichment in translation-related terms (translation and cytoplasmic translation) and ncRNA-mediated gene silencing, with an additional note of amino acid starvation response that can modulate translation under stress. The remaining GO terms are more peripheral, so the core theme centers on protein synthesis and RNA-based regulation of gene expression.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0002181","count":2},{"id":"GO:1903833","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0046673","count":1}]},{"hash":"601316772644386820","title":"Unknown","description":"This cluster contains GO terms from signaling (GTPase regulation), protein trafficking (ubiquitin-dependent endocytosis, ubiquitination), RNA processing, lipid biosynthesis (ergosterol regulation), and organism-specific development (mating projection growth, trophoblast migration). The terms do not point to a single coherent function, so a common label is not apparent.","confidence":"","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:1901165","count":4},{"id":"GO:0070086","count":4},{"id":"GO:0032443","count":4},{"id":"GO:2000238","count":4}]},{"hash":"547175684726481980","title":"Unknown","description":"Top terms span hepatocyte differentiation, sporulation, amino acid and cofactor biosynthesis, tRNA modification, and diverse stress responses, with no single dominant function or pathway. The cluster has no edges or coherent theme, so a unified label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070365","count":3},{"id":"GO:0030435","count":2},{"id":"GO:0006526","count":2},{"id":"GO:0010125","count":2},{"id":"GO:0071377","count":1}]},{"hash":"1791624376324952979","title":"Skeletal muscle contraction and membrane dynamics","description":"This cluster shows strong signals for skeletal muscle processes (muscle filament sliding, regulation of slow-twitch fiber contraction) along with various plasma membrane\u2013associated functions (membrane repair, raft distribution, secretory granule localization, and cell polarity-related shape maintenance). Together these suggest proteins involved in muscle contraction that are closely linked to membrane organization and trafficking, with a few outlier terms reflecting broader cellular roles. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":2},{"id":"GO:0060546","count":2},{"id":"GO:0034198","count":2},{"id":"GO:0035166","count":1},{"id":"GO:0071976","count":1}]},{"hash":"1817912123619215789","title":"Unknown","description":"The Top Terms are scattered across mitochondrial processes (aerobic respiration regulation, mitochondrial membrane potential), DNA repair, ribosome assembly, vesicle formation, ubiquitin-related regulation, and even viral genome replication, with some obsolete terms; there is no single coherent function tying all proteins together, so a specific label isn\u2019t justifiable. ","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045470","count":1},{"id":"GO:1903715","count":1},{"id":"GO:0019079","count":1},{"id":"GO:0070414","count":1},{"id":"GO:0010918","count":1}]},{"hash":"2026872186174895470","title":"Developmental Differentiation Across Tissues","description":"This cluster centers on developmental processes across tissues, with GO terms for angiogenesis, heart development, axonogenesis, long-term synaptic potentiation, and multicellular organism development. The presence of cell-cycle terms (mitotic cell cycle, G2/M transition) and phosphorylation signaling suggests some regulatory activity, but the dominant theme is tissue development and differentiation across systems.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":5},{"id":"GO:0000086","count":4},{"id":"GO:0043065","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1217491766392529535","title":"Neuronal Axon Guidance and Migration","description":"The cluster is dominated by GO terms related to neural development, especially axon guidance (commissural neuron axon guidance, semaphorin-plexin signaling) and neuronal migration (GnRH neuron migration to the hypothalamus) as well as paranode region localization, suggesting a cohesive role in neural pathfinding and neuron positioning; other terms like circadian rhythm or vascular-related processes likely reflect broader pleiotropy or incidental associations.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0060982","count":5},{"id":"GO:0042748","count":5},{"id":"GO:2000427","count":5},{"id":"GO:0021828","count":5},{"id":"GO:1904643","count":5}]},{"hash":"1012865849467139420","title":"Retroviral integration and latency","description":"The GO terms center on retroviral life-cycle steps: entry into host cells, reverse transcription (RNA-templated DNA synthesis), DNA integration into the host genome, and proviral latency, with related DNA replication and recombination.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006468","count":2},{"id":"GO:0075732","count":1},{"id":"GO:1903704","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0006260","count":1}]},{"hash":"2006585700023307408","title":"Embryonic development signaling and proliferation","description":"This cluster centers on developmental programs and growth factor\u2013driven signaling. The top GO terms point to embryogenesis-related processes (axial mesoderm formation, tricuspid valve morphogenesis) and cellular responses to hepatocyte growth factor, indicating HGF/Met pathway involvement. Also present are signals of cell fate and survival (positive regulation of programmed cell death/apoptosis) and cell cycle re-entry, suggesting coordinated growth and tissue formation. The combination suggests a developmentally oriented cluster where proliferation and differentiation are guided by growth factor signaling.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035729","count":5},{"id":"GO:0048320","count":5},{"id":"GO:0000320","count":5},{"id":"GO:0033136","count":5},{"id":"GO:0043068","count":5}]},{"hash":"1064822839447017054","title":"ER protein targeting and translocation (Sec/SRP)","description":"The cluster shows strong enrichment for GO terms related to directing and translocating proteins to the endoplasmic reticulum, including SRP-dependent cotranslational targeting, Sec complex\u2013mediated transport, post-translational ER targeting, and related retrograde transport and ERAD pathways. A couple of development terms may reflect context, but the core theme is ER targeting/translocation machinery.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043952","count":1},{"id":"GO:0006605","count":1},{"id":"GO:0006620","count":1},{"id":"GO:0031204","count":1},{"id":"GO:0070843","count":1}]},{"hash":"986628456460552278","title":"SUMO-regulated TLR signaling modulators","description":"The top GO terms cluster around protein sumoylation and regulation of Toll-like receptor signaling (notably MyD88-dependent TLR signaling and TLR3 signaling), suggesting a theme where SUMO-mediated modification modulates innate immune pathways. Additional terms about tail-anchored ER membrane insertion and organelle dynamics (mitochondrial fusion) hint at broader roles in membrane trafficking and cellular stress responses, but the strongest coherent signal is the link between sumoylation and TLR signaling regulation.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":4},{"id":"GO:0034126","count":3},{"id":"GO:0071816","count":2},{"id":"GO:0014070","count":2},{"id":"GO:1901340","count":2}]},{"hash":"1617800522926698512","title":"Mitochondrial energy metabolism and redox regulation","description":"Top GO terms point to mitochondrial processes (cytochrome complex assembly, redox homeostasis) and metabolic regulation (gluconeogenesis, cold response). Although a few terms are more developmental or signaling-related, the strongest shared theme is mitochondrial energy production and redox balance, yielding this concise label. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017004","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0032429","count":1},{"id":"GO:0097755","count":1},{"id":"GO:0006111","count":1}]},{"hash":"2226594003549700344","title":"Peroxisome Biogenesis and Dynamics","description":"The proteins in this cluster are heavily enriched for GO terms related to peroxisome formation, maintenance, and inheritance (e.g., peroxisome membrane biogenesis, peroxisome fission, ER-dependent peroxisome organization, and protein import into the peroxisome membrane), indicating a shared role in assembling and distributing peroxisomes from the ER. A few supporting terms about protein stabilization or ER exit reinforce a general quality-control and trafficking theme around peroxisomal components.","confidence":"High","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032527","count":1},{"id":"GO:0045033","count":1},{"id":"GO:0016559","count":1},{"id":"GO:0016557","count":1},{"id":"GO:0032581","count":1}]},{"hash":"2142042503724573916","title":"Neuronal synaptic signaling and plasticity","description":"The GO terms converge on neural communication and plasticity: glutamatergic and neuromuscular synaptic transmission, GPCR signaling, long-term potentiation, and cerebellar granule cell differentiation, suggesting a cluster centered on neuronal signaling and learning-related synaptic changes.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097011","count":3},{"id":"GO:0050975","count":2},{"id":"GO:0042331","count":2},{"id":"GO:0072375","count":2},{"id":"GO:0045471","count":2}]},{"hash":"406455211958217448","title":"Golgi\u2013lysosome and endosome vesicle transport","description":"The top GO terms cluster around endomembrane trafficking: Golgi-to-lysosome and Golgi-to-endosome transport, clathrin-coated vesicle cargo loading, and multivesicular body/exosome sorting, along with related regulatory processes. Although individual terms are sparse, they collectively indicate a shared role in vesicle transport within the secretory/endocytic pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900126","count":1},{"id":"GO:0045743","count":1},{"id":"GO:1903551","count":1},{"id":"GO:0043328","count":1},{"id":"GO:1901998","count":1}]},{"hash":"1964009813265109489","title":"Neural signaling and behavior","description":"This cluster is dominated by neural-related functions: ion transport (sodium/potassium channels), synaptic signaling (excitatory postsynaptic potentials, GABA signaling), and a collection of behavioral and sensory terms (taste aversion, locomotion, touch perception, phototaxis, memory, ethanol response). The convergence of ion-channel activity, synaptic signaling, and diverse behaviors strongly suggests proteins involved in neuronal communication and behavioral regulation. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001661","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0060079","count":5},{"id":"GO:0035725","count":5},{"id":"GO:0007214","count":5}]},{"hash":"601540780083129579","title":"Multitissue Development and Immune Signaling","description":"Top GO terms indicate tissue- and muscle- development (trachea cartilage, cornea, skeletal and cardiac muscle differentiation) and immune/ apoptotic signaling (interferon-beta production, Fas signaling). The cluster seems to group proteins involved in broad developmental differentiation with immune regulatory roles, rather than a single cohesive pathway. Given the diverse terms and the small cluster size, the label reflects a broad multi-tissue developmental and immune-regulatory theme.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032072","count":2},{"id":"GO:0032728","count":2},{"id":"GO:0060534","count":2},{"id":"GO:0061303","count":2},{"id":"GO:1902044","count":2}]},{"hash":"232865225795782263","title":"Unknown","description":"The top GO terms are highly diverse, spanning transcription regulation, organ development, multiple metabolic processes, stress responses, and signaling, with no clear shared function or pathway. Additionally, there are obsolete terms and no observed edges among the proteins, making a cohesive, interpretable label unlikely.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0048536","count":2},{"id":"GO:1901159","count":1},{"id":"GO:0045777","count":1},{"id":"GO:0006116","count":1}]},{"hash":"1083405877768367158","title":"Nuclear transcription and RNA processing","description":"This cluster\u2019s terms consistently point to nuclear functions: regulation of transcription start site usage by RNA Pol II, protein localization to the nucleoplasm, and nuclear RNA turnover/processing such as nuclear polyadenylation-dependent rRNA catabolic activity. The presence of a spliceosome-related term further supports RNA processing/splicing dynamics, and although several chromatin/nucleosome terms are marked obsolete, the overall theme remains centered on nuclear transcription and RNA processing activities.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904574","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0042766","count":2},{"id":"GO:0000388","count":2},{"id":"GO:0071441","count":2}]},{"hash":"72399459041723537","title":"Adaptive immune signaling and apoptosis regulation","description":"The GO terms cluster around adaptive immune processes (adaptive immune response, V(D)J recombination) and immune signaling pathways (TNF signaling, NF-kB/I-kappaB regulation, JNK cascade), plus regulation of apoptosis and innate immune sensing (RIG-I pathway). Some terms about chromatin/histone modification are present but peripheral. This supports a theme of immune signaling with control of cell survival.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009048","count":4},{"id":"GO:0042981","count":4},{"id":"GO:0046328","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0033151","count":4}]},{"hash":"1530436201982998906","title":"Unknown","description":"The top GO terms include pore complex assembly, mitochondrial intermembrane space protein import, cell cycle, and various very specific or obsolete responses (to ATP, cocaine, telomerase activity). They point to different cellular compartments and processes with no clear shared function across the four proteins, so there is no coherent, high-level theme to name the cluster beyond Unknown.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0014823","count":4},{"id":"GO:0033198","count":4},{"id":"GO:0046931","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0045041","count":4}]},{"hash":"2173728291647844314","title":"RNA splicing and translation regulation under stress","description":"The top GO terms point to extensive RNA processing and splicing (spliceosome, processome, alternative splicing) along with mRNA modification and poly(A) tail regulation, plus stress-associated translation initiation (IRES) and cytoplasmic stress granule localization. The presence of hypoxia and amino acid response further supports a stress-responsive RNA metabolism cluster, with some ties to ribosome biogenesis and developmental contexts such as blastocyst formation. This combination suggests a cohesive theme around RNA processing and stress-regulated translation.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001825","count":2},{"id":"GO:0016556","count":2},{"id":"GO:1903608","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0071230","count":2}]},{"hash":"1824590575451363710","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by core protein synthesis functions: translation, ribosomal large subunit assembly/biogenesis, and even mitochondrial translation, indicating components of the ribosome assembly and translation machinery. A few regulatory terms related to ubiquitin/neddylation appear, but the main signal centers on ribosome-related processes.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0000027","count":3},{"id":"GO:0006415","count":1},{"id":"GO:0032543","count":1},{"id":"GO:2000435","count":1}]},{"hash":"1960237007120948427","title":"Diverse Transmembrane Transport","description":"The dominant GO terms are all transmembrane transport processes, spanning substrates like glucose, nitrate, urate, vitamins, and vesicular neurotransmitter loading. This indicates the proteins cluster as membrane transporters with broad substrate scope rather than a single specific carrier. The minimal connectivity (one edge) aligns with a loosely related transporter set.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":1},{"id":"GO:0097080","count":1},{"id":"GO:0015771","count":1},{"id":"GO:0055085","count":1},{"id":"GO:0015706","count":1}]},{"hash":"64945252062516874","title":"Axon guidance and neuronal development","description":"Top GO terms indicate neuronal development and axon/neurite morphogenesis (dendritic spine morphogenesis, axon guidance, axon extension) with supporting themes of multicellular development and cytoskeletal/adhesion organization. This suggests the proteins cluster around axon growth and maturation during development, making the label representative.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035584","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0007411","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1295786864213596996","title":"Mitochondrial Dynamics and Cardiolipin Regulation","description":"The top GO terms point to mitochondrial function, including positive regulation of cardiolipin metabolism, stress-induced mitochondrial fusion, and positive regulation of mitochondrial membrane potential, along with mitochondrial morphogenesis. While some terms are unrelated or obsolete, the strongest signal is around mitochondrial lipid regulation and dynamics, suggesting this cluster centers on mitochondrial membrane processes and cardiolipin-related regulation.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1900210","count":1},{"id":"GO:1990046","count":1},{"id":"GO:0010918","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0007588","count":1}]},{"hash":"1687096222161767035","title":"Mitochondrial Respiratory Complex Assembly","description":"The top GO terms point chiefly to mitochondrial function, with explicit references to respirasome assembly, complex IV assembly, and regulation of cytochrome c release from mitochondria, suggesting a core role in assembling the mitochondrial electron transport chain and modulating apoptosis. While other terms touch ribosome biogenesis, cytoskeletal organization, and developmental wing patterning, these are less central to mitochondrial assembly, making the mitochondrial assembly theme the most coherent label for this cluster.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010835","count":1},{"id":"GO:0007475","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0097250","count":1},{"id":"GO:0090201","count":1}]},{"hash":"1700892774780039063","title":"Synaptic calcium signaling and development-related adhesion","description":"The top GO terms center on postsynaptic calcium regulation and cell\u2013cell adhesion, with mesoderm development and locomotion pointing to broader developmental roles. While some terms (e.g., DNA damage checkpoint, glucocorticoid signaling) are less directly connected or outdated, the dominant themes suggest proteins involved in synaptic signaling coupled with developmental cell interactions.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0099566","count":4},{"id":"GO:0031573","count":4},{"id":"GO:2000324","count":4},{"id":"GO:0051037","count":4},{"id":"GO:0070940","count":4}]},{"hash":"91378818568455793","title":"Pollen development and pollen wall formation","description":"This cluster is best described as pollen development and pollen wall formation, given the explicit GO terms for anther dehiscence and pollen exine formation, plus supporting glycosylation of secreted pollen coat proteins. While some terms are unrelated or broader, the dominant theme is pollen-related development.