[{"hash":"911393425028780405","title":"Growth Factor Signaling and Apoptosis Regulation","description":"This cluster's top GO terms cluster around growth-factor\u2013mediated signaling (positive regulation of PDGF receptor signaling, PI3K/AKT signaling) and regulation of apoptosis, which suggest proteins that participate in signaling cascades controlling cell survival and growth. Additional terms touch on development (skeletal system development), endocrine/hormonal signaling (response to FSH), and neuronal secretion, indicating broader roles in signaling and regulation, though some annotations (blood coagulation, memory) are less tightly connected. Overall, the common theme is signaling and regulation of cell fate and development, with emphasis on growth-factor pathways.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":12},{"id":"GO:0007596","count":7},{"id":"GO:0010641","count":7},{"id":"GO:0007613","count":7},{"id":"GO:0001501","count":7}]},{"hash":"293992103361295976","title":"Differentiation-Linked Transcription and Translation Regulation","description":"The cluster is enriched for terms covering transcriptional control by RNA polymerase II, translation initiation/reinitiation, mRNA surveillance, and nuclear tethering of transcription machinery, plus differentiation signals such as neuron and skeletal muscle development. This suggests a cohesive module coordinating gene expression at both transcriptional and translational levels during differentiation.","confidence":"Medium","size":29,"edges":37,"triangles":12,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0000338","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0071033","count":4}]},{"hash":"286922098382651150","title":"Oxidative Stress Response and Detoxification","description":"Most terms cluster around detoxifying oxidants and responding to oxidative stress (cellular oxidant detoxification, hydrogen peroxide catabolic process, response to oxidative stress). There are additional signaling and adhesion terms (Rho signaling regulation, cell adhesion) and plant-related cell wall concepts, which may reflect annotation diversity, but the core theme remains oxidative stress defense and redox-related signaling. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0098869","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0007155","count":3}]},{"hash":"2263251306398499447","title":"Developmental growth and cell proliferation","description":"The top GO terms are dominated by organismal development (multicellular development, brain development, neuron projection development, skeletal system development) alongside core growth and division processes (mitotic spindle assembly, cell division, ribosome biogenesis) and TORC1 signaling. This pattern points to a module that links developmental programs with cellular growth and proliferation rather than a single focused pathway.","confidence":"Medium","size":29,"edges":14,"triangles":7,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000724","count":3},{"id":"GO:0007420","count":3}]},{"hash":"406661806503398613","title":"Cardiac development and conduction","description":"GO terms emphasize cardiac morphogenesis and heart conduction (e.g., right atrium morphogenesis, SA node action potential regulation, and Notch signaling in heart field), with supporting endothelial differentiation; some terms about pain/thermoception appear peripheral. This suggests a cohesive cluster of proteins involved in heart development and electrical activity.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007205","count":9},{"id":"GO:0060843","count":9},{"id":"GO:0010745","count":9},{"id":"GO:0003213","count":9},{"id":"GO:0033280","count":9}]},{"hash":"1965454255414315257","title":"Retroviral replication and latency in host","description":"Most top GO terms point to steps of the retroviral life cycle and virus\u2013host interactions, including proviral latency establishment, RNA-templated DNA synthesis, viral release, and host-mediated activation of viral genome replication. Immune-context terms like leukocyte migration further support a host\u2013virus interaction theme, while protein folding and lipid droplet organization may reflect host machinery co-opted by viruses. Together, these terms indicate a cluster centered on retroviral replication and latency within the host.","confidence":"High","size":29,"edges":401,"triangles":3520,"max_degree":28,"top_function":"protein folding","top_go_terms":[{"id":"GO:1901407","count":7},{"id":"GO:0075713","count":6},{"id":"GO:0050900","count":6},{"id":"GO:0019076","count":6},{"id":"GO:0034389","count":6}]},{"hash":"1680474404099363359","title":"Actin remodeling and Golgi-ER trafficking machinery","description":"Top terms cluster around actin nucleation via Arp2/3, ER-to-Golgi transport, Golgi organization, adhesion, and growth-related processes, suggesting a cohesive module of cytoskeleton remodeling linked to the secretory pathway and cell proliferation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000601","count":3},{"id":"GO:0060291","count":2},{"id":"GO:1903358","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0010811","count":2}]},{"hash":"484463800153403796","title":"Multisystem Developmental Signaling","description":"The cluster's terms span neural (hippocampus development, sensory perception of sound), immune (T cell receptor signaling, regulation of activated T cell proliferation), cardiovascular (heart development, platelet formation), and apoptotic processes (neuron and germ cell death), all tied together by signaling pathways (JNK cascade, NF-kappaB). This points to a broad theme of developmental signaling across multiple tissues with apoptosis regulation as a common thread.","confidence":"Medium","size":29,"edges":110,"triangles":30,"max_degree":13,"top_function":"wound healing","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0021766","count":6},{"id":"GO:0043525","count":5},{"id":"GO:0046007","count":4},{"id":"GO:0035234","count":4}]},{"hash":"2143756706555013917","title":"Innate immune signaling and inflammatory response","description":"This cluster is dominated by GO terms tied to innate immunity and inflammation: defense against bacteria, cellular response to LPS, regulation of NF-kappaB and JNK signaling, IL-1 and IL-12 pathways, inflammatory response, and neutrophil recruitment. Together these indicate a coherent theme of bacterial sensing and rapid inflammatory signaling. An outlier term (male gonad development) appears but does not disrupt the overall inflammatory/developmental signaling pattern.","confidence":"High","size":29,"edges":5,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":15},{"id":"GO:0008584","count":13},{"id":"GO:0051092","count":13},{"id":"GO:0071222","count":12},{"id":"GO:0070671","count":11}]},{"hash":"1046194740732145649","title":"MAPK Signaling in Neural Development","description":"The top terms point to regulation of MAPK pathways (JNK and ERK cascades) and processes tied to nervous system development and neuron survival, suggesting the proteins cluster around MAPK-mediated signaling influencing neural development. Additional terms about mechanical stimulus response, vesicle trafficking, and immune signaling appear as connected pathways that interface with signaling networks, but the core theme remains MAPK signaling in neural contexts.","confidence":"Medium","size":29,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0006890","count":6},{"id":"GO:0035264","count":6},{"id":"GO:0050852","count":6}]},{"hash":"1934254749531368552","title":"Neurodevelopment with innate immune signaling","description":"The proteins in this cluster are enriched for neural development processes (axon extension in axon guidance, synapse assembly, corpus callosum development) as well as innate immune pathways (innate immune response, LPS signaling, dsRNA response, defense against Gram-positive bacteria, NF-kappaB-related signaling). This combination suggests a neuroimmune context where neural development and immune signaling intersect, i.e., neuroimmune interactions. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048846","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0051965","count":7},{"id":"GO:0022038","count":6},{"id":"GO:0045087","count":6}]},{"hash":"1607858151980993057","title":"Developmental Signaling and Transcription Regulation","description":"The cluster is enriched for regulatory functions spanning transcription and RNA processing, multiple signaling pathways (Wnt, insulin), and various developmental processes (inner ear, vagina development) as well as apoptosis, suggesting proteins that broadly regulate gene expression and developmental signaling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":8},{"id":"GO:0006351","count":7},{"id":"GO:0060068","count":6},{"id":"GO:0006397","count":6},{"id":"GO:0071222","count":6}]},{"hash":"1751449729165077717","title":"Embryonic Development and Tissue Morphogenesis","description":"The top GO terms cluster around developmental processes across different tissues (placental differentiation, endocrine system development, pancreas, cartilage morphogenesis) and tissue remodeling (blood vessel maturation, extracellular matrix disassembly, regulation of fibrinolysis, MAC activation). This suggests the proteins function together in embryogenesis and morphogenesis, rather than a single pathway, reflecting broad tissue formation and remodeling activities.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":6},{"id":"GO:0007596","count":5},{"id":"GO:0001955","count":4},{"id":"GO:0001970","count":4},{"id":"GO:0022617","count":4}]},{"hash":"290353298197420383","title":"Neuronal development and synaptic plasticity","description":"The top GO terms show broad development roles, but there is a strong emphasis on neural connectivity and synaptic remodeling: dendritic spine morphogenesis, axon fasciculation, and positive regulation of synapse structural plasticity, with accompanying integrin-mediated adhesion regulation. This points to proteins involved in neural development and synaptic plasticity rather than a single non-neural pathway, though some general developmental terms are present. Therefore, the core theme is neural development and synaptic remodeling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0033628","count":3}]},{"hash":"213028596283782954","title":"Developmental signaling and cell proliferation","description":"This cluster centers on terms related to multicellular organism development, regulation of signaling and phosphorylation (GTPase activity, serine/threonine kinase activity, and autophosphorylation), and processes tied to cell proliferation and the mitotic cell cycle, with supporting terms for skin development and RNA transport. The recurring theme is developmental signaling pathways that control growth, tissue formation, and related cellular processes, rather than a single enzyme function.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0043547","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0071456","count":3}]},{"hash":"807746466067297665","title":"Organogenesis and tissue development","description":"These GO terms cluster around development across multiple tissues\u2014heart, bone, muscle, and nervous system (organ induction, heart development, ossification, myelination, synapse organization, multicellular development)\u2014suggesting a general organogenesis and tissue differentiation theme for this set. A few other terms (e.g., glucose transport) appear ancillary but do not define the cluster\u2019s core function.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0006936","count":3}]},{"hash":"2275541638607598697","title":"Viral modulation of host transcription and NF-kB signaling","description":"The top GO terms point to viral processes and negative regulation of transcription by RNA Pol II, with additional links to non-canonical NF-kB signaling, suggesting a theme of viral proteins modulating host transcription and signaling pathways. The other development-related terms may reflect incidental annotations or downstream effects rather than a cohesive developmental function. Overall, the implied theme is plausible but not strongly cohesive given the mixed terms and zero edges.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0042347","count":2},{"id":"GO:0003323","count":1},{"id":"GO:0060707","count":1}]},{"hash":"191230828965006137","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":4},{"id":"GO:0030206","count":4},{"id":"GO:0060707","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0006207","count":4}]},{"hash":"810203298122079381","title":"Ubiquitin-Dependent Proteolysis and NF-\u03baB Signaling","description":"This cluster is dominated by GO terms related to ubiquitination processes (ubiquitin-dependent protein catabolic process, protein polyubiquitination, autoubiquitination, K63-linked ubiquitination) and signaling pathways (positive regulation of canonical NF-kappaB signaling, TNF-mediated signaling). The presence of circadian rhythm regulation and necroptosis modulation is consistent with ubiquitin-mediated control of diverse cellular processes, including inflammation and apoptosis. The strong, recurring ubiquitination themes make this a cohesive, specific label.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:1903378","count":11},{"id":"GO:1903265","count":10},{"id":"GO:0042752","count":10},{"id":"GO:0000209","count":10}]},{"hash":"1293039209869116248","title":"Glycosylation and glycan biosynthesis","description":"The top GO terms show focus on glycosylation and glycan biosynthesis, including O-linked and hydroxyproline-directed glycosylation, poly-N-acetyllactosamine biosynthesis, Lewis a epitope biosynthesis, and mucilage glycan formation. Several terms also connect glycosylation to cell adhesion and epithelial development (follicle cell adhesion, polarity maintenance, egg chamber development, root hair formation), suggesting a coherent cluster of glycan-related modification and cell-surface processes that influence developmental contexts.