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046712","count":3},{"id":"GO:0009901","count":3},{"id":"GO:0010584","count":3},{"id":"GO:0006256","count":3},{"id":"GO:0006487","count":3}]},{"hash":"505513000210484377","title":"Ciliary calcium signaling and transport","description":"These proteins are enriched for terms related to calcium ion transport and store-operated calcium entry, and also for cilium-related processes (intraciliary retrograde transport, cilium assembly). The combination suggests a module that links calcium signaling with ciliary function. Some developmental terms (astrocyte/muscle differentiation, kidney tubule development) might reflect broader roles or annotation noise but do not override the dominant calcium/cilium theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006816","count":2},{"id":"GO:2001256","count":1},{"id":"GO:0035721","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0048708","count":1}]},{"hash":"1979179181810960526","title":"Ribosome biogenesis and translation fidelity","description":"The cluster is dominated by GO terms for ribosome biogenesis and translation, with supporting signals from tRNA processing and translational fidelity regulation, suggesting members of the ribosome assembly and translation quality control machinery. A few additional terms related to stress responses and chromatin are present but appear peripheral to the core theme.","confidence":"High","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:0006407","count":1},{"id":"GO:1990145","count":1},{"id":"GO:0045903","count":1}]},{"hash":"171066456948786596","title":"Neuroimmune signaling","description":"This small cluster shows GO terms tied to nervous system modulation (dopamine signaling, prepulse inhibition, GPCR internalization, astrocyte-derived factors) alongside immune-related responses (LPS response, dendritic cell differentiation). The shared theme appears to be neural/glial signaling in the context of immune interactions and neurovascular regulation, suggesting a neuroimmune communication role for these proteins. Confidence: Medium","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000458","count":2},{"id":"GO:0014829","count":2},{"id":"GO:0097029","count":2},{"id":"GO:0060160","count":2},{"id":"GO:0032496","count":2}]},{"hash":"482928283731863640","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000480","count":1},{"id":"GO:0000447","count":1},{"id":"GO:0000472","count":1},{"id":"GO:0042274","count":1},{"id":"GO:1904753","count":1}]},{"hash":"1382038359365952108","title":"Organ development and morphogenesis","description":"The top GO terms concentrate on tissue and organ formation (multicellular organism development; inner ear, placenta, thymus development), indicating a cluster of proteins involved in organogenesis across different tissues. Some terms about sensory perception or stress responses appear incidental, but the central theme is developmental programs guiding organ formation.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034465","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0048839","count":2}]},{"hash":"1383873199213244282","title":"Oxidative Stress Response and Redox Homeostasis","description":"Prominent terms point to oxidative stress management: oxidation-reduction processes, redox homeostasis, and removal of superoxide radicals. A few terms touch on selenium ion response and acid stress, but the core theme remains redox balance; vascular-related terms are present but secondary.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0045454","count":1},{"id":"GO:0043535","count":1},{"id":"GO:0003069","count":1},{"id":"GO:0001320","count":1}]},{"hash":"2086094951620917374","title":"Neuroimmune Signaling","description":"The GO terms center on glial cell activity (astrocyte chemotaxis regulation, glial-derived neurotrophic factor production), neural signaling modulation (dopamine receptor pathway regulation, GPCR internalization), and immune interactions (lipopolysaccharide response, dendritic cell differentiation), indicating a cohesive theme of neuroimmune and glial regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":3},{"id":"GO:0014829","count":3},{"id":"GO:0097029","count":3},{"id":"GO:0060160","count":3},{"id":"GO:0032496","count":3}]},{"hash":"1993450204800804041","title":"RNA Processing and Ribosome Biogenesis","description":"The cluster shows enrichment in mRNA turnover and regulation (mRNA catabolic process, positive regulation of mRNA binding) and miRNA-related regulation (miRNA catabolic process, miRNA-mediated gene silencing), together with ribosome biogenesis, pointing to roles in post-transcriptional control and assembly of the translation machinery. A few inflammatory/viral transport-related terms appear but do not dominate the set.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006402","count":1},{"id":"GO:1902416","count":1},{"id":"GO:0045716","count":1},{"id":"GO:0061481","count":1},{"id":"GO:1901254","count":1}]},{"hash":"1788481574671853363","title":"Nucleolar rDNA Chromatin Regulation","description":"The top GO terms cluster around nucleolus-associated processes (nucleolus organization; GO:0007000) and rDNA-related chromatin dynamics (rDNA chromatin condensation; GO:0070550; protein localization to nucleolar rDNA repeats; GO:0034503), with supporting signals from histone H4 acetylation terms. This points to chromatin state regulation and transcriptional control at rDNA repeats within the nucleolus. Some outlier terms like gravitaxis and renal system process are likely incidental. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":1},{"id":"GO:0043984","count":1},{"id":"GO:0042332","count":1},{"id":"GO:0043982","count":1},{"id":"GO:0003014","count":1}]},{"hash":"981123549054839586","title":"Neuronal Development and Synaptic Signaling","description":"The term set is dominated by neural-related processes: visual perception, axonogenesis, long-term synaptic potentiation, and excitatory postsynaptic potential, pointing to neural development and synaptic function. While there are also cell cycle and non-neural terms (mitotic transitions, heart development, ABA signaling), the neural terms provide the strongest, coherent theme for this small cluster.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0000086","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1912507702806724533","title":"Bacterial membrane transporters and SOS response","description":"The cluster is enriched for GO terms related to transport across membranes for diverse substrates (bacteriocin, branched-chain amino acids, lipoproteins, molybdate, vitamins, glycerophosphodiesters, daunorubicin), suggesting a core role in substrate translocation and membrane-associated transport. The SOS response term appears less central but indicates a concurrent stress-related annotation. Overall, the dominant theme is membrane transport, with a minor association to stress response.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043213","count":2},{"id":"GO:0015803","count":2},{"id":"GO:0042953","count":2},{"id":"GO:0009432","count":2},{"id":"GO:0015689","count":2}]},{"hash":"1639076306747630161","title":"Cell Cycle and Transcription Regulation","description":"The dominant GO terms point to cell cycle processes, especially cell division and mitotic sister chromatid separation, suggesting a primary role in cell cycle progression. Additional terms for DNA-templated transcription, RNA polymerase\u2013mediated transcription, and ubiquitination imply linked regulation of gene expression and proteostasis during the cell cycle. A vesicle transport term is present but less central, so the core signal remains cell cycle\u2013linked transcriptional and post-translational regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0051306","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0003257","count":2},{"id":"GO:0032508","count":2}]},{"hash":"958438183498107560","title":"Glucocorticoid signaling and metabolic regulation","description":"The top terms show glucocorticoid receptor signaling and metabolic regulation (glucose production, appetite), suggesting a hormone signaling/metabolic theme. While other terms touch on development or sex differentiation, the core cluster centers on glucocorticoid signaling and energy homeostasis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042921","count":2},{"id":"GO:0000413","count":2},{"id":"GO:0046661","count":1},{"id":"GO:0021756","count":1},{"id":"GO:0035955","count":1}]},{"hash":"719540173806058581","title":"Lipid Biosynthesis and Sterol Metabolism","description":"The dominant GO terms point to lipid production and sterol/sphingolipid metabolism: unsaturated fatty acid biosynthesis, regulation of ergosterol biosynthetic process, and mannosyl-inositol phosphorylceramide metabolic process, plus lipid-rich tissue contexts like sebaceous gland differentiation and CNS myelin maintenance. While some terms (mitochondrion inheritance, nitric oxide biosynthesis) are less directly tied to lipids, they may reflect broader metabolic regulation. Overall, the cluster centers on lipid biosynthesis and membrane lipid homeostasis.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":4},{"id":"GO:0006636","count":4},{"id":"GO:0006809","count":4},{"id":"GO:0032286","count":4},{"id":"GO:0042128","count":4}]},{"hash":"2162414817593642939","title":"Rho-regulated exocytosis in neural development","description":"The top GO terms cluster around Rho protein signal transduction regulation and exocytosis, with additional neural development cues such as forebrain ventricular zone progenitor division and related polarity signals. This pattern suggests a module where Rho-mediated signaling influences vesicle trafficking and exocytic processes in neural development, possibly coordinating cell polarity and division events.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:2000009","count":2},{"id":"GO:0006887","count":2},{"id":"GO:0021869","count":2},{"id":"GO:0070493","count":2}]},{"hash":"1768454877253748400","title":"Potassium Transport and Membrane Potential Regulation","description":"This cluster is dominated by GO terms related to potassium ion transport, membrane potential stabilization and regulation, and cardiac action potential repolarization, pointing to a theme of ionic homeostasis and electrical signaling. A few terms (sensory touch, pain, bone ossification) appear less connected, likely reflecting term overlap or annotation noise, but the core signal supports a potassium transport/membrane potential role.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050976","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0098914","count":2},{"id":"GO:0071805","count":2}]},{"hash":"1395333599804027384","title":"Glial-Neuronal Signaling and Neuroinflammation","description":"The terms point to CNS-focused processes involving glial and neuronal communication (astrocyte chemotaxis regulation, glial-derived neurotrophic factor production, dopamine receptor signaling modulation, prepulse inhibition, GPCR internalization) and immune interactions (response to LPS, dendritic cell differentiation). Although some terms are peripheral (vascular smooth muscle, reproductive processes), the prominent theme is glial\u2013neuronal signaling and neuroinflammation, suggesting this cluster reflects CNS glial signaling activity and its modulation by immune signals.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2000458","count":1},{"id":"GO:0014829","count":1},{"id":"GO:0097029","count":1},{"id":"GO:0060160","count":1},{"id":"GO:0032496","count":1}]},{"hash":"266064672556875885","title":"Dopaminergic Neural Signaling and Behavior","description":"This cluster appears to group proteins involved in dopamine-related neural signaling and related behavioral responses (e.g., dopaminergic synaptic transmission, cocaine response, visual learning, pain perception), with supporting roles in neural development and transcription/GTPase regulation.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001963","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0008283","count":2}]},{"hash":"1772260632770098249","title":"Microtubule dynamics and spindle organization","description":"The cluster\u2019s top GO terms cluster strongly around microtubule cytoskeleton regulation and spindle-related processes (plus-end microtubule sliding, regulation of microtubule-based processes, meiotic and mitotic spindle orientation/elongation, centrosome separation, and polarity maintenance). While a few terms touch on broader contexts like chloroplast movement and neuron projections, these all tie back to microtubule-dependent transport and organization, supporting a coherent theme of microtubule dynamics across cell division and cellular architecture.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031535","count":4},{"id":"GO:0032886","count":4},{"id":"GO:0051296","count":4},{"id":"GO:0009904","count":4},{"id":"GO:0072092","count":4}]},{"hash":"182504000379792670","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001963","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0010759","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0008542","count":2}]},{"hash":"709343369050382520","title":"Mitotic spindle assembly and cytokinesis","description":"The dominant GO terms point to mitosis and spindle-related processes\u2014cell cycle, microtubule organization/nucleation, spindle midzone assembly, and cytokinesis\u2014indicating a cluster of proteins involved in cell division machinery. A few terms (neuron migration, interleukin-4 response) appear less central and likely annotations noise.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0071353","count":3},{"id":"GO:0031122","count":2},{"id":"GO:0001764","count":2},{"id":"GO:2000767","count":2}]},{"hash":"276991949037591203","title":"Glycosylation and Arabinogalactan Protein Biosynthesis","description":"The top GO terms cluster around glycosylation processes (O-linked hydroxyproline glycosylation, poly-N-acetyllactosamine, Lewis a epitopes) and arabinogalactan protein metabolism, plus plant seed mucilage and cell wall\u2013related biosynthesis. This points to a shared theme of extracellular matrix/component biosynthesis and glycosylation of secreted proteins, with some insect development/epithelial polarity terms likely reflecting conserved roles of glycoproteins at cell surfaces. Overall, a coherent high-level function is glycosylation-associated extracellular matrix assembly, though the cross-kingdom terms introduce some uncertainty. ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":1},{"id":"GO:0030311","count":1},{"id":"GO:0007299","count":1},{"id":"GO:0018258","count":1},{"id":"GO:0048354","count":1}]},{"hash":"337205615629446162","title":"Neural development and inflammatory signaling","description":"The cluster\u2019s GO terms center on neural development processes\u2014axial mesoderm formation, retinal ganglion cell axon guidance, and positive regulation of synapse assembly\u2014paired with signaling pathways like PI3K/AKT and STAT tyrosine phosphorylation. They also include immune/inflammatory responses (response to LPS, TNF production) and apoptotic processes, suggesting proteins that participate in neural development with concurrent modulation by inflammatory signaling.  ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048320","count":3},{"id":"GO:0042517","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0038083","count":3},{"id":"GO:1901214","count":3}]},{"hash":"1180419150483934583","title":"Axon Guidance and Retina Development","description":"This cluster is dominated by GO terms tied to neural development: axon extension and guidance, retinal ganglion cell axon guidance, and retina layer formation, plus facial nerve organization. While a few terms touch on other developmental processes (HGF signaling, bone growth, muscle migration), the strongest signal is neural axon guidance and retinal development, justifying the label.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0048846","count":3},{"id":"GO:0048012","count":3},{"id":"GO:1902336","count":3},{"id":"GO:0010842","count":3},{"id":"GO:0003416","count":3}]},{"hash":"72495545606665077","title":"Calcium Regulation in Excitable Cells","description":"The top GO terms suggest regulation of calcium ion dynamics in excitable tissues, including postsynaptic cytosolic Ca2+ concentration and sarcoplasmic reticulum\u2013mediated Ca2+ release, plus SA node action potential regulation, pointing to a shared theme of calcium handling in neural and cardiac contexts; other terms appear more divergent, but the calcium-focused signals are the strongest across the cluster.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0048708","count":2},{"id":"GO:0099566","count":2},{"id":"GO:0043473","count":2}]},{"hash":"1320481801591434836","title":"Unknown","description":"The listed GO terms span disparate biological areas (embryonic development and axis specification, tissue organization via integrin activation, nervous system patterning, cholesterol transport, immunoglobulin production, energy production, etc.), with no single function or process tying the four proteins together. The absence of a shared pathway or cellular process and zero edges between proteins support labeling this cluster as Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001274","count":1},{"id":"GO:0033622","count":1},{"id":"GO:0030917","count":1},{"id":"GO:0007311","count":1},{"id":"GO:0002642","count":1}]},{"hash":"1876675564431355312","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042853","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0006740","count":1},{"id":"GO:0019404","count":1},{"id":"GO:0015992","count":1}]},{"hash":"2197983261047462005","title":"Organ morphogenesis and metabolic processes","description":"The top GO terms point to developmental morphogenesis across multiple organs (nucleus accumbens, optic cup, heart, bilateral symmetry), suggesting a broad role in organ development. Intermixed metabolic terms (GABA catabolic, retinol metabolism, 4-hydroxyphenylacetate catabolism) and nutrient/hypoxia responses imply accompanying metabolic functions. Taken together, the cluster seems centered on developmental morphogenesis with related metabolism.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021768","count":4},{"id":"GO:0009450","count":4},{"id":"GO:1901023","count":4},{"id":"GO:0007584","count":4},{"id":"GO:0035799","count":4}]},{"hash":"940853025163038395","title":"Steroid, lipid, and vitamin biosynthesis","description":"The top GO terms point to biosynthetic and catabolic steps for steroids (glucocorticoids, testosterone, and androgens), vitamins (retinol, phylloquinone, tetrahydrobiopterin), and lipid-related pathways (sphingolipid, methyl-branched fatty acids). This suggests a cohesive theme around production or processing of diverse lipophilic metabolites. Sporulation and acetoin catabolic terms appear as outliers, but do not define the core function. Overall, the cluster seems to group proteins involved in lipophilic metabolite biosynthesis and related lipid/vitamin pathways.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006704","count":3},{"id":"GO:0030435","count":3},{"id":"GO:0045150","count":3},{"id":"GO:0061370","count":3},{"id":"GO:0042572","count":3}]},{"hash":"1705220821525472558","title":"Vascular and neural development","description":"The top GO terms cluster around vascular development (coronary vein morphogenesis, dorsal aorta development, animal organ development) and neural wiring (axon guidance and axon extension), indicating a shared role in developing vasculature and nervous system. Some immune-related terms appear but are less central to the main theme here.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0003169","count":4},{"id":"GO:0019800","count":4},{"id":"GO:0035907","count":4},{"id":"GO:0048513","count":4},{"id":"GO:0033563","count":4}]},{"hash":"163722756629788993","title":"Transcriptional regulation and development","description":"The GO terms show a clear emphasis on negative regulation of transcription by RNA polymerase II, plus several development-related processes (spermatid nucleus differentiation, animal organ development, and lung development). Additional terms like protein ubiquitination and microtubule localization suggest regulatory roles rather than catalytic activity. Together, these indicate a cluster of regulatory proteins involved in controlling gene expression and developmental processes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0007289","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0048513","count":1},{"id":"GO:0031664","count":1}]},{"hash":"1837557356200304776","title":"Membrane Solute Transporters","description":"The cluster is characterized by a suite of transmembrane transport GO terms across diverse substrates (vitamins, xenobiotics, glucose, nitrate, trehalose, selenite, urate) and related vesicular transport, indicating a group of membrane transporter proteins with broad substrate specificity.