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":12},{"id":"GO:0042248","count":8},{"id":"GO:0001744","count":8},{"id":"GO:0007299","count":8},{"id":"GO:0006486","count":7}]},{"hash":"2263354567096055861","title":"Axon Guidance and Neuronal Signaling","description":"This cluster is dominated by GO terms related to nervous system development, axon extension/axogenesis, and signaling pathways such as ERK and JNK, plus ephrin receptor signaling and regulation of focal adhesion. Together these point to a module of proteins involved in axon guidance and neuronal signaling dynamics during neural development. The presence of other broad signaling terms (and a cell-cycle term) may reflect broader regulatory roles or annotations, but the core theme appears to be neural development and axon guidance signaling.","confidence":"High","size":29,"edges":19,"triangles":1,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045773","count":29},{"id":"GO:0031647","count":29},{"id":"GO:0050852","count":29},{"id":"GO:0007399","count":29},{"id":"GO:0050771","count":29}]},{"hash":"1890030552441774873","title":"Developmental Transcription Regulators","description":"The cluster is dominated by GO terms related to transcriptional repression and regulation (negative regulation of transcription by RNA polymerase II, regulation of DNA-templated transcription) along with several development-associated terms (roof of the mouth, spleen, embryonic skeletal system development) and neural/axon guidance terms, suggesting proteins that regulate gene expression during embryonic development and nervous system patterning.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0060021","count":6},{"id":"GO:0048536","count":5},{"id":"GO:0007626","count":5},{"id":"GO:0007338","count":5}]},{"hash":"1827269740640030961","title":"Innate Immunity and Coagulation Pathways","description":"Dominant GO terms center on defense responses (to fungus, LPS), complement activation, and coagulation/fibrinolysis (blood coagulation, plasminogen activation, fibrinolysis), pointing to a coherent theme of innate immune defense linked to hemostasis. Some developmental terms appear but do not define the core connectivity; the strongest signal is immune/coagulation, justifying this label.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0032496","count":9},{"id":"GO:0061113","count":8},{"id":"GO:0035264","count":8},{"id":"GO:0030901","count":8}]},{"hash":"550169631675983168","title":"DNA Damage Response and Apoptosis","description":"The top GO terms cluster around apoptosis (apoptotic process, execution phase) and DNA maintenance (DNA replication, base-excision repair), suggesting a core theme of genome upkeep linked to cell death pathways. Additional terms for mRNA processing and stress responses (peptide hormone, xenobiotic) imply broader signaling that can influence apoptosis. Overall, this seems to group proteins involved in DNA damage response and programmed cell death, with related stress signaling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0006284","count":2},{"id":"GO:0071375","count":2}]},{"hash":"589138933907780988","title":"Adhesion-Driven Signaling in Morphogenesis","description":"The cluster centers on cell adhesion and signal transduction, with terms for receptor clustering, homophilic/heterophilic cell-cell adhesion, cell-matrix adhesion, GPCR acetylcholine signaling, axon fasciculation, and morphogenesis events such as heart tube laterality and lung branching. This suggests a cohesive module where adhesion interfaces with signaling to shape developing tissues.","confidence":"Medium","size":28,"edges":181,"triangles":578,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043113","count":10},{"id":"GO:0007160","count":7},{"id":"GO:0070395","count":6},{"id":"GO:0060971","count":6},{"id":"GO:0060488","count":6}]},{"hash":"2167036295648390129","title":"Redox Homeostasis and Stress Response","description":"The cluster is dominated by terms related to redox balance and oxidative stress (cell redox homeostasis; oxidation-reduction processes; ER stress response) and conditioned responses such as antibiotic response, plus links to cell proliferation (cell division, cell population proliferation). The riboflavin biosynthetic process suggests a metabolic angle supporting redox cofactors. A few terms (like substantia nigra development) are less directly tied, but overall the pattern points to redox regulation and stress response as the main theme. ","confidence":"Medium","size":28,"edges":23,"triangles":6,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903206","count":9},{"id":"GO:0045454","count":9},{"id":"GO:0055114","count":9},{"id":"GO:0046677","count":7},{"id":"GO:0021762","count":7}]},{"hash":"2127953320832902968","title":"Mitotic spindle and microtubule transport","description":"The cluster\u2019s top GO terms cluster around mitosis (spindle assembly, centrosome separation, metaphase alignment) and microtubule-based transport, suggesting a core theme of microtubule dynamics and motor-driven processes; ancillary terms (development, neuron maintenance, chloroplast movement) reflect broader microtubule functions across diverse organisms.","confidence":"High","size":28,"edges":159,"triangles":706,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":12},{"id":"GO:0007100","count":10},{"id":"GO:0072092","count":10},{"id":"GO:0007080","count":10},{"id":"GO:0072383","count":10}]},{"hash":"379275056630820447","title":"Stress-responsive gene regulation and signaling","description":"The terms center on signaling responses to stimuli (cAMP, glucocorticoid, cell shape changes, apoptosis, angiogenesis) and core gene-expression control (DNA-templated transcription, translation and its negative regulation, methylation). Together they suggest a cluster of proteins involved in coordinating cellular responses to stress or hormonal cues through transcriptional and translational regulation and related signaling pathways, even though a few terms (like antibiotic response) are peripheral.","confidence":"Medium","size":28,"edges":11,"triangles":3,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032259","count":3},{"id":"GO:0008360","count":3},{"id":"GO:0051591","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0051384","count":3}]},{"hash":"1007716772920479422","title":"Innate Immune Cytokine and Chemokine Production","description":"Proteins in this cluster are enriched for innate immunity and inflammatory signaling terms, especially positive regulation of chemokine production, cytokine production, interleukin-10 production, and innate immune response. The dominant signal is cytokine/chemokine\u2013mediated mediator production, suggesting roles in initiating and modulating inflammation. Some ancillary terms related to metabolism or neural development may reflect multifunctional proteins or annotation noise, but the core theme centers on inflammatory mediator production. ","confidence":"High","size":28,"edges":6,"triangles":0,"max_degree":4,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0090197","count":12},{"id":"GO:0005975","count":9},{"id":"GO:0002532","count":9},{"id":"GO:0006032","count":9},{"id":"GO:0048846","count":6}]},{"hash":"2241341276989399907","title":"Cell Polarity and Actin Remodeling","description":"The cluster is dominated by terms about establishing and maintaining cell polarity, tight junction assembly, and actin cytoskeleton dynamics (polymerization and branching, podosome assembly). These are complemented by signaling pathways (EGFR, Wnt, TCR) that regulate those cytoskeletal and adhesion processes, and by processes like engulfment of apoptotic cells, which depend on actin remodeling. This combination points to a cohesive theme of coordinated cell polarity with actin-driven cytoskeletal remodeling and adhesion signaling.","confidence":"High","size":28,"edges":98,"triangles":52,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071963","count":15},{"id":"GO:0070830","count":15},{"id":"GO:0030838","count":15},{"id":"GO:0050852","count":15},{"id":"GO:0043652","count":15}]},{"hash":"10064575378798351","title":"DNA replication and RNA processing","description":"Top terms show strong emphasis on DNA replication and RNA processing/modification (DNA replication, rRNA methylation, RNA guanine-N7 methylation, mRNA capping) and translation, indicating a core nucleic acid metabolism/gene expression cluster. Some DNA repair/meiotic recombination terms appear as secondary processes, but the dominant theme remains nucleic acid metabolism. Therefore, the label captures the cluster's main function with high confidence.","confidence":"High","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0031167","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0036265","count":3},{"id":"GO:0006370","count":3}]},{"hash":"679836075409487619","title":"Innate Immune and Coagulation Signaling","description":"The cluster is dominated by GO terms for complement activation via the lectin pathway, blood coagulation, and stimulatory C-type lectin receptor signaling, signaling a coherent innate immune and vascular function. Terms like hypoxia response and apoptosis regulation suggest stress response cross-talk, while memory and neurotransmitter secretion appear as less central or cross-functional annotations. Overall, the core theme is innate immune activation coupled to coagulation and vascular signaling.","confidence":"Medium","size":28,"edges":13,"triangles":2,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046697","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0007613","count":5},{"id":"GO:0007269","count":5},{"id":"GO:0071456","count":5}]},{"hash":"1663413062917395708","title":"RNA processing and translation regulation","description":"The GO terms cluster around RNA processing and control of translation, including regulatory ncRNA-mediated silencing, spliceosome-driven mRNA splicing and stability regulation under stress, and multiple facets of translation initiation, reinitiation, and viral translation mechanisms, suggesting a cohesive theme of RNA metabolism linked to protein synthesis.","confidence":"High","size":28,"edges":177,"triangles":698,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":15},{"id":"GO:0048026","count":15},{"id":"GO:0010610","count":15},{"id":"GO:0006446","count":14},{"id":"GO:0075522","count":14}]},{"hash":"2093531861066728116","title":"Neural Development and Synaptic Plasticity","description":"This cluster centers on neural differentiation and development, with strong signals for axonogenesis, Schwann cell involvement, and synaptic activity/plasticity (excitatory postsynaptic potentials and long-term potentiation). While there are broader developmental terms (heart, skeletal development), the most representative and frequent terms point to neural development and synaptic function, justifying a neural-focused label.","confidence":"High","size":28,"edges":10,"triangles":1,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0043065","count":8},{"id":"GO:0060079","count":8},{"id":"GO:0007601","count":7}]},{"hash":"605933650677123082","title":"Endocrine signaling and inflammatory stress responses","description":"The cluster centers on hormone secretion and signaling cascades (ERK), calcium mobilization, and regulation of circadian rhythm, thermogenesis, and responses to inflammatory stimuli (LPS, TNF). This suggests a cohesive module where endocrine signals coordinate metabolic, circadian, bone/reproductive remodeling, and immune stress responses.","confidence":"Medium","size":28,"edges":68,"triangles":103,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046849","count":8},{"id":"GO:0048609","count":8},{"id":"GO:0032496","count":8},{"id":"GO:0051281","count":8},{"id":"GO:0070374","count":8}]},{"hash":"227038433662815485","title":"RNA processing and translation control","description":"This cluster shows enrichment for post-transcriptional regulation terms: alternative splicing via spliceosome, mRNA stabilization, and miRNA-mediated silencing, plus IRES-dependent translation initiation. The keratinocyte differentiation term points to an epithelial context where RNA processing and translational control are key for differentiation and stress responses; despite some obsolete terms, the core theme is RNA maturation and regulation of gene expression at the RNA level.","confidence":"Medium","size":28,"edges":375,"triangles":3201,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0009651","count":2},{"id":"GO:0000381","count":2}]},{"hash":"315315343438008534","title":"Spliceosome Assembly and RNA Processing","description":"This cluster shows a clear enrichment for spliceosome-related processes: spliceosomal tri-snRNP complex assembly, RNA splicing, and mRNA processing. These top GO terms point to a core set of proteins involved in pre-mRNA maturation. Other terms detected (cholesterol response, skin development, endoderm differentiation, angiogenesis) are secondary and likely reflect multifunctionality or annotation noise, not the cluster\u2019s main function. Overall, the dominant theme is RNA splicing machinery.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000244","count":2},{"id":"GO:0008380","count":2},{"id":"GO:0006397","count":2},{"id":"GO:2001237","count":2},{"id":"GO:1903672","count":2}]},{"hash":"1455837305762500334","title":"Neuronal vesicle trafficking and synaptic regulation","description":"This cluster is dominated by GO terms related to brain development and synaptic vesicle handling (regulation of synaptic vesicle exocytosis, vesicle fusion, neuron-related regulation of apoptosis), suggesting proteins that participate in synaptic vesicle trafficking and neuronal signaling. Some terms appear unrelated (immune and plant signaling), likely due to annotation noise, but the core theme centers on neuronal vesicle dynamics. Confidence: High","confidence":"","size":28,"edges":18,"triangles":1,"max_degree":3,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:2000300","count":6},{"id":"GO:0010796","count":5},{"id":"GO:0031384","count":5},{"id":"GO:0043525","count":5}]},{"hash":"774852210284069908","title":"Membrane Transporters","description":"The cluster is centered on transmembrane transport of diverse substrates (sodium, nitrate, arabinose, fucose, sialic acid, xenobiotics) and vesicular neurotransmitter loading, indicating a cohesive role as membrane transport proteins across various substrates.