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":4},{"id":"GO:0042891","count":4},{"id":"GO:0006855","count":4},{"id":"GO:1904659","count":3},{"id":"GO:0097080","count":3}]},{"hash":"755694727485153839","title":"Mitochondrial dynamics and cardiolipin metabolism","description":"The cluster\u2019s top terms center on mitochondria-related processes: stress-induced mitochondrial fusion, regulation of mitochondrial membrane potential, and cardiolipin metabolism, with supporting lipid localization. Axonogenesis implies a neuronal context where mitochondrial dynamics are crucial, reinforcing the focus on mitochondrial function and lipid regulation. While some terms are broader (e.g., signaling pathways), the dominant signal is mitochondria-centric biology.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":2},{"id":"GO:1900210","count":2},{"id":"GO:1990046","count":2},{"id":"GO:0010918","count":2},{"id":"GO:0030433","count":2}]},{"hash":"2046162474356473748","title":"Ubiquitin-Proteasome Regulation and G1/S Transition","description":"The dominant GO terms point to ubiquitin-dependent proteolysis (including SCF-mediated proteasomal degradation) and regulation of the G1/S transition in the mitotic cell cycle, suggesting a cohesive role in targeted protein degradation that governs cell-cycle entry, with some peripheral, less central terms.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:1900087","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0044346","count":1},{"id":"GO:0031146","count":1}]},{"hash":"530954552897514177","title":"Neural sphingolipid biosynthesis and myelination","description":"The top GO terms point to lipid metabolism relevant to neural tissue, including sphingolipid metabolic process, serine palmitoyltransferase activity (SPT), phosphatidylserine metabolism, and L-serine transport, together with neural development cues like hippocampus development and myelination. This suggests a theme of neural lipid biosynthesis supporting myelin formation and neural maturation, despite a couple of unrelated terms that may reflect broader cellular contexts.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902237","count":1},{"id":"GO:0009597","count":1},{"id":"GO:1904219","count":1},{"id":"GO:0006665","count":1},{"id":"GO:1904222","count":1}]},{"hash":"1706433182207392707","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070306","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0007369","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0034316","count":2}]},{"hash":"1421617670293577023","title":"Muscle development and calcium signaling","description":"The GO terms show a clear tilt toward muscle biology and calcium signaling: skeletal muscle fiber development, transition between fast and slow fibers, and regulation/detection of calcium ions (including postsynaptic calcium concentration). Additional terms touch on cardiac hypertrophy and, less centrally, neural myelination and chromatin/miRNA regulation, suggesting some noise. Overall, the dominant theme is muscle differentiation with calcium-dependent signaling, justifying this label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0099566","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0035562","count":2},{"id":"GO:0014883","count":2},{"id":"GO:0007114","count":2}]},{"hash":"1000793805657481822","title":"Epigenetic control of immune and stress signaling","description":"These proteins show terms tied to chromatin regulation (histone modification and turnover, chromatin-related processes, dosage compensation) alongside immune and stress signaling pathways (TNF/NF-kappaB, JNK cascade, V(D)J recombination). The shared theme appears to be regulation of gene expression at the chromatin level that intersects with immune and stress signaling. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009048","count":3},{"id":"GO:0042981","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0033151","count":3},{"id":"GO:1903721","count":3}]},{"hash":"2001899675098341265","title":"Neural development and chromatin remodeling","description":"The top GO terms point to neural development processes (efferent axon development in a specific lineage, neuron projection maintenance, and general animal organ development) alongside chromatin regulation (transcription initiation-coupled chromatin remodeling and negative regulation of heterochromatin). While mitochondria, immune signaling, and nitric oxide regulation appear, the strongest shared theme is neural development linked to transcriptional control via chromatin remodeling. Even with no edges among the 4 proteins, the functional annotations converge on a neural-development/epigenetic regulation axis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006839","count":1},{"id":"GO:0048929","count":1},{"id":"GO:1990535","count":1},{"id":"GO:0045815","count":1},{"id":"GO:1903758","count":1}]},{"hash":"450065238376277483","title":"NF-kappaB\u2013driven macrophage activation","description":"The top GO terms show regulation (both positive and negative) of canonical NF-kappaB signaling, along with interferon production and macrophage differentiation, pointing to innate immune activation and macrophage function. Although some terms relate to cellular stress, the dominant pattern is NF-kB\u2013mediated immune signaling, justifying this label.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0032729","count":2},{"id":"GO:0030225","count":2},{"id":"GO:0071260","count":2}]},{"hash":"2179853561435449824","title":"Membrane trafficking and signaling regulation","description":"The top GO terms point to regulation of transport across membranes (fatty acid import, sodium transport), receptor trafficking (GPCR internalization), and secretory processes (dense core granule exocytosis), with additional terms related to cell adhesion and muscle contraction. Together these suggest a theme centered on membrane transport and signaling dynamics that influence secretion and ion movement, rather than a single tightly defined pathway. Some terms are obsolete, indicating limited current specificity, but the core signal remains membrane trafficking and signaling regulation.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010748","count":3},{"id":"GO:0010763","count":3},{"id":"GO:1990504","count":2},{"id":"GO:1901998","count":2},{"id":"GO:0010765","count":2}]},{"hash":"1897633626342329051","title":"Glycosylation and immune regulation","description":"Top GO terms cluster around glycosylation processes (O-linked glycosylation via mannose, fucosylation, Lewis antigen biosynthesis) and immune functions (regulatory T cell differentiation, leukocyte migration). This suggests the proteins function in cell-surface glycan modifications that shape immune cell interactions and signaling. Some terms are obsolete in GO, but the overall theme of glycosylation linked to immune processes remains, supporting a cohesive interpretation despite data idiosyncrasies.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046329","count":1},{"id":"GO:0060049","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0002361","count":1},{"id":"GO:0036071","count":1}]},{"hash":"915244960539167498","title":"Chromatin regulation and cell cycle control","description":"The top GO terms center on chromatin organization, heterochromatin formation/maintenance, and transcription regulation, with additional signals for cell cycle regulation and estradiol responsiveness. This pattern suggests a cluster of proteins involved in epigenetic control and coordination of cell cycle progression, rather than a single specific pathway.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051726","count":3},{"id":"GO:0000183","count":3},{"id":"GO:0071392","count":2},{"id":"GO:0090398","count":2},{"id":"GO:0032703","count":2}]},{"hash":"912978299328118609","title":"Membrane Solute Transporters","description":"The top GO terms are all about transmembrane transport of a variety of solutes (glucose, trehalose, nitrate, urate, galactose, vitamins, etc.) and vesicular neurotransmitter loading, pointing to a cohesive function as membrane transporter proteins handling diverse substrates. Although the proteins show no observed interactions (edges) in this cluster, the shared theme is transporter activity across membranes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":3},{"id":"GO:0097080","count":3},{"id":"GO:0015771","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0098700","count":3}]},{"hash":"577134587388283119","title":"Embryogenesis and mRNA Regulation","description":"The term set centers on embryogenesis, with explicit mentions of embryonic morphogenesis and Spemann organizer formation, suggesting a developmental role. The inclusion of mRNA stability regulation and cap-independent translational initiation points to post-transcriptional control that often accompanies early development. A few terms reference host-virus interactions and plant defense, which appear unrelated to the core theme, but the dominant signals support a developmental gene-expression regulatory function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044829","count":1},{"id":"GO:0034052","count":1},{"id":"GO:1903679","count":1},{"id":"GO:0043488","count":1},{"id":"GO:1900363","count":1}]},{"hash":"681475277986134076","title":"Cardiopulmonary Development and Organogenesis","description":"This cluster centers on organ development and differentiation, with terms like pulmonary valve morphogenesis, type I pneumocyte differentiation, and cardiac muscle proliferation, plus BMP pathway regulation, pointing to cardiopulmonary organogenesis and broader organogenesis signals. A couple of terms (photosynthesis, DNA replication) are less related, but the dominant theme is developmental processes across organs.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0003184","count":2},{"id":"GO:0010801","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0015979","count":2},{"id":"GO:1905305","count":1}]},{"hash":"497870227139759443","title":"Unknown","description":"The top GO terms cover a wide range of disparate developmental and physiological processes (different tissues, respiration, apoptosis regulation) with only single-term representations, showing no coherent, shared function for the cluster. Therefore no specific, representative label can be assigned.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021571","count":1},{"id":"GO:0007585","count":1},{"id":"GO:0070306","count":1},{"id":"GO:0034670","count":1},{"id":"GO:0046529","count":1}]},{"hash":"572663410785842457","title":"Mesenchymal bone, cartilage, muscle, heart, and lung development","description":"These proteins seem to participate in developmental programs across mesenchymal-derived tissues: osteoblast differentiation, cartilage formation in airways, skeletal muscle differentiation, cardiac ventricle formation, and lung development, with TGF-\u03b2 signaling as a key regulator. The shared GO terms point to coordinated development of multiple organs rather than a single enzymatic function, justifying a mesenchymal development label.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":2},{"id":"GO:0045669","count":2},{"id":"GO:0060534","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0003211","count":2}]},{"hash":"1227531821254972626","title":"Host immune signaling and antiviral transcriptional regulation","description":"This cluster includes GO terms tied to regulating immune and antiviral responses (LPS- and RIG-I\u2013mediated signaling, suppression of viral processes, and transcriptional regulation), suggesting a cohesive theme of host defense modulation and antiviral gene control. Some terms, like axis specification or chromatin-related ubiquitination, appear less directly connected and may reflect noise or broader context; however, the core signals point to immune and antiviral regulation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031664","count":1},{"id":"GO:0050999","count":1},{"id":"GO:0042098","count":1},{"id":"GO:0036353","count":1},{"id":"GO:0035372","count":1}]},{"hash":"1274168074356050245","title":"Multiorgan Development and Differentiation","description":"The top GO terms point to developmental processes across various tissues (skeletal muscle, pancreas, trachea cartilage, cornea), with a few general regulatory processes, suggesting a broad theme of tissue differentiation rather than a single pathway. This makes \"Multiorgan Development and Differentiation\" a concise, representative label for the cluster.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:0031018","count":2},{"id":"GO:0032072","count":1},{"id":"GO:0032728","count":1},{"id":"GO:0060534","count":1}]},{"hash":"1832485520650859104","title":"Anti-inflammatory and anti-apoptotic regulation","description":"Predominant GO signals are negative regulation of inflammatory response and apoptotic processes, including MCP-1 production and inflammatory regulation. Although some terms (e.g., semicircular canal morphogenesis, fat cell differentiation) are less consistent and include obsolete annotations, the strongest, recurring theme is dampening inflammation and inhibiting apoptosis. Therefore the label captures the cluster's primary function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048752","count":2},{"id":"GO:0071638","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0050728","count":2},{"id":"GO:0045444","count":2}]},{"hash":"249259556212536530","title":"Unknown","description":"The cluster\u2019s GO terms span diverse metabolic processes (retinol metabolism, xylulose-5-phosphate biosynthesis, NADH oxidation, glucose catabolic activity) and various stress/response pathways (copper ion, lipopolysaccharide, respiratory system, extracellular signaling). There isn\u2019t a single coherent function tying these proteins together, so a specific, representative label isn\u2019t supported.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901159","count":1},{"id":"GO:0045777","count":1},{"id":"GO:0006116","count":1},{"id":"GO:0019518","count":1},{"id":"GO:0042572","count":1}]},{"hash":"1065419382662693873","title":"Neurodevelopment and Axon Guidance","description":"The dominant terms point to nervous system development and axon pathfinding, with several GO terms on neuron migration, commissural axon guidance, and semaphorin-plexin signaling. Additional development-related terms like coronary morphogenesis and endochondral bone growth suggest broader developmental signaling, but the core theme remains neural development and axon guidance.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060982","count":2},{"id":"GO:0042748","count":2},{"id":"GO:2000427","count":2},{"id":"GO:0021828","count":2},{"id":"GO:1904643","count":2}]},{"hash":"161623520772308971","title":"Chromatin remodeling and epigenetic regulation","description":"The top terms cluster around chromatin-level regulation: histone modifications (acetylation, ubiquitination), nucleosome dynamics (mobilization, density), and DNA methylation, as well as heterochromatin maintenance. These indicate a common function in regulating chromatin structure and epigenetic marks. Several terms are marked obsolete, reflecting historical annotations, and a couple peripheral terms (calcium signaling, spindle assembly) likely contribute noise rather than defining the cluster. Overall, the proteins seem best described by chromatin regulation and epigenetic modification. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010880","count":2},{"id":"GO:0032197","count":1},{"id":"GO:2000616","count":1},{"id":"GO:0010425","count":1},{"id":"GO:1902368","count":1}]},{"hash":"2088158877199075128","title":"Neural development and axon morphogenesis","description":"The dominant GO terms point to neuronal development processes such as hippocampus development, dendrite morphogenesis, and regulation of axonogenesis/axon extension, along with cytoskeletal remodeling, which together suggest a cluster centered on neural development and axon/dendrite morphogenesis. Some terms (e.g., T cell receptor signaling, mitotic cell cycle) are less related but do not override the neural theme. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050771","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0031647","count":2},{"id":"GO:0031532","count":2}]},{"hash":"549740420053705146","title":"Glial GPCR signaling and neuroimmune cross-talk","description":"This cluster combines terms related to glial cell functions (astrocyte chemotaxis, glial-derived neurotrophic factor production), GPCR-related processes (G protein-coupled receptor internalization, dopamine receptor signaling), and immune/neural cross-talk (response to lipopolysaccharide, dendritic cell differentiation, prepulse inhibition). Together, they point to a theme where glial signaling via GPCR pathways intersects with neuroimmune responses. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000458","count":2},{"id":"GO:0014829","count":2},{"id":"GO:0097029","count":2},{"id":"GO:0060160","count":2},{"id":"GO:0032496","count":2}]},{"hash":"846601219279928224","title":"BMP-Mediated Osteoblast and Tooth Development","description":"The cluster is dominated by GO terms for bone and tooth formation, including osteoblast fate commitment, osteoblast development, positive regulation of osteoblast differentiation, odontogenesis of dentin-containing tooth, and regulation of odontogenesis, all connected through BMP signaling. While a few terms like scab formation and hemopoiesis appear, the strongest and most coherent signal points to BMP-driven osteogenesis and odontogenesis as the core theme. High confidence that this label captures the cluster\u2019s main function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002051","count":1},{"id":"GO:0030509","count":1},{"id":"GO:0042675","count":1},{"id":"GO:0030097","count":1},{"id":"GO:0002076","count":1}]},{"hash":"2006933744538552411","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":3},{"id":"GO:0046825","count":2},{"id":"GO:0006458","count":2},{"id":"GO:0034975","count":2},{"id":"GO:1900035","count":2}]},{"hash":"201524433566747684","title":"Innate Immune Signaling and Phagocytosis","description":"The top GO terms cluster around Fc-gamma receptor signaling, phagocytosis recognition, C-type lectin receptor signaling, basophil activation, and lectin complement activation, pointing to innate immune recognition and effector functions. A few developmental terms are present but appear less central to the core theme; overall, the proteins seem to be associated with innate immune signaling and phagocytic pathways rather than a coherent developmental program.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038094","count":2},{"id":"GO:0006910","count":2},{"id":"GO:0045575","count":2},{"id":"GO:0072237","count":2},{"id":"GO:0002223","count":2}]},{"hash":"2060866595345215559","title":"Spliceosome-Associated mRNA Processing","description":"The proteins are linked to pre-mRNA processing with strong signals for spliceosome-mediated splicing (GO:0045292, GO:0000380), alternative splicing, and small-subunit processome assembly, plus related mRNA modification and stabilization terms. This suggests a cohesive role in splicing and post-transcriptional regulation, with additional hints of translation initiation control that can be coupled to mRNA maturation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":3},{"id":"GO:0001825","count":2},{"id":"GO:0016556","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0048026","count":2}]},{"hash":"1306261421435632054","title":"Glial-immune CNS signaling","description":"The top GO terms point to CNS glial activities (astrocyte chemotaxis, glial-derived neurotrophic factor production) alongside immune-related processes (response to lipopolysaccharide, dendritic cell differentiation) and receptor trafficking (GPCR internalization, dopamine signaling modulation). The common thread appears to be cross-talk between glial/neural signaling and immune pathways within the CNS, suggesting a glial-immune signaling cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000458","count":2},{"id":"GO:0014829","count":2},{"id":"GO:0097029","count":2},{"id":"GO:0060160","count":2},{"id":"GO:0032496","count":2}]},{"hash":"1150124622602243088","title":"Neuronal Secretion and Axonal Localization","description":"The top GO terms point to neuron-specific trafficking and synaptic function: localization of proteins to axon regions (paranode/juxtaparanode), dendritic spine maintenance, and regulation of neurotransmitter/monoamine secretion, plus dense core granule maturation. These together suggest a cluster of proteins involved in axonal targeting and synaptic secretion, with a few outliers (e.g., B cell homeostasis) that may reflect broader or misannotated roles. Overall, the theme is neuronal secretory and Localization-focused functions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002175","count":2},{"id":"GO:1990502","count":1},{"id":"GO:0001922","count":1},{"id":"GO:0046928","count":1},{"id":"GO:0050796","count":1}]},{"hash":"858140548630009001","title":"Nucleolus Organization","description":"This cluster is dominated by the GO term nucleolus organization (3 annotations), with all three proteins linked to this process, suggesting a shared role in nucleolar structure and ribosome biogenesis.