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":4},{"id":"GO:0042128","count":3},{"id":"GO:0015751","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0006004","count":3}]},{"hash":"1028008210060129959","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001519","count":7},{"id":"GO:0007014","count":7},{"id":"GO:0061158","count":7},{"id":"GO:0072089","count":7},{"id":"GO:2000637","count":7}]},{"hash":"1306232383272302187","title":"Ubiquitin-mediated proteolysis and innate immune signaling","description":"Based on GO terms, most frequent are ubiquitin-dependent protein catabolic process and autoubiquitination, plus ERAD, all pointing to proteins involved in tagging for degradation. Immune-related terms such as innate immune response, defense against virus, and TNF-/NF-kappaB signaling suggest these proteins are connected to immune signaling cascades. The combination supports a cluster centered on ubiquitin-proteasome regulation coupled with inflammatory signaling; a few terms (vitamin D response) are secondary. Therefore this label captures the main shared function of the cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0051865","count":11},{"id":"GO:0033280","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0030433","count":10}]},{"hash":"1943617681006687099","title":"Xenobiotic response and inflammation","description":"Dominant GO terms are response to xenobiotic stimulus and inflammatory response, with related chemokine production and apoptosis signals. Some development terms appear but are less representative. The core theme is xenobiotic/stress response paired with inflammation, despite zero edges, so this label captures the main functional signal.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":3},{"id":"GO:0090197","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0007275","count":2}]},{"hash":"558241742505781558","title":"Angiogenesis and endothelial remodeling","description":"The top GO terms cluster around angiogenesis, positive regulation of angiogenesis, ERK signaling, endothelial cell migration, and cell-matrix adhesion, pointing to vascular development and dynamic vessel remodeling. While terms related to neural morphogenesis and complement activation appear, they are less central to the core theme; thus the cluster is best described as vascular development and angiogenic remodeling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0008285","count":3}]},{"hash":"1875504137273367541","title":"Neural signaling and cardiac electrophysiology","description":"This cluster centers on neural electrical activity and sensory processing (neuronal action potential, long-term synaptic depression, pain and touch detection, optic nerve organization) along with cardiac electrophysiology (atrial repolarization, regulation of heart rate via cardiac conduction). Some terms like focal adhesion and circadian rhythm are broader, but they can relate to neural/muscle tissue interfaces and rhythmic regulation, respectively. Taken together, the proteins appear enriched for neural signaling with cardiac conduction components, supporting this label.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048041","count":3},{"id":"GO:0021633","count":2},{"id":"GO:0098914","count":2},{"id":"GO:0045188","count":2},{"id":"GO:1900454","count":2}]},{"hash":"1801956189365927085","title":"Innate Immune Signaling and Ion Transport","description":"Enriched terms include Toll-like receptor signaling (TLR3/9), xenobiotic response, hematopoietic progenitor differentiation, and membrane ion transport, suggesting a group of proteins involved in innate immune signaling with associated ion channel activity. A few unrelated terms (e.g., long-term memory) may reflect annotation breadth but do not override the dominant immune-focused signal.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0042144","count":2},{"id":"GO:0010216","count":2},{"id":"GO:0002244","count":2}]},{"hash":"234844296549363759","title":"Transcription Regulation and Chromatin Remodeling","description":"The cluster is dominated by GO terms related to DNA-templated transcription, regulation of transcription, nucleosome assembly, and histone deubiquitination, pointing to chromatin-level control of gene expression. While there are also signaling-related terms (lipid signaling, GTPase and PKC pathways, vascular permeability), the strongest and most cohesive signal centers on transcriptional regulation and chromatin dynamics.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046856","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0009736","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0035522","count":2}]},{"hash":"1400562473500070316","title":"Embryonic Development and Tissue Morphogenesis","description":"This cluster is tied to developmental processes across multiple tissues (heart cushion formation, cartilage morphogenesis, placenta-related differentiation, left/right patterning, pancreatic cell development) and to general regulatory activities like DNA-templated transcription and ubiquitin-mediated protein turnover, suggesting a cohesive theme of developmental differentiation and morphogenesis.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0090394","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060707","count":3}]},{"hash":"1172643946880446239","title":"Unknown","description":"The top GO terms mix insect developmental and epithelial polarity/adhesion processes with unrelated terms like teichoic acid biosynthesis and ER stress responses, and there is no network connectivity to tie them into a single cohesive function. This suggests annotation noise or a heterogeneous set of functions rather than a shared biological theme, so no clear cluster label can be assigned.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0090197","count":3},{"id":"GO:0042248","count":2},{"id":"GO:0030968","count":2},{"id":"GO:0001744","count":2}]},{"hash":"426464442111915276","title":"Neuronal signaling and synapse maintenance","description":"The Top Terms show emphasis on neuronal function: receptor clustering, paranodal junction maintenance, and regulation of grooming behavior. This suggests a theme of neuronal signaling and synapse organization. The presence of apoptosis regulation, ubiquitination, and mRNA stability hints at broader post-translational and gene-expression control relevant to neurons, though a few terms (like bile acid secretion) are less clearly connected.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":3},{"id":"GO:2000821","count":3},{"id":"GO:2000009","count":3},{"id":"GO:0043113","count":3},{"id":"GO:0006915","count":2}]},{"hash":"1672020497792712027","title":"Cell Adhesion and Migration Signaling","description":"The terms cluster around cell adhesion and migration, including integrin- and Rho-mediated signaling, lamellipodium assembly, and fibroblast migration, all reflecting cytoskeletal remodeling that drives movement. While there are some apoptosis/NF-kB related terms present, the dominant theme is adhesion and migration signaling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0097194","count":3},{"id":"GO:0070374","count":3}]},{"hash":"750478407797702886","title":"Endothelial Angiogenesis and BMP Signaling Regulation","description":"GO terms indicate endothelial cell activation, differentiation, and sprouting angiogenesis, along with positive/negative BMP signaling regulation and associated adhesion and coagulation processes, suggesting a vascular development/angiogenesis-related cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0030514","count":4},{"id":"GO:0090528","count":3},{"id":"GO:0042118","count":3},{"id":"GO:0002043","count":3}]},{"hash":"37151506628266810","title":"Ectodermal development and collagen ECM","description":"The cluster is dominated by GO terms for skin development, eye morphogenesis, and collagen biosynthesis (with collagen-activated signaling and regulation of adhesion molecules), pointing to roles in ectodermal tissue formation and extracellular matrix remodeling. Some immune-related and obsolete terms appear, but they do not define the main theme.","confidence":"Medium","size":27,"edges":7,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043588","count":5},{"id":"GO:0030853","count":4},{"id":"GO:0032964","count":4},{"id":"GO:0060355","count":4},{"id":"GO:0010743","count":4}]},{"hash":"584797611691280417","title":"Cerebellar development and axonogenesis","description":"The top GO terms are dominated by cerebellar-specific processes (cerebellar cortex formation, Bergmann glial cell differentiation, axonogenesis/axonal regeneration) indicating a cluster centered on cerebellar neural development and wiring. Secondary terms like insulin/immune signaling are present but appear peripheral to the core cerebellar theme. Overall, the cluster most plausibly reflects cerebellar development and axon growth.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008285","count":16},{"id":"GO:0048679","count":16},{"id":"GO:0050852","count":16},{"id":"GO:0043065","count":16},{"id":"GO:0008286","count":16}]},{"hash":"180085407864111325","title":"Cardiac development and energy metabolism","description":"The cluster centers on heart development (outflow tract morphogenesis, atrial cardiac muscle cell action potential regulation) and related vascular development (angiogenesis), with broader multicellular development terms; mitochondrial electron transport terms imply linked energy metabolism supporting cardiac growth and function.","confidence":"High","size":27,"edges":68,"triangles":30,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006120","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0071313","count":3}]},{"hash":"1749642591550878001","title":"Neural Development and Signaling","description":"This cluster is dominated by terms tied to neural development and signaling, including commissural axon guidance, regulation of axon extension, otic placode development, and PDGF/receptor tyrosine kinase signaling, suggesting a common theme around neural patterning and growth factor\u2013driven signaling. There are a few outliers (complement activation via lectin pathway and molting/cuticle processes) that don\u2019t fit neatly with neural functions, but the majority points to neural development and signaling pathways.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001867","count":13},{"id":"GO:0007171","count":11},{"id":"GO:0048008","count":10},{"id":"GO:0048168","count":9},{"id":"GO:0018996","count":9}]},{"hash":"671760756441400565","title":"TGF-beta/BMP Pathway Regulators","description":"The GO terms cluster around modulation of TGF-beta/BMP signaling, including negative regulation of TGF-beta receptor signaling and BMP signaling, cellular response to TGF-beta stimulus, and SMAD-related dephosphorylation activity, with cell cycle regulation as a related theme. A germ-line masculinization term is a developmental connection to these pathways, supporting a cohesive theme of signaling regulation. ","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":3},{"id":"GO:0046827","count":2},{"id":"GO:0042006","count":2},{"id":"GO:0035970","count":2},{"id":"GO:0071560","count":2}]},{"hash":"1199250799054260903","title":"Potassium Ion Transport and Membrane Potential","description":"Most terms center on potassium transport across membranes, intracellular K+ homeostasis, and changes in membrane potential (hyperpolarization and repolarization), with related references to Na+ transport and cardiac action potential. This suggests a cohesive cluster of ion transporters and channels governing electrical activity and ionic balance.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0030007","count":7},{"id":"GO:0007275","count":7},{"id":"GO:0051260","count":6}]},{"hash":"1136842618829640747","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":5,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":8},{"id":"GO:0000398","count":8},{"id":"GO:0002188","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0051301","count":6}]},{"hash":"590444726247568623","title":"ECM remodeling and immune/coagulation signaling","description":"A short paragraph explanation: The prominent GO terms point to extracellular matrix remodeling and cell adhesion (integrin signaling, metalloprotease activity, hyaluronan metabolism, chondrocyte morphogenesis, cell migration, protein heterotrimerization) alongside immune and coagulation processes (T cell activation via antigen presentation, cellular extravasation, complement activation, blood coagulation). Together, they define a module where ECM dynamics coordinate immune cell trafficking and coagulation responses.","confidence":"High","size":27,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006929","count":9},{"id":"GO:0007229","count":9},{"id":"GO:1905050","count":9},{"id":"GO:0003429","count":9},{"id":"GO:0070208","count":9}]},{"hash":"1945470731163596827","title":"GABAergic Synapses and Neural Excitability","description":"This cluster centers on neural signaling, especially GABAergic synapses, with components of chloride and potassium transport and membrane depolarization, and includes development and sensory pathway terms such as optic nerve morphogenesis, righting reflex, and sensory perception of sound, indicating a broader neural development scope.","confidence":"High","size":27,"edges":35,"triangles":6,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":6},{"id":"GO:0021631","count":6},{"id":"GO:0007605","count":6},{"id":"GO:1902476","count":6},{"id":"GO:0051899","count":6}]},{"hash":"2190354878821994774","title":"Neural development and apoptotic signaling","description":"The terms converge on brain development, neural tube closure, and neuron/glial apoptosis, including ER stress\u2013triggered intrinsic apoptotic signaling, indicating a neural-developmental cluster with regulated cell death. Additional terms for TGF-beta response