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007000","count":3}]},{"hash":"215765469089494121","title":"Diverse membrane solute transporters","description":"The Top Terms are all related to transmembrane transport of a wide range of solutes (vitamins, ions like potassium and nitrate, sugars, xenobiotics, and neurotransmitters). This suggests a shared role as membrane-bound transport proteins moving various substances across cellular membranes. The label captures the common function while acknowledging substrate diversity.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0042908","count":3},{"id":"GO:0006855","count":3},{"id":"GO:1904659","count":2}]},{"hash":"700027138234460483","title":"Membrane transporters","description":"This cluster is enriched for membrane transport functions, as shown by GO terms for bacteriocin, branched-chain amino acid, lipoprotein, daunorubicin, and molybdate ion transport. A few annotations (Arp2/3 actin nucleation, histone acetylation, SOS response) seem incongruent and may reflect annotation noise or multifunctional proteins, but the transport terms clearly dominate.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034314","count":2},{"id":"GO:0043982","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0043213","count":1},{"id":"GO:0015803","count":1}]},{"hash":"1004049835881664212","title":"RNA Processing and Translational Regulation","description":"The GO terms point to RNA metabolism and control of gene expression at the RNA level, including mRNA splicing and processing (spliceosome-related terms), mRNA stabilization, and regulation of translational initiation, as well as IRES-dependent viral translation. Although the network is small with no edges, the functional themes cluster around RNA processing and translation control, justifying this label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001825","count":1},{"id":"GO:0016556","count":1},{"id":"GO:0075522","count":1},{"id":"GO:0048026","count":1},{"id":"GO:0034462","count":1}]},{"hash":"1880389426560047796","title":"Neuro-immune signaling and GPCR regulation","description":"The terms cluster around neural communication (dopamine receptor signaling, prepulse inhibition), glial involvement (astrocyte chemotaxis, glial-derived neurotrophic factor production), and immune interactions (LPS response, dendritic cell differentiation), plus a focus on GPCR trafficking (receptor internalization) and regulation. Together they point to a theme of neuron\u2013glia\u2013immune crosstalk with GPCR signaling regulation as a unifying thread, even though a few terms appear peripheral. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000458","count":3},{"id":"GO:0014829","count":3},{"id":"GO:0097029","count":3},{"id":"GO:0060160","count":3},{"id":"GO:0032496","count":3}]},{"hash":"182824032198373836","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000480","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0048568","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0000462","count":2}]},{"hash":"554559644893112366","title":"Microtubule dynamics and spindle organization","description":"The top GO terms are dominated by microtubule-related processes (plus-end directed microtubule sliding, regulation of microtubule-based process, establishment of meiotic spindle orientation, mitotic spindle elongation, centrosome separation, and microtubule cytoskeleton polarity), pointing to proteins involved in microtubule dynamics and spindle organization during cell division. Some terms are less related (e.g., chloroplast movement, neuron maintenance), but the core signal supports this theme.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031535","count":3},{"id":"GO:0032886","count":3},{"id":"GO:0051296","count":3},{"id":"GO:0009904","count":3},{"id":"GO:0072092","count":3}]},{"hash":"963517928993222248","title":"RNA processing and ribosome biogenesis","description":"The proteins in this cluster are annotated with GO terms tied to RNA metabolism and ribosome biogenesis, including ribosome assembly, prespliceosome assembly, nuclear mRNA surveillance, and stress granule localization, with additional transcription-related and RNA processing terms. This convergence suggests a functional group involved in gene expression at the RNA level and ribosome production, making a label focused on RNA processing and ribosome biogenesis appropriate. Confidence: Medium","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0042255","count":3},{"id":"GO:0071049","count":3},{"id":"GO:0014070","count":3},{"id":"GO:1903241","count":3},{"id":"GO:1903608","count":3}]},{"hash":"1861345954924338427","title":"Mitochondrial protein import and pore assembly","description":"The top GO terms include explicit mitochondrial intermembrane space protein import and pore complex assembly, pointing to a theme of mitochondrial translocation and pore formation. While some terms are broad or obsolete, the IMS import and pore assembly terms most strongly tie these proteins to mitochondrial protein handling. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014823","count":3},{"id":"GO:0033198","count":3},{"id":"GO:0046931","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0045041","count":3}]},{"hash":"1810080128216938473","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0070306","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0007369","count":2},{"id":"GO:2000060","count":2}]},{"hash":"234552269583994954","title":"Unknown","description":"The GO terms are highly diverse (immune signaling via ISG15 conjugation and C-type lectin receptor signaling, chromatin maintenance and chromosome segregation, cell cycle G2/M, DNA repair, transcription regulation, and plant hormone responses), with several obsolete annotations, indicating no single, cohesive functional theme for the cluster. This makes a specific, representative label unlikely.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032020","count":3},{"id":"GO:0006344","count":3},{"id":"GO:0007059","count":3},{"id":"GO:0000086","count":3},{"id":"GO:0090089","count":3}]},{"hash":"1420935629541603152","title":"Developmental signaling and morphogenesis","description":"This cluster\u2019s GO terms cluster around embryonic development and tissue formation across diverse organs (BMP signaling regulation, axis/mesoderm formation, gland boundary specification, angiogenesis/lymphangiogenesis, MAPK signaling) and also include neural development processes, suggesting a broad theme of developmental signaling directing morphogenesis across tissues.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030513","count":3},{"id":"GO:0007432","count":3},{"id":"GO:0060068","count":3},{"id":"GO:0048320","count":3},{"id":"GO:0050773","count":3}]},{"hash":"73691676758958177","title":"Neural and muscle development with calcium signaling","description":"The terms cluster around neural and muscle differentiation and calcium dynamics (astrocyte differentiation; regulation of postsynaptic cytosolic calcium; SR calcium release) supporting a theme of calcium-mediated development in neural and muscular contexts, with an outlier term for metanephric development suggesting broader roles.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048708","count":3},{"id":"GO:0099566","count":3},{"id":"GO:0010880","count":3},{"id":"GO:2001015","count":3},{"id":"GO:0000086","count":3}]},{"hash":"524354847707939542","title":"Immune Signaling and Aging Processes","description":"This cluster predominantly features terms tied to immune and inflammatory signaling (TNF\u2011mediated signaling, chemokine production, LPS signaling, lymph node development) while also including aging/cell-cycle related terms (cellular senescence, telomere maintenance, cohesion regulation, microtubule dynamics). The co-occurrence suggests a broad immune response context intertwined with cellular aging and genome maintenance rather than a single, cohesive pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0090398","count":1},{"id":"GO:0000722","count":1},{"id":"GO:0034184","count":1}]},{"hash":"1002078747915485077","title":"Muscle contraction and cardiac electrophysiology","description":"The top GO terms are dominated by smooth muscle contraction and cardiac-related electrical activity, including smooth muscle contraction in micturition, cardiac muscle cell action potential, ventricular repolarization, and Bundle of His\u2013related conduction. Developmental terms like axial mesoderm formation and BMP signaling regulation can relate to the formation and signaling of muscle/heart tissues, but several terms strongly point to muscle function and cardiac signaling, suggesting a cluster centered on muscle physiology and heart rhythm. Confidence: Medium","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060083","count":3},{"id":"GO:0030513","count":3},{"id":"GO:0007432","count":3},{"id":"GO:0060307","count":3},{"id":"GO:0086002","count":3}]},{"hash":"952040051509219492","title":"Folate-Driven One-Carbon and Nucleotide Biosynthesis","description":"These proteins are linked to folate metabolism and one-carbon biology, with GO terms for one-carbon metabolic processes, tetrahydrofolate and glycine biosynthesis, and thymidine biosynthesis, pointing to a shared role in supplying one-carbon units for nucleotide production. A few other terms (e.g., axon regeneration, benzoate catabolism) are less directly connected, suggesting additional but weaker associations beyond core folate-related metabolism.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019619","count":1},{"id":"GO:0060702","count":1},{"id":"GO:0046655","count":1},{"id":"GO:0000083","count":1},{"id":"GO:0031103","count":1}]},{"hash":"1491108009870890631","title":"Cardiac Development and Neuronal Signaling","description":"The top GO terms cluster around heart development, cardiac muscle contraction, and angiogenesis, with calcium ion transport, alongside neuronal synaptic plasticity and long-term potentiation, suggesting a shared calcium-mediated signaling role in cardiovascular development and neural signaling.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0060291","count":3}]},{"hash":"484827164551640196","title":"Immune signaling and ER stress regulation","description":"This cluster shows a mix of terms related to regulating signaling pathways (negative regulation of epithelial migration, membrane proteolysis, PDGFR-beta signaling, IL-2 signaling) alongside immune/stress responses (positive regulation of interferon-beta production, ER stress-induced apoptotic signaling). The common thread is modulation of immune and cellular stress signaling rather than a single concrete function, suggesting a regulatory role in immune and stress pathways.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902237","count":3},{"id":"GO:0010633","count":3},{"id":"GO:0051045","count":3},{"id":"GO:2000587","count":3},{"id":"GO:0035549","count":3}]},{"hash":"1480950805504667982","title":"Nervous system signaling and myelin maintenance","description":"This cluster centers on terms tied to nerve impulse transmission, anterograde axonal transport, and peripheral nervous system myelin maintenance, indicating proteins involved in neuronal signaling and myelin upkeep. Other terms (e.g., responses to metals and stress) are present but do not overshadow the neural theme, supporting a cohesive label.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045471","count":2},{"id":"GO:0019226","count":2},{"id":"GO:0046620","count":2},{"id":"GO:0046688","count":2},{"id":"GO:0043087","count":2}]},{"hash":"1047275533306868548","title":"Cartilage and skeletal connective tissue development","description":"This cluster concentrates on extracellular matrix production and remodeling, highlighted by collagen biosynthesis and catabolic processes, endochondral ossification, and chondrocyte development, along with related tissue morphogenesis such as aorta smooth muscle. Together these terms point to skeletal/connective tissue formation and maturation, with some accompanying developmental processes in other tissues, supporting a cohesive theme of ECM-driven development.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032964","count":2},{"id":"GO:0003431","count":2},{"id":"GO:0060414","count":2},{"id":"GO:2000478","count":2},{"id":"GO:0030574","count":2}]},{"hash":"24695161346764946","title":"Cardiovascular development and smooth muscle proliferation","description":"The top GO terms point to heart and vessel formation (cardiac muscle cell proliferation, coronary vein morphogenesis, dorsal aorta development, animal organ development) with supporting signaling in prostaglandin biosynthesis, Notch regulation, and PI3K/AKT pathways, indicating a cohesive cardiovascular development and smooth muscle proliferation theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":3},{"id":"GO:0045746","count":3},{"id":"GO:0051897","count":3},{"id":"GO:0048661","count":3},{"id":"GO:0055114","count":3}]},{"hash":"252699654119872771","title":"Unknown","description":"The top terms span neural development and plasticity, multiple signaling pathways (Smo, ephrin, ROBO, TCR), kidney development, and endothelial/vascular processes, plus a ribosome export process, with no single cohesive function emerging. With only three proteins and no observed interactions, there isn\u2019t a clear shared role tying these terms together, so a specific functional label cannot be reliably assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":2},{"id":"GO:0051835","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0007224","count":2},{"id":"GO:0050852","count":2}]},{"hash":"1434702190763900395","title":"Membrane-associated regulators of fusion and signaling","description":"This cluster centers on membrane-related regulatory functions, including tail-anchored protein insertion into the ER membrane, negative regulation of mitochondrial fusion, and modulation of signaling pathways (e.g., TLR3), as well as cellular responses to toxic stimuli and morphogenetic fusion events. Together these terms suggest a theme of membrane-associated regulators that modulate fusion processes and signaling, rather than a single tight pathway. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071816","count":3},{"id":"GO:0014070","count":3},{"id":"GO:1901340","count":3},{"id":"GO:0000753","count":3},{"id":"GO:0034140","count":3}]},{"hash":"1560150242935765152","title":"Stem cell development and Wnt/TGF-\u03b2 signaling","description":"The terms cluster around embryonic development, stem cell differentiation, and signaling pathways like Wnt and TGF-\u03b2, with supporting hints from receptor internalization and proteasome-mediated degradation, suggesting a cohesive role in early development and cell fate decisions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0048863","count":2},{"id":"GO:0046676","count":2},{"id":"GO:0045671","count":2}]},{"hash":"171281818468761450","title":"Cartilage ECM adhesion and remodeling","description":"The top GO terms center on extracellular matrix (ECM) organization and cell\u2013matrix interactions relevant to cartilage: integrin signaling, heterotypic cell\u2013cell adhesion, hyaluronan metabolism, and regulation of ECM assembly, along with chondrocyte morphogenesis in growth plates and cell-matrix adhesion. Together these suggest a core function in cartilage ECM adhesion and remodeling. An outlier term (T cell activation) appears, but the dominant theme supports cartilage ECM dynamics.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":2},{"id":"GO:0007229","count":1},{"id":"GO:0034113","count":1},{"id":"GO:0030212","count":1},{"id":"GO:0006929","count":1}]},{"hash":"984488170231980940","title":"Unknown","description":"The top GO terms are diverse and span ubiquitin-dependent proteolysis, photoprotection, signaling, immune modulation, and metabolism, with no dominant shared function across the three proteins. Edges are zero, so there is no interaction context to tie these functions together. Because there is no coherent theme or common pathway linking the listed terms, a specific, concise functional label cannot be assigned beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0008218","count":1},{"id":"GO:0006091","count":1},{"id":"GO:0018298","count":1},{"id":"GO:0010117","count":1}]},{"hash":"1926295829211898239","title":"Unknown","description":"The GO terms are highly diverse, spanning neural and organ development (male sex differentiation, striatum and rod cell development), mitochondrial distribution, cell cycle regulation, metabolism, GPCR signaling, and immune responses, with no clear unifying function. The tiny cluster (3 proteins) and absence of edges further argue against a coherent, specific label. Confidence: None.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046661","count":1},{"id":"GO:0048312","count":1},{"id":"GO:0021756","count":1},{"id":"GO:0031145","count":1},{"id":"GO:0050689","count":1}]},{"hash":"2207798186420536719","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051726","count":1},{"id":"GO:0070911","count":1},{"id":"GO:0006293","count":1},{"id":"GO:0006296","count":1},{"id":"GO:0002031","count":1}]},{"hash":"810556772357319411","title":"Neural Axon Guidance and Migration","description":"The top GO terms cluster around axon guidance and neuronal migration, including commissural neuron axon guidance, semaphorin-plexin signaling in axon guidance, and GnRH neuronal migration, suggesting a shared role in neural development and pathfinding. Some terms mention broader signaling or non-neural processes, but the dominant theme is neural connectivity and development.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002175","count":3},{"id":"GO:0060982","count":2},{"id":"GO:0042748","count":2},{"id":"GO:2000427","count":2},{"id":"GO:0021828","count":2}]},{"hash":"1214220609847800543","title":"Neuronal signaling and sensory perception","description":"This cluster\u2019s top GO terms are dominated by neural and sensory functions: sensory perception of touch, phototaxis, memory, synaptic transmission (glutamatergic), GPCR signaling, prepulse inhibition, and ethanol response, which together point to neuronal signaling and sensory processing. A couple of outliers (peptidoglycan catabolic process, RNA editing) may reflect annotation noise, but the overall theme is neural function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016554","count":1},{"id":"GO:0050975","count":1},{"id":"GO:0042331","count":1},{"id":"GO:0072375","count":1},{"id":"GO:0045471","count":1}]},{"hash":"1721392166371299891","title":"Diverse Membrane Transporters","description":"The GO terms are dominated by various transmembrane transport activities across a wide range of substrates (glucose, galactose, trehalose, nitrate, selenite, urate, vitamins, neurotransmitter loading, etc.), suggesting these proteins function as transporters with broad substrate specificity rather than a single specialized function. This makes \u201cDiverse Membrane Transporters\u201d a concise and representative label for the cluster.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":3},{"id":"GO:0097080","count":3},{"id":"GO:0015771","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0098700","count":3}]},{"hash":"654375090317034216","title":"Multisubstrate membrane transporters","description":"The top GO terms all point to transmembrane transport across membranes for a variety of substrates (vitamins, sugars, amino acids/related compounds, nucleotides/organic cations, etc.), including both plasma membrane and vesicular transport. This suggests a cluster of transporter proteins with broad substrate specificity rather than a single-substrate enzyme, so a name centered on diverse membrane transport fits well.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0006855","count":3},{"id":"GO:1904659","count":2},{"id":"GO:0097080","count":2}]}]