and protein homooligomerization suggest signaling and protein complex formation typical in development.","confidence":"High","size":27,"edges":7,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051260","count":10},{"id":"GO:0007275","count":9},{"id":"GO:0071560","count":8},{"id":"GO:0007420","count":8},{"id":"GO:0034349","count":8}]},{"hash":"355461036995288888","title":"Bone ECM and Innate Immune Signaling","description":"This cluster is dominated by innate immune terms (TLR signaling, MyD88-dependent pathways, defense against viruses) alongside bone/ECM terms (collagen fibril organization, bone development, cross-linking of ECM components). This pattern suggests an osteoimmune function\u2014proteins involved in immune signaling that also participate in bone extracellular matrix remodeling. A few metabolic/cell-cycle terms are present but do not override the core theme.","confidence":"High","size":27,"edges":23,"triangles":2,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":11},{"id":"GO:0060348","count":10},{"id":"GO:0030199","count":9},{"id":"GO:0051607","count":9},{"id":"GO:0045842","count":9}]},{"hash":"1558863101307757599","title":"Inflammation and tissue morphogenesis","description":"The cluster's top GO terms include immune signaling (basophil activation, Fc-gamma receptor signaling, response to fungal origin, arachidonate secretion) and morphogenesis/development processes (cartilage condensation, lymph vessel morphogenesis, metanephric development), suggesting a theme of inflammatory signaling linked to tissue remodeling and organ formation.","confidence":"Medium","size":27,"edges":118,"triangles":191,"max_degree":24,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":23},{"id":"GO:0001502","count":22},{"id":"GO:0060355","count":21},{"id":"GO:0072218","count":21},{"id":"GO:0090238","count":21}]},{"hash":"210473409017976027","title":"RNA processing and translation initiation control","description":"The set is dominated by mRNA splicing regulation and processing terms, plus several aspects of translation initiation and ribosome assembly, indicating a coordinated RNA processing and translation control function.","confidence":"High","size":27,"edges":348,"triangles":2853,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":4},{"id":"GO:1903586","count":4},{"id":"GO:0048255","count":4},{"id":"GO:0035278","count":4},{"id":"GO:0075522","count":4}]},{"hash":"234813022533475489","title":"Cell Cycle and Division","description":"The top terms are dominated by cell cycle and cell division with four proteins each, indicating the cluster centers on cell cycle progression. Supporting terms like Golgi organization, ribosomal subunit export from the nucleus, and protein heterooligomerization point to essential cellular machinery coordinating division and organelle biogenesis. Some oxidative stress and autophagy-related terms appear as secondary regulatory layers but do not negate the core cell cycle theme.","confidence":"High","size":27,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":4},{"id":"GO:1902083","count":3},{"id":"GO:1903204","count":3},{"id":"GO:0071447","count":3}]},{"hash":"72642346168902703","title":"Developmental neuronal and cardiac apoptosis","description":"The top GO terms center on apoptotic processes (execution phase, extrinsic signaling, neuron and glial apoptosis) and developmental contexts (hippocampus development, heart development, multicellular organism development), suggesting proteins coordinating programmed cell death during neural and cardiac development.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0097194","count":4},{"id":"GO:0035234","count":4},{"id":"GO:0021766","count":4},{"id":"GO:0051402","count":4}]},{"hash":"1441776846900551932","title":"Ion transport and GPCR trafficking","description":"Top GO terms cluster around membrane processes: ion transmembrane transport (sodium, magnesium), clathrin-dependent endocytosis and GPCR internalization, and signaling regulation (insulin receptor pathway, GTPase activity). Some transcription-related terms and cell division are present but less coherent with the main theme, so the dominant theme is membrane transport and receptor trafficking affecting signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0046626","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0032026","count":2}]},{"hash":"1393539505476520340","title":"Cardiac and Neural Signal Transduction and Plasticity","description":"The top GO terms cluster around intracellular signaling (cAMP response, calcium import, Rho signaling) and regulatory pathways (integrin-mediated adhesion, GH receptor signaling) with effects on cardiac (SA node action potential regulation) and neural (synapse structural plasticity, pain perception) contexts. This suggests a cohesive theme of signal transduction and plasticity across heart and nervous system rather than a single tissue-specific function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0008285","count":4},{"id":"GO:0051835","count":4},{"id":"GO:0035023","count":4}]},{"hash":"1353035151595001087","title":"Histone methylation and transcription regulation","description":"The cluster is dominated by GO terms related to methylation (N-terminal serine dimethylation, peptidyl-lysine monomethylation, histone H4-R3 methylation) and DNA-templated transcription, suggesting epigenetic control of gene expression as the core theme. Some terms about stress responses and RNA modification appear, but the primary pattern centers on methylation-related regulation of transcription.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035902","count":9},{"id":"GO:0042220","count":8},{"id":"GO:0006351","count":7},{"id":"GO:0035572","count":6},{"id":"GO:0043985","count":6}]},{"hash":"801685155478796084","title":"Unknown","description":"The GO terms in this cluster are highly diverse, including intracellular signal transduction, temperature sensing, kinase activity regulation, chemokine production, various developmental processes (CNS and prostate gland), telomere maintenance regulation, cell growth, and protein ubiquitination. There is no clear, single theme tying these functions together, so a specific, concise label is not justifiable.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":5},{"id":"GO:0050955","count":4},{"id":"GO:0071901","count":4},{"id":"GO:2000340","count":4},{"id":"GO:0060743","count":4}]},{"hash":"483228853275849100","title":"Peptide Hormone and Neuropeptide Processing","description":"The top GO terms point to peptide maturation and neuroendocrine signaling, with insulin processing, enkephalin processing, and peptide pheromone maturation indicating peptide hormone/neuropeptide maturation pathways; nerve growth factor production also aligns with neuronal signaling. A few terms related to LDL receptor catabolic processes suggest some receptor turnover, but the dominant signal is peptide/prohormone processing, supporting a neuroendocrine/neuropeptide-focused cluster.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":5},{"id":"GO:1905596","count":5},{"id":"GO:0032805","count":5},{"id":"GO:0007354","count":5},{"id":"GO:0032802","count":5}]},{"hash":"1099235276822561080","title":"Kidney Development and Epithelial Adhesion","description":"The cluster is enriched for kidney-related terms (kidney development; metanephric ascending limb development) and epithelial/adhesion processes (homophilic cell-cell adhesion, positive regulation of keratinocyte differentiation), suggesting a theme around kidney epithelial development and tissue adhesion; some neural and inflammatory terms are present but less central.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0072218","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0009405","count":3}]},{"hash":"147091727066327671","title":"Regulation of vascular and immune processes","description":"Most top GO terms point to negative regulation of angiogenesis, blood vessel remodeling, cellular extravasation, and neutrophil degranulation, as well as platelet aggregation. Additional terms touch on intracellular trafficking (endosome to lysosome transport) and cell cycle/centrosome dynamics, suggesting the proteins act as regulators of vascular/immune function and related signaling. A few terms related to nerve impulse transmission and acrosome reaction appear as outliers but may reflect shared signaling pathways or multifunctional proteins common to different cellular contexts. Overall, the cluster is best described as coordinating vascular and immune processes rather than a specific enzyme activity.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051971","count":2},{"id":"GO:0070527","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0060313","count":2}]},{"hash":"28487331472759293","title":"Endosomal trafficking and innate immunity","description":"The top GO terms cluster around endosome transport and organization and multiple vesicle trafficking pathways (endosome to melanosome, Golgi-ER retrograde, synaptic vesicle transport), coupled with innate immune signaling and NF-kappaB regulation. Developmental and behavioral terms are present but less central, so the core theme is vesicle trafficking intertwined with innate immune signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035646","count":3},{"id":"GO:0007032","count":3},{"id":"GO:0097194","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0043123","count":3}]},{"hash":"1957986609017427167","title":"NF-\u03baB-regulated transcription and immune signaling","description":"These proteins cluster around immune signaling and transcriptional control, dominated by canonical NF-\u03baB pathway activity and regulation of transcription, with supporting roles for ubiquitination and broader signal transduction. Some terms touch on neural development, but the strongest and most coherent signal is NF-\u03baB\u2013linked transcriptional regulation and immune responses, making this label representative of the cluster\u2019s function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045943","count":2},{"id":"GO:0007249","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0060313","count":2},{"id":"GO:0002692","count":2}]},{"hash":"152849438416218862","title":"Proteoglycan and Glycosaminoglycan Biosynthesis","description":"The top GO terms are dominated by keratan sulfate, heparan sulfate, chondroitin sulfate, and hyaluronan biosynthesis, plus related glycosylation and ECM organization, indicating a core theme of proteoglycan/GAG production and extracellular matrix assembly. Some terms like immunoglobulin production or infection-structure formation may reflect broader secretion or host-interaction roles, but the prevailing signal points to proteoglycan and GAG biosynthesis as the cluster\u2019s function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018146","count":5},{"id":"GO:0015015","count":4},{"id":"GO:0030206","count":4},{"id":"GO:0071555","count":4},{"id":"GO:0006486","count":4}]},{"hash":"2202750202985801507","title":"Inflammation-driven ECM remodeling and angiogenesis","description":"The top GO terms center on inflammatory signaling (positive regulation of IL-6 and TNF production) and extracellular matrix processes (collagen fibril organization) with both positive and negative regulation of angiogenesis. This suggests a cluster of proteins involved in inflammatory responses linked to ECM remodeling and vascular growth control. While there are additional transport and synaptic terms, the strongest theme ties inflammation to ECM/angiogenesis, supporting this label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032755","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0043569","count":2}]},{"hash":"1364630478249057699","title":"Fatty Acid and Retinoid Metabolism","description":"The cluster is dominated by fatty acid-related pathways (elongation, very long-chain FA biosynthesis) and retinoid metabolism (retinol and retinoic acid biosynthesis), with supporting signals for phylloquinone turnover and steroid catabolism, suggesting a cohesive theme of lipid/vitamin metabolism. Antibiotic response terms appear but are likely secondary context rather than the primary function. Confidence: High","confidence":"","size":26,"edges":161,"triangles":526,"max_degree":19,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":23},{"id":"GO:0030497","count":17},{"id":"GO:0042761","count":17},{"id":"GO:0042376","count":17},{"id":"GO:0055114","count":17}]},{"hash":"2117916468991221831","title":"Retinoid and carbohydrate metabolism with stress responses","description":"The cluster is enriched for retinol and retinoic acid metabolism along with several carbohydrate catabolic processes (ethanol, xylitol, fructose), and includes responses to lipopolysaccharide and nitrosative stress plus extracellular signal regulation. This combination suggests a network of metabolic enzymes tied to cellular stress signaling rather than a single tightly defined pathway. ","confidence":"Medium","size":26,"edges":203,"triangles":782,"max_degree":22,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":12},{"id":"GO:0042572","count":12},{"id":"GO:0032496","count":11},{"id":"GO:0042573","count":10},{"id":"GO:1900116","count":10}]},{"hash":"1161072432843562680","title":"Fatty Acid Metabolism and Transport","description":"The cluster shows a clear enrichment for long-chain and very long-chain fatty acid metabolic processes and import into the cell, pointing to lipid metabolism and fatty acid handling as the core function. Menaquinone biosynthesis also ties into membrane-related lipid pathways. Some terms like bioluminescence or seed coat development may reflect annotation noise or multifunctional proteins, but the lipid-focused terms dominate. Overall, the cluster most consistently represents fatty acid metabolism and transport.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0014909","count":7},{"id":"GO:0007161","count":7},{"id":"GO:0009234","count":6},{"id":"GO:0044539","count":6}]},{"hash":"13109699264250195","title":"Muscle Regeneration Signaling and Calcium Response","description":"The cluster is dominated by GO terms related to skeletal muscle regeneration (satellite cell activation) and angiogenesis, with strong signals for calcium signaling (calcium transport and cellular response to calcium) and transcriptional regulation (DNA-binding transcription factor activity, G-protein/cAMP signaling). This suggests a cohesive program coordinating muscle growth/repair with calcium-dependent signaling and related transcriptional control.","confidence":"High","size":26,"edges":321,"triangles":2505,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":9},{"id":"GO:0051384","count":8},{"id":"GO:0014718","count":8},{"id":"GO:0051591","count":8},{"id":"GO:0033234","count":8}]},{"hash":"695490345275662644","title":"Transmembrane ion and metabolite transporters","description":"Based on the GO terms, this cluster is dominated by transmembrane transport activities across a range of ions and metabolites (K+, Na+, arsenite, monoatomic anions, malate, succinate, phosphate, and general transmembrane transport). The presence of \"activation of protein kinase activity\" suggests accompanying signaling capability, but the strongest and most coherent signal is membrane transport. Note the ribosome biogenesis term is present but does not override the transport-focused pattern, so the label reflects the core theme of the cluster.","confidence":"Medium","size":26,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0032147","count":2},{"id":"GO:0015700","count":2},{"id":"GO:0006813","count":2},{"id":"GO:0015744","count":2}]},{"hash":"818214705962054729","title":"Proteostasis and oxidative stress response","description":"This cluster is characterized by GO terms related to protein folding and quality control (chaperone-mediated complex assembly, degradation of oxidized/misfolded proteins, protein import into mitochondria) together with oxidative stress responses (oxidant detoxification, cellular response to oxidative stress, ER polarization). The combination points to a coordinated proteostasis network activated during oxidative/ER stress, spanning ER, mitochondria, and nucleus (transcription). The presence of microtubule severing also fits into cellular remodeling during stress. Confidence: High","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0098869","count":3},{"id":"GO:0061166","count":3},{"id":"GO:0051131","count":3},{"id":"GO:0070414","count":3}]},{"hash":"791037325642245097","title":"Complement and Fc receptor immune signaling","description":"This cluster is strongly enriched for innate immune terms, especially complement activation via the lectin pathway and Fc-gamma receptor signaling, plus a cellular response to fungal origin, indicating a core theme of immune recognition and activation. Additional terms related to adhesion molecule production and arachidonate (inflammatory mediator) release support a broader inflammatory signaling role. Some developmental terms (kidney metanephric development, lymph vessel morphogenesis, cartilage condensation) may reflect shared involvement in tissue remodeling and cell interactions rather than a single developmental program. Overall, the dominant signal points to complement- and Fc receptor\u2013mediated immune signaling with associated inflammatory and adhesion-related processes.","confidence":"High","size":26,"edges":65,"triangles":172,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":20},{"id":"GO:0072218","count":19},{"id":"GO:0071226","count":19},{"id":"GO:0060355","count":18},{"id":"GO:0090238","count":18}]},{"hash":"2034088494025085609","title":"Cell growth and division machinery","description":"This cluster's frequent terms include cell division, mitotic cell cycle, and regulation of meiotic nuclear division, alongside ribosome biogenesis and TORC1 signaling, suggesting a coordinated program of growth and proliferation. Additional RNA processing and ubiquitination terms are present but less central, so the dominant theme is the interplay between protein synthesis machinery and cell-cycle progression.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0042254","count":3},{"id":"GO:1904263","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0034965","count":2}]},{"hash":"494666611358833635","title":"GTPase and kinase signaling regulators","description":"The top GO terms center on regulation of GTPase activity, kinase activity (including protein autophosphorylation), and protein\u2013protein interactions like heterotrimerization, pointing to signaling and regulatory control. A mitotic cell cycle term and a cellular response to hypoxia further support roles in signal transduction linked to cell-cycle regulation and stress responses. While some terms pertain to development (retina, male gonad), the overall theme is signaling regulation and cell-cycle control rather than a single tissue-specific function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008584","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0070208","count":6},{"id":"GO:0031954","count":6},{"id":"GO:0051028","count":6}]},{"hash":"1025649478124168294","title":"Unknown","description":"The top GO terms are heterogeneous, covering ion transport, signaling, meiosis, development, cell adhesion, and translation initiation, with no single shared function tying all proteins together. This suggests a diverse cluster without a coherent, proteins-wide theme.","confidence":"","size":26,"edges":189,"triangles":694,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":2},{"id":"GO:0030437","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0007127","count":2}]},{"hash":"946957728656594334","title":"NF-kappaB-TNF inflammatory and apoptotic signaling","description":"This cluster\u2019s top GO terms cluster around NF-kappaB regulation and signaling, TNF production, and inflammatory response, with accompanying apoptosis pathways (extrinsic/apoptosis execution) and immune homeostasis (T and B cell). The convergence on NF-kappaB/TNF\u2013driven inflammation and cell death suggests a cohesive immunoregulatory module rather than disparate processes.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051092","count":7},{"id":"GO:0043029","count":6},{"id":"GO:0097194","count":5},{"id":"GO:0006954","count":5},{"id":"GO:0043123","count":5}]},{"hash":"696208459657489973","title":"Cell signaling regulators and immune response modulators","description":"The top GO terms cluster around regulation of signaling pathways (GTPase activity, kinase activity, NF-kappaB), innate immune response, and broader cellular regulation (mitosis, development, mRNA transport, hypoxia response). This pattern suggests a group of regulatory proteins that modulate signaling cascades, immune activation, and cell-cycle/stress responses, rather than a single linear pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0030433","count":6},{"id":"GO:0043123","count":6},{"id":"GO:0007275","count":6}]},{"hash":"1581819171088891800","title":"Synaptic development and transmission regulation","description":"These terms cluster around synapse formation and function: regulation of vesicle endocytosis and exocytosis, enhancement of synapse assembly and glutamatergic transmission, and control of dendritic spine morphogenesis and axonal connectivity. Wnt signaling involvement and ECM-related collagen organization appear supplementary but consistent with synaptic development and remodeling. Overall, the proteins seem focused on neuronal synapse development and transmission regulation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900242","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0030199","count":3},{"id":"GO:2000300","count":3}]},{"hash":"446998718160105070","title":"Mitotic cell cycle and neural development regulators","description":"The Top GO terms show strong ties to cell division (mitotic cell cycle, mitotic spindle assembly) alongside neural development and synaptic signaling (substantia nigra development, regulation of synaptic vesicle exocytosis/endocytosis). There are also broader developmental and signaling themes (hair follicle placode formation, MAPK signaling regulation, LPS-mediated signaling). Because the cluster spans both mitotic processes and neural/developmental signaling, the label highlights these two dominant themes rather than a single cohesive pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:2000300","count":5},{"id":"GO:0090307","count":5},{"id":"GO:0060789","count":4},{"id":"GO:0071701","count":4}]},{"hash":"1011726382394636975","title":"Epithelial\u2013Endothelial Differentiation and Adherens Junctions","description":"The top GO terms cluster around epithelial differentiation (keratinocyte differentiation), cell\u2013cell adhesion (adherens junction organization), and vascular development (endothelial tube lumen extension, sprouting angiogenesis, and its regulation). While some terms relate to ribosome export or immune responses, the strongest signal ties epithelial and endothelial differentiation and junctional integrity, suggesting a cohesive theme of epithelial-to-vascular differentiation and adhesion processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090051","count":3},{"id":"GO:0030216","count":3},{"id":"GO:0042832","count":3},{"id":"GO:0032729","count":3},{"id":"GO:0097498","count":2}]},{"hash":"2178111797450221992","title":"Reproduction and Organ Morphogenesis Regulators","description":"The top GO terms point to reproductive processes (sperm capacitation and sperm-egg interaction) and morphogenesis of multiple organs (atrial muscle, dorsal aorta, metanephric kidney segments), with additional regulatory signaling terms (protein autophosphorylation, IFN production). This suggests a cluster of proteins involved in regulatory roles across reproduction and organ development, rather than a single pathway, hence the two-theme label.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043030","count":2},{"id":"GO:0048240","count":2},{"id":"GO:2000360","count":2},{"id":"GO:0055009","count":2},{"id":"GO:0035912","count":2}]},{"hash":"153343778311572806","title":"Mitochondrial metabolite transporters","description":"These proteins cluster around transport of diverse metabolites into and out of mitochondria (ADP, alpha-ketoglutarate, pyrimidine nucleotides, pyridoxal phosphate, magnesium ions, phosphate), which is characteristic of mitochondrial carrier proteins. The presence of an oxidative stress/mitochondrial apoptosis term (response to superoxide and apoptotic mitochondrial changes) further supports a mitochondrial transporter/mitochondrial function theme. ","confidence":"High","size":26,"edges":11,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":7},{"id":"GO:0000303","count":6},{"id":"GO:0008637","count":6},{"id":"GO:0032869","count":5},{"id":"GO:0035435","count":5}]},{"hash":"1773450785941226146","title":"Carbohydrate Metabolism Core","description":"The cluster shows strong representation of carbohydrate-related GO terms, notably polysaccharide catabolic process and carbohydrate metabolic process, suggesting a core theme around carbohydrate metabolism. The presence of additional terms such as cartilage and lung development, chitin catabolic process, apoptotic and transcription regulation, and signaling terms likely reflect either multi-functionality of proteins or annotation breadth, but the recurring emphasis on carbohydrate metabolism supports a metabolism-centric label with some diverse functional annotations.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0000272","count":5},{"id":"GO:0005975","count":5},{"id":"GO:0051216","count":5},{"id":"GO:0043278","count":4},{"id":"GO:0006032","count":4}]},{"hash":"696689439823922715","title":"Innate antiviral response and cytoskeletal dynamics","description":"This cluster is enriched for antiviral and innate immune terms (defense response to virus, innate immune response, and interferon signaling), indicating an antiviral immune function. It also includes actin-based structure terms (microspike and podosome assembly), suggesting cytoskeletal remodeling linked to immune cell migration and function; mitochondrial respiration terms may reflect metabolic support for immune activity.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0006122","count":2},{"id":"GO:0009060","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0060335","count":2}]},{"hash":"620229922686009337","title":"Developmental morphogenesis and cell migration","description":"The top GO terms point to development and organogenesis (midbrain dopaminergic neuron differentiation, oviduct and renal inner medulla development) and processes linked to cellular movement and adhesion (cell migration, calcium-dependent cell-cell adhesion, GTPase activity) as well as basic cellular processes (mitotic cytokinesis, nuclear import). Together they suggest a cluster of proteins involved in developmental morphogenesis with motility and signaling, hence Developmental morphogenesis and cell migration.","confidence":"Medium","size":26,"edges":135,"triangles":227,"max_degree":18,"top_function":"autophagy","top_go_terms":[{"id":"GO:0071230","count":8},{"id":"GO:0043547","count":7},{"id":"GO:0006607","count":7},{"id":"GO:0016477","count":6},{"id":"GO:1904948","count":5}]},{"hash":"2750436657741510","title":"Innate Immune Signaling and Ubiquitination","description":"The cluster is dominated by innate immune terms (innate immune response and response to exogenous dsRNA) and a note of ubiquitin-related regulation (K11-linked ubiquitination), suggesting antiviral signaling coupled with protein regulation. Some outlier terms (cell division, prostate gland development, lead ion response) hint at annotation noise or pleiotropy, but the core theme appears to be innate immune sensing and ubiquitin-mediated control.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0046661","count":4},{"id":"GO:0006478","count":4},{"id":"GO:0090526","count":4}]},{"hash":"545775972941466086","title":"Ubiquitin-Dependent Proteolysis with Circadian Regulation","description":"The cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes and polyubiquitination, including SCF-dependent proteasomal degradation, with additional links to circadian rhythm regulation and stress-induced pathways (heavy metals, oxidative stress). This suggests a cohesive theme around ubiquitin-proteasome\u2013mediated protein turnover that influences circadian cycles and stress responses.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0000209","count":14},{"id":"GO:0031146","count":11},{"id":"GO:0042752","count":11},{"id":"GO:1903378","count":11}]},{"hash":"991806002694353538","title":"NF-kappaB\u2013driven innate immunity and ubiquitination","description":"This cluster is dominated by terms for innate immune responses and defense against virus, centered on NF-kappaB signaling. Several terms specify ubiquitination processes (K63-linked, autoubiquitination, ubiquitin-dependent ERAD) that regulate NF-kappaB activation and immune signaling. A vitamin D\u2013response term may reflect regulatory cross-talk, but the core theme ties innate immunity to NF-kappaB regulation via ubiquitination. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":12},{"id":"GO:0051607","count":11},{"id":"GO:0051092","count":11},{"id":"GO:0033280","count":10},{"id":"GO:1903265","count":10}]},{"hash":"47313649237319904","title":"Neural development and synapse regulation","description":"This cluster is dominated by GO terms related to neural development and synaptic dynamics, including inner ear development, positive regulation of synapse assembly, and maintenance of synapse structure, along with signaling pathway modulation (ERK cascade) and motor learning. The presence of craniofacial development and immune-related terms (complement activation, blood coagulation) suggests some multifunctionality or broader developmental roles, but the strongest coherent theme centers on neural development and synaptic regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":8},{"id":"GO:0031953","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0007596","count":5}]},{"hash":"1079221324329084147","title":"Ubiquitin-Dependent Innate Immunity","description":"This cluster is dominated by ubiquitination-related terms (ubiquitin-dependent protein catabolic process, protein ubiquitination, autoubiquitination) and innate immune/antiviral responses (innate immune response, defense response to virus). The presence of response to vitamin D and apoptosis regulation suggests regulatory layers linking ubiquitin signaling to immune modulation. Overall, the shared theme is ubiquitin-mediated control of innate immune defense.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0033280","count":9},{"id":"GO:0016567","count":8},{"id":"GO:0043066","count":7},{"id":"GO:0032088","count":7}]},{"hash":"1940589846439919992","title":"Diverse Substrate Transporters (Nutrients & Xenobiotics)","description":"This cluster centers on membrane transport activity across a range of substrates\u2014nitrate, arabinose, fucose, sialic acid, and other xenobiotics\u2014as well as sodium ions, plus a role in neurotransmitter loading into synaptic vesicles. The common thread is transmembrane transport ability rather than a single specific substrate, indicating a family of diverse transporter proteins. The lack of edges suggests limited inferred interactions in this dataset. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0015751","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0006004","count":3},{"id":"GO:0015739","count":3}]},{"hash":"1541443271693672078","title":"Multisubstrate Membrane Transporters","description":"The proteins in this cluster show enrichment for a broad range of transmembrane transport activities, including ions (potassium, sodium), various sugars (arabinose, fucose), nitrate, sialic acid, xenobiotics, and a role in neurotransmitter loading into synaptic vesicles, pointing to a group of diverse substrate transporters rather than a single-species transporter.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":5},{"id":"GO:0042128","count":3},{"id":"GO:0015751","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0006004","count":3}]},{"hash":"1424781958822395996","title":"Complement Regulation and Immune Activation","description":"The cluster is dominated by GO terms related to regulation and activation of the immune system, especially complement pathways (classical and lectin) and immune cell activation (memory T cell differentiation, platelet activation). Additional terms point to cell\u2013cell interactions (adhesion) and related processes, with a few outliers that may reflect annotation noise. This supports a cohesive theme around immune regulation and activation, with some related adhesion roles. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0045959","count":3},{"id":"GO:0039573","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0010572","count":3},{"id":"GO:0043382","count":3}]},{"hash":"382189198202991350","title":"Innate immune signaling and inflammation","description":"The top GO terms are dominated by Toll-like receptor 9 signaling, lipopolysaccharide response, and TNF-mediated signaling, indicating activation of innate immune pathways and inflammatory responses in this protein cluster. Some terms touch on macrophage differentiation and metabolic processes, suggesting a broader context of inflammation, but the core theme is innate immune signaling.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006203","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0090141","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1459916586115817655","title":"Cardiovascular and neural development signaling","description":"The top GO terms center on heart development and angiogenesis, CNS development and synapse assembly, with connected signaling via Rho pathways and JUN phosphorylation, suggesting coordinated developmental signaling programs in heart and nervous system tissues.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000187","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1893189647279703137","title":"Cardiac Neural Crest Morphogenesis","description":"The terms cluster around heart development and morphogenesis, including cardiac right ventricle formation, outflow tract morphogenesis, and neural crest\u2013driven heart development, coupled with adhesion and migration processes (cell\u2013cell and cell\u2013matrix adhesion, angiogenesis-related migration). This points to a coherent theme of cardiac morphogenesis guided by neural crest and related cell adhesion. ","confidence":"High","size":25,"edges":61,"triangles":27,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":22},{"id":"GO:1990134","count":21},{"id":"GO:0014909","count":20},{"id":"GO:0002042","count":20},{"id":"GO:0007161","count":20}]},{"hash":"299650333684510205","title":"Proteoglycan Biosynthesis","description":"The top GO terms are strongly centered on proteoglycan and glycosaminoglycan biosynthesis (heparan sulfate, chondroitin/dermatan/keratan sulfate, heparin proteoglycan biosynthetic processes) and related aspects like N-acetylglucosamine metabolism and protein sulfation. A few terms about angiotensin regulation and fat cell differentiation are more peripheral, but the dominant signal points to synthesis of proteoglycans in the extracellular matrix.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":5},{"id":"GO:0030206","count":5},{"id":"GO:0006044","count":5},{"id":"GO:0006068","count":4},{"id":"GO:0018146","count":4}]},{"hash":"304168588635627168","title":"Neural development and synaptic signaling","description":"Top GO terms cluster around neural development and synaptic function: retina development in camera-type eye, learning, and retrograde trans-synaptic signaling indicate neuronal development and communication; regulation of respiratory gaseous exchange by nervous system process suggests broader brainstem control; response to glucocorticoid and response to folic acid may modulate neural physiology; cholesterol ester hydrolysis involved in cholesterol transport points to lipid metabolism critical for synapse membranes. An outlier term about osteoblast development appears unrelated to the dominant neural theme; overall, the proteins likely participate in neural development and synaptic signaling with lipid metabolism support.","confidence":"Medium","size":25,"edges":290,"triangles":2080,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":20},{"id":"GO:0002076","count":16},{"id":"GO:0002087","count":16},{"id":"GO:0051384","count":12},{"id":"GO:0007612","count":12}]},{"hash":"641687706327168788","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":201,"triangles":798,"max_degree":23,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0071630","count":4},{"id":"GO:0006458","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0045454","count":4}]},{"hash":"2048270334588939325","title":"Endothelial Angiogenesis and Adhesion Signaling","description":"The GO terms show a clear focus on angiogenesis and endothelial cell behavior, including endothelial migration, angiogenesis, and positive regulation of angiogenic processes, along with ERK signaling and cell-matrix adhesion. This points to a coordinated endothelial angiogenic signaling program, with some transcriptional/mRNA processing terms likely reflecting regulatory components. Hence the label captures the dominant theme without overgeneralizing.","confidence":"High","size":25,"edges":37,"triangles":25,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902042","count":5},{"id":"GO:0006397","count":5},{"id":"GO:0043536","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0045766","count":5}]},{"hash":"704881705563478247","title":"Fatty acid biosynthesis and elongation","description":"The top GO terms cluster around fatty acid metabolism across various chain lengths (long-chain, very long-chain, unsaturated, monounsaturated) and biosynthetic steps, indicating a cohesive role in lipid biosynthesis and fatty-acid elongation. Some vesicle transport terms appear but are likely related to membrane trafficking associated with lipid production. Overall, the dominant signal supports a fatty acid biosynthesis/elongation function for this cluster.","confidence":"Medium","size":25,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048235","count":1},{"id":"GO:0050873","count":1},{"id":"GO:0040015","count":1},{"id":"GO:0034625","count":1},{"id":"GO:0030148","count":1}]},{"hash":"1403104201322358165","title":"Unknown","description":"TheTop GO terms are highly heterogeneous, spanning DNA replication/recombination, cell wall organization, and several distinct biosynthetic pathways (starch/glycogen, lipid A, and proteoglycans). There isn't a single cohesive function or pathway tying the proteins together, so a specific, representative label isn't apparent.","confidence":"","size":25,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090502","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0019252","count":2},{"id":"GO:0009245","count":2}]},{"hash":"2237031649813174030","title":"Lectin pathway\u2013driven innate immune signaling","description":"This cluster is dominated by GO terms tied to innate immune recognition and signaling: stimulation of C-type lectin receptor pathways, lectin pathway activation of complement, Fc-gamma receptor signaling, and inflammatory mediator release (arachidonate), plus platelet activation. These collectively point to coordinated immune detection and inflammatory responses mediated by lectin and Fc receptor pathways; a few developmental terms appear as less representative outliers.","confidence":"High","size":25,"edges":45,"triangles":35,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001502","count":16},{"id":"GO:0071226","count":16},{"id":"GO:0010572","count":14},{"id":"GO:0002223","count":14},{"id":"GO:0001867","count":14}]},{"hash":"968598404140593952","title":"Organogenesis and developmental signaling","description":"Top GO terms indicate development across several organs (heart, nervous system, kidney) and morphogenesis (vestibular receptor cells, paranode axon localization), coupled with key signaling pathways (SHH/Smoothened, ROBO/Roundabout) and regulation of cell migration. Together these terms point to a cluster of proteins involved in developmental signaling that orchestrates organogenesis and neural development rather than a single tissue or process.","confidence":"High","size":25,"edges":210,"triangles":1046,"max_degree":23,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":22},{"id":"GO:0007224","count":20},{"id":"GO:0035385","count":20},{"id":"GO:0050852","count":20},{"id":"GO:0007399","count":20}]},{"hash":"1928542509951878698","title":"Calcium-Dependent Exocytosis and Vesicle Signaling","description":"This cluster centers on calcium signaling and vesicle dynamics, including calcium transport, cellular responses to calcium, exocytosis, vesicle endocytosis, and phosphatidylinositol signaling. The presence of platelet degranulation and memory terms suggests broad secretory signaling roles in neurons and platelets, driven by calcium and calcineurin-NFAT pathways. The metanephric development term appears as a peripheral annotation rather than a core function of the cluster.","confidence":"High","size":25,"edges":21,"triangles":0,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0045921","count":6},{"id":"GO:0070588","count":5},{"id":"GO:0071277","count":5},{"id":"GO:0072286","count":5}]},{"hash":"1509553675397541606","title":"Membrane Solute Transporters","description":"The top GO terms are dominated by various transmembrane transport processes for ions, sugars, and vitamins (e.g., sodium, glucose, biotin, pantothenate, myo-inositol, arabinose). This suggests proteins that function as membrane transporters for diverse solutes. A minor term related to ERK cascade regulation appears, but the core signal is transport activity rather than signaling. Therefore, the cluster is best labeled as Membrane Solute Transporters.","confidence":"High","size":25,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":4},{"id":"GO:1904659","count":4},{"id":"GO:0070374","count":3},{"id":"GO:0015878","count":3},{"id":"GO:0015887","count":3}]},{"hash":"180480677596476837","title":"Neural development and synaptic signaling with lipid metabolism","description":"The cluster shows a strong emphasis on neural development, learning, and synaptic signaling (retina development, learning, retrograde signaling, nervous-system\u2013regulated respiration, glucocorticoid response), with cholesterol ester hydrolysis linking to lipid metabolism relevant for membranes and signaling in neurons. An outlier term about osteoblast development is present but does not dominate the theme.","confidence":"High","size":25,"edges":298,"triangles":2255,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":14},{"id":"GO:0002076","count":14},{"id":"GO:0002087","count":14},{"id":"GO:0051384","count":13},{"id":"GO:0007612","count":13}]},{"hash":"1312347805475932473","title":"Cell Division and Proliferation Regulation","description":"The top GO terms are dominated by cell division, cell cycle, and mitotic processes (cell division, cell cycle, mitotic cell cycle, cell septum assembly), with supporting roles in ribosome biogenesis and RNA methylation that facilitate growth and division. A few terms touch development (retinoic acid response, skeletal system development), but the strongest signal is core division/proliferation machinery.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0000747","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0090529","count":3},{"id":"GO:0007049","count":3}]},{"hash":"1603445195282980791","title":"Membrane Transporters","description":"The cluster is characterized by multiple transmembrane transport GO terms across diverse substrates (nitrate, arabinose, fucose, sialic acid, xenobiotics, sodium ions, etc.), plus vesicular neurotransmitter loading. This points to a cohesive group of membrane transporter proteins with varied substrate specificity.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":6},{"id":"GO:0015751","count":5},{"id":"GO:1900754","count":5},{"id":"GO:0006004","count":5},{"id":"GO:0015739","count":5}]},{"hash":"1655920368131334900","title":"Synaptic signaling and spine morphogenesis","description":"The top GO terms point to neuronal synapses and morphology: chemical synaptic transmission, receptor clustering, dendritic spine morphogenesis, and paranodal junction maintenance, with Rho-mediated signaling affecting actin dynamics at synapses. The presence of behavioral terms like vocalization and grooming behavior supports a neural-circuit context. A few terms (e.g., bile acid secretion) are likely annotation noise, but do not negate the dominant synaptic/morphology signal.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071625","count":4},{"id":"GO:2000821","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0032416","count":3},{"id":"GO:0032782","count":3}]},{"hash":"889940021041770336","title":"Coagulation and vascular remodeling regulation","description":"The cluster is enriched for GO terms related to blood coagulation, its positive regulation, and vascular remodeling processes (vasoconstriction, lymphangiogenesis, hyaluronan biosynthesis). Additional terms touch on immune response and mechanotransduction, suggesting a module of proteins coordinating coagulation with vascular and extracellular matrix remodeling under inflammatory or mechanical cues. The label captures the central theme without overgeneralizing.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0051897","count":3},{"id":"GO:1900127","count":2},{"id":"GO:0030194","count":2},{"id":"GO:1901492","count":2}]},{"hash":"786197278725831676","title":"Osteogenesis and Skeletal Development","description":"The dominant GO terms point to bone formation and skeletal tissue processes (osteoblast differentiation, collagen organization, bone regeneration, skeletal system development, BMP signaling modulation). Some terms related to other tissues (pancreatic cell proliferation, insulin secretion, extrinsic apoptotic signaling) appear less central and may reflect broader signaling cross-talk, but the bone-related signals clearly define a skeletal development theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":3},{"id":"GO:1990523","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0044342","count":2},{"id":"GO:0001501","count":2}]},{"hash":"1511707253499399032","title":"Collagen ECM Remodeling and Immune Signaling","description":"GO terms point to extracellular matrix remodeling via collagen fibril organization and collagen biosynthesis, coupled with immune processes (innate/adaptive immunity, phagocytosis, IL-8 regulation). The presence of Rho signaling regulation and dendritic spine morphogenesis suggests cytoskeletal rearrangements supporting these processes, and endothelial barrier establishment hints at tissue integrity. Overall, the cluster centers on ECM remodeling intertwined with immune signaling and cytoskeletal dynamics.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0045087","count":3},{"id":"GO:2000483","count":3},{"id":"GO:0006909","count":3}]},{"hash":"247344253361012515","title":"Glycinergic synaptic signaling and amino acid transport","description":"Reason: The dominant terms are glycinergic synaptic transmission (regulation and transmission) and glycine-related transport/import, along with several amino acid transport terms (taurine, proline). These collectively point to a neural/function cluster centered on glycine-mediated neurotransmission and amino acid handling, with other terms appearing as supporting context.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060092","count":8},{"id":"GO:0021984","count":8},{"id":"GO:0042420","count":8},{"id":"GO:0042066","count":8},{"id":"GO:0015734","count":8}]},{"hash":"242801303850093156","title":"Cardiac morphogenesis and neural crest development","description":"The dominant GO terms describe heart development and morphogenetic processes (right ventricle formation, cardiac neural crest\u2013driven outflow tract morphogenesis, ventricular trabecula morphogenesis) supported by cell adhesion. Some endocrine and immune terms appear but are likely background noise. This makes a cohesive theme of cardiac development.","confidence":"High","size":25,"edges":7,"triangles":0,"max_degree":3,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007160","count":21},{"id":"GO:0007157","count":20},{"id":"GO:0045880","count":20},{"id":"GO:0001867","count":20},{"id":"GO:0006590","count":20}]},{"hash":"2168263677445338078","title":"Angiogenesis and ECM remodeling","description":"The cluster shows strong signals for vascular development: blood vessel maturation and coagulation, along with extracellular matrix organization, which together point to angiogenesis and ECM remodeling during development. While transcription regulation terms are present, they appear ancillary to the dominant vascular/ECM theme.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:1903206","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0000122","count":3}]},{"hash":"2221059758071055783","title":"Cardiac Morphogenesis and Hedgehog Signaling","description":"The cluster\u2019s GO terms are dominated by heart development processes (ventricular septum, aortic valve, coronary artery, pericardium morphogenesis) and by positive regulation of Hedgehog signaling (smoothened pathway), with some developmental context (notochord formation). This suggests proteins linked to cardiac structure formation and Hedgehog pathway modulation. Confidence: High","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0034394","count":4},{"id":"GO:0045880","count":4},{"id":"GO:0060982","count":4},{"id":"GO:0003180","count":4}]},{"hash":"2139412519414549906","title":"Secretory Pathway and Proteoglycan Assembly","description":"Top GO terms center on ER-to-Golgi transport and post-translational modifications such as GPI anchoring and proteoglycan metabolism, pointing to a shared theme of protein maturation and trafficking through the secretory pathway and associated glycan modifications. Some development- and membrane-biogenesis-related terms are more divergent, but the core signal is secretory/proteoglycan related.","confidence":"Medium","size":25,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006696","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0016255","count":1},{"id":"GO:0045313","count":1},{"id":"GO:0030208","count":1}]},{"hash":"2176379393685928362","title":"Immune signaling and actin remodeling","description":"Top GO terms indicate immune-related processes (interleukin-4 production, B cell affinity maturation, NK T cell differentiation) alongside cytoskeletal dynamics (filopodium and lamellipodium assembly, small GTPase\u2013mediated signal transduction, Rac/Rho regulation) and cell spreading. This pattern suggests a cluster of proteins coordinating immune-cell signaling with actin remodeling and motility. A few terms (insulin receptor signaling) may reflect cross-talk but are less central.","confidence":"High","size":25,"edges":7,"triangles":0,"max_degree":4,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0032633","count":21},{"id":"GO:0035020","count":21},{"id":"GO:0046847","count":21},{"id":"GO:0030032","count":21},{"id":"GO:0007264","count":21}]},{"hash":"1373162097143979844","title":"Lipid and retinoid metabolism","description":"This cluster is dominated by GO terms for retinol/vitamin A metabolism and lipid-related processes (retinol/vitamin A metabolism, lipid transport, ether lipid metabolism, GPI anchor biosynthesis, diacyl phosphocholine metabolism) and includes adipose development regulation, suggesting a core theme of lipid handling and retinoid processing. A few terms like cellular response to lead ion are less contributory but do not negate the lipid/retinoid emphasis. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":3},{"id":"GO:0071284","count":3},{"id":"GO:1904177","count":2},{"id":"GO:0032370","count":2},{"id":"GO:0070292","count":2}]},{"hash":"2115898611158524480","title":"Developmental Apoptosis and Tissue Remodeling","description":"This cluster is dominated by apoptosis-related GO terms (execution phase of apoptosis, apoptotic DNA fragmentation, neuron and nurse cell apoptotic processes, ectopic germ cell death) along with development/tissue morphogenesis terms (heart development, angiogenesis). Phagocytosis, which mediates clearance of apoptotic cells, also appears, supporting a cohesive theme of programmed cell death during development and associated tissue remodeling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051402","count":2},{"id":"GO:0006911","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0046007","count":2},{"id":"GO:0035234","count":2}]},{"hash":"704841451313709560","title":"Neural development and axon guidance","description":"The cluster\u2019s top terms center on neuronal differentiation (pyramidal neuron differentiation) and axon guidance (anterior/posterior axon guidance), with a broader development annotation. While other terms (innate immune response, endosome transport, symbiont entry, etc.) are present, the strongest, recurring signal points to neural development and guidance as the core theme. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":2},{"id":"GO:0071420","count":2},{"id":"GO:0048227","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0021859","count":2}]},{"hash":"353493852714427300","title":"Calcium signaling regulation and redox homeostasis","description":"This cluster is dominated by GO terms pointing to regulation of calcium-release channels (ryanodine-sensitive channels) and sarcoplasmic reticulum\u2013mediated Ca2+ release, along with redox-related processes (redox homeostasis, oxidant detoxification, protein glutathionylation). Together they suggest a core theme of coordinating calcium signaling with cellular redox balance, with secondary metabolic terms that may reflect broader signaling or metabolic context.","confidence":"High","size":24,"edges":250,"triangles":1581,"max_degree":23,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0001516","count":16},{"id":"GO:0045454","count":12},{"id":"GO:0098869","count":12},{"id":"GO:2000255","count":11},{"id":"GO:0060315","count":10}]},{"hash":"1531987565017122639","title":"Carbohydrate Metabolism and Glycosylation","description":"The cluster is enriched for carbohydrate-related processes: trehalose biosynthesis, glycogen biosynthesis and catabolism, UDP-glucose metabolism, and glycosylation. While there are other terms related to development and neural processes (lens maintenance, myelination, placenta development) and DNA replication or stress responses, the clearest common thread is carbohydrate metabolism and glycosylation, suggesting a metabolism-focused cluster with some annotation noise or multifunctionality.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0005992","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0006486","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0006260","count":3}]},{"hash":"1762061022059098114","title":"Ubiquitin-Proteasome-Mediated Proteolysis and Circadian Regulation","description":"Most terms point to ubiquitin-dependent protein degradation, including SCF-dependent ubiquitin ligase activity, polyubiquitination, and proteasomal catabolic processes. Additional GO terms relate to cell-cycle regulation and DNA replication initiation, suggesting coordination between proteostasis and cell-cycle control. The presence of circadian rhythm regulation and oxidative stress\u2013related apoptotic signaling hints at broader stress-response roles that can be linked to proteostasis maintenance. Together, these imply a cluster centered on ubiquitin-mediated proteolysis with regulatory ties to circadian and cell-cycle processes.","confidence":"High","size":24,"edges":19,"triangles":16,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":7},{"id":"GO:0000209","count":6},{"id":"GO:0000083","count":6},{"id":"GO:0051436","count":5},{"id":"GO:0030174","count":5}]},{"hash":"1966808278943484717","title":"AGP glycosylation and seed mucilage biosynthesis","description":"This cluster is dominated by GO terms related to arabinogalactan proteins (AGP) glycosylation and metabolism (including Hyp-O\u2013glycosylation, poly-N-acetyllactosamine, and Lewis A biosynthesis) as well as seed coat mucilage biosynthesis and root hair development, all of which point to plant cell surface glycoproteins and extracellular polysaccharide biosynthesis. The terms collectively suggest a cohesive theme around AGP-mediated cell wall/glycoprotein processes in plants.","confidence":"High","size":24,"edges":183,"triangles":672,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":7},{"id":"GO:0080147","count":6},{"id":"GO:0030311","count":6},{"id":"GO:0048354","count":6},{"id":"GO:0042248","count":6}]},{"hash":"1737116953784052687","title":"JNK-PI3K inflammatory signaling","description":"This cluster centers on stress- and immune-response signaling: prominent terms include the JNK cascade and PI3K/AKT signaling, along with lipopolysaccharide-mediated signaling. The presence of development-related and proliferation terms likely reflects downstream effects of inflammatory signaling on growth. Overall, the recurring association of JNK and PI3K pathways supports a cohesive inflammatory signaling theme.","confidence":"High","size":24,"edges":150,"triangles":425,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":18},{"id":"GO:0007275","count":17},{"id":"GO:0007257","count":15},{"id":"GO:0043491","count":15},{"id":"GO:0007254","count":15}]},{"hash":"1943701512370728922","title":"Retina and Skin Development with GTPase Signaling","description":"Top GO terms include retina development in camera-type eye, visual perception, and skin development, along with positive regulation of GTPase activity and cell proliferation. This suggests a shared theme of developmental signaling in ocular and surface tissues, mediated by GTPase-driven pathways, making the label Retina and Skin Development with GTPase Signaling appropriate. ","confidence":"Medium","size":24,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0008284","count":4},{"id":"GO:0060041","count":3},{"id":"GO:0043588","count":3}]},{"hash":"2258961674920146785","title":"Mitochondrial Metabolite Transport and Nutrient Signaling","description":"The dominant GO terms describe transport of various metabolites into/out of mitochondria (ADP, alpha-ketoglutarate, pyrimidine nucleotides, pyridoxal phosphate, magnesium) along with cellular responses to nutrient cues (amino acid starvation, insulin stimulus). This points to a cohesive theme of mitochondrial metabolite transport linked to nutrient sensing and stress signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060546","count":17},{"id":"GO:0034198","count":16},{"id":"GO:0097274","count":16},{"id":"GO:0032869","count":15},{"id":"GO:0035435","count":15}]},{"hash":"112747399377323202","title":"Ribosome biogenesis and RNA processing","description":"Most frequent terms point to ribosome assembly and function (translation, SSU RNA processing/export) and RNA maturation/splicing, indicating a cluster of proteins involved in ribosome biogenesis and general RNA processing rather than distinct metabolic pathways.","confidence":"High","size":24,"edges":21,"triangles":2,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000056","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0036265","count":4},{"id":"GO:0000462","count":3},{"id":"GO:0000398","count":3}]},{"hash":"862734204544125815","title":"Innate Immune Signaling and Inflammation","description":"The top GO terms show a clear emphasis on innate immune processes, including innate immune response, MyD88-dependent TLR signaling, and NLRP3 inflammasome assembly, along with IL-6 production. Additional terms point to small GTPase\u2013mediated signaling and mitochondrial fission, which commonly accompany immune activation. Bone development and regulation of angiogenesis may reflect inflammatory crosstalk with bone/vessel remodeling, but the central theme remains innate immune signaling. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0060348","count":5},{"id":"GO:0007264","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0016525","count":5}]},{"hash":"400398265880197152","title":"NF-kappaB signaling and transcription regulation","description":"These terms indicate a group of proteins involved in innate immune signal transduction leading to NF-kappaB\u2013driven transcription, including NOD2 signaling and regulation of NF-kappaB activity, with downstream chemokine production. Although the interaction graph is sparse, the common theme is NF-kappaB\u2013mediated transcriptional responses in innate immunity.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035556","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0070431","count":4},{"id":"GO:0006351","count":3}]},{"hash":"128386544360644885","title":"Unknown","description":"The top GO terms are highly heterogeneous, including temperature sensing (thermoception), kinase activity regulation, chemokine production, epithelial maturation in the prostate, telomere maintenance regulation, general cell growth, ubiquitination, multicellular development, and cerebellar granule cell differentiation. There isn\u2019t a clear, single pathway or shared function tying these terms together, so a cohesive label cannot be confidently assigned.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050955","count":4},{"id":"GO:0071901","count":4},{"id":"GO:2000340","count":4},{"id":"GO:0060743","count":4},{"id":"GO:1904357","count":4}]},{"hash":"1822167053195939423","title":"GPCR-Adenylate Cyclase Signaling","description":"Most of the top GO terms describe GPCR signaling and its downstream modulation of adenylate cyclase (activation/inhibition) and cAMP signaling, including pathways for adenylate cyclase-activating receptors and adrenergic signaling. The presence of terms addressing blood pressure regulation, dopaminergic synaptic transmission, histamine-induced gastric acid secretion, and T cell chemotaxis suggests a distributed set of proteins functioning in diverse GPCR-mediated processes across tissues. A few terms (electron transport chain, heat generation, reproductive processes) are broader or outliers, but can be linked to energy metabolism and systemic signaling contexts in which GPCR signaling operates. Overall, the cluster most coherently maps to GPCR-cAMP signaling roles.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":22},{"id":"GO:0045777","count":22},{"id":"GO:0022900","count":22},{"id":"GO:0007190","count":21},{"id":"GO:0010818","count":18}]},{"hash":"641943431363830360","title":"Membrane Nutrient Transport and Homeostasis","description":"The top GO terms are dominated by membrane transport and nutrient handling (nitrate assimilation, phosphate transmembrane transport, D-glucose transmembrane transport, basic amino acid export from vacuole, intracellular amino acid homeostasis), with additional signals of related metabolic maintenance (protein repair, oxygen transport). Although a few terms are outliers or obsolete, the core theme across the 24 proteins points to transport across membranes and maintenance of cellular nutrient balance, justifying a cohesive \u201cMembrane Nutrient Transport and Homeostasis\u201d label.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0015671","count":2},{"id":"GO:0030091","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0035435","count":2}]},{"hash":"475173437721089402","title":"Muscle development and sarcomere organization","description":"The cluster shows strong signals for limb development, sarcomere organization, and cardiac muscle contraction, suggesting involvement in muscle formation and function. Additional terms related to stress fiber regulation, nitric oxide production, and ECM-associated cross-linking fit with muscle tissue remodeling and extracellular matrix context, reinforcing a muscle-focused theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019800","count":4},{"id":"GO:0060173","count":3},{"id":"GO:0051497","count":3},{"id":"GO:0001558","count":3},{"id":"GO:0060048","count":2}]},{"hash":"639006996169791696","title":"Stress-responsive lipid and xenobiotic metabolism","description":"The cluster shows strong enrichment for lipid metabolism (triglyceride and cholesterol catabolic processes) and xenobiotic/organic compound catabolic activities (dibenzo-p-dioxin and camphor catabolic processes), along with a prominent stress response term (response to immobilization stress). Although other terms (methylation, gonad development, cell-cycle regulation) appear, the dominant theme is metabolic processing of lipids and external compounds under stress, suggesting a metabolic-stress signature.","confidence":"Medium","size":24,"edges":9,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035902","count":16},{"id":"GO:0006641","count":15},{"id":"GO:0032259","count":15},{"id":"GO:0008585","count":15},{"id":"GO:0006707","count":15}]},{"hash":"870978223202848915","title":"Unknown","description":"The top GO terms span lipid metabolism, methylation, xenobiotic catabolism, reproductive development, tissue differentiation, metal response, and cell cycle regulation, which do not point to a single cohesive biological function or pathway. The annotations appear too diverse to define a specific, representative theme for this cluster, so a concise, accurate label cannot be assigned.","confidence":"","size":24,"edges":8,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006641","count":23},{"id":"GO:0032259","count":23},{"id":"GO:0008585","count":23},{"id":"GO:0006707","count":23},{"id":"GO:0019341","count":23}]},{"hash":"2229061924348720167","title":"Ubiquitin-Dependent NF-kB/TNF Immune Signaling","description":"The cluster centers on ubiquitin-dependent proteolysis and innate antiviral responses, with frequent references to NF-\u03baB activation, IKK activity, I-kappaB phosphorylation, and TNF-mediated signaling, plus related ubiquitination processes (autoubiquitination, ERAD). This indicates a cohesive module of ubiquitin-regulated innate immune signaling against viruses.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0045087","count":14},{"id":"GO:0051865","count":12},{"id":"GO:0051607","count":12},{"id":"GO:0007250","count":11}]},{"hash":"1554019692672482683","title":"Embryonic Development and Organ Morphogenesis","description":"The GO terms cluster around development and differentiation across multiple tissues and organs (multicellular organism development, cartilage morphogenesis, endocrine system development, left/right pattern formation, placental-related processes, EMT in heart development, etc.). Although there are no observed edges among the proteins, the shared annotation pattern points to a coherent theme of embryonic development and morphogenesis.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002315","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060707","count":3}]},{"hash":"1967471473133642063","title":"Golgi trafficking regulators","description":"Although there are no direct interactions, the common GO terms center on the Golgi apparatus\u2014regulation of Golgi organization, protein retention in Golgi, and targeting to lysosomes\u2014indicating a role in Golgi trafficking and protein sorting. Other terms hint at broader membrane dynamics and signaling regulation, but the Golgi/lysosome theme is the strongest cohesive thread. Some terms (e.g., sensory perception of sound) appear to be annotation noise.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:1903526","count":3},{"id":"GO:0010801","count":3},{"id":"GO:0006622","count":3},{"id":"GO:0007205","count":3}]},{"hash":"988975148243934238","title":"cAMP/cGMP Signaling Regulators","description":"The top GO terms cluster around cellular responses to cyclic nucleotides (cAMP and cGMP) and negative regulation of related pathways, including cAMP-dependent protein kinase (PKA) activity and receptor guanylyl cyclase signaling. This points to proteins that modulate cyclic nucleotide signaling rather than performing a single linear function. Some other terms (e.g., regulation of cell cycle, T cell proliferation, and cardiac muscle proliferation) may reflect broader regulatory roles or downstream effects, but the dominant theme is modulation of cAMP/cGMP signaling. Despite no direct interactions in the current network (edges/triangles = 0), the functional coherence supports a signaling-regulation cluster.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":3},{"id":"GO:0032435","count":2},{"id":"GO:0051447","count":2},{"id":"GO:0071321","count":2},{"id":"GO:0046007","count":2}]},{"hash":"480653262632179493","title":"Unknown","description":"The terms are highly heterogeneous, spanning development in multiple tissues (neural fold, uterine/gland development), chromatin remodeling and transcription regulation, vitamin D signaling, and even post-translational modification, with no clear shared pathway or function. The cluster also shows no edges or connectivity, making it hard to infer a coherent biological theme. ","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070562","count":3},{"id":"GO:0090502","count":2},{"id":"GO:0090503","count":2},{"id":"GO:0018076","count":2},{"id":"GO:0001842","count":2}]},{"hash":"657901747323185481","title":"Craniofacial development and axon guidance","description":"The top terms cluster around cartilage condensation, otic placode development, facial nerve organization, and several axon guidance processes (commissural neuron, branchiomotor neuron, and general axon guidance with regulatory aspects). Growth factor signaling pathways such as VEGF and HGF receptor signaling further support developmental morphogenesis in craniofacial structures. An outlier term related to complement activation is present but does not define the core theme; overall the cluster appears to reflect craniofacial morphogenesis and cranial nerve pathfinding. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001867","count":8},{"id":"GO:0048010","count":7},{"id":"GO:0001502","count":6},{"id":"GO:0071226","count":6},{"id":"GO:0048012","count":6}]},{"hash":"591023763045462658","title":"Neural and Immune Cell Migration and Differentiation","description":"The cluster includes GO terms tied to neural development (cerebral cortex radial migration; neuronal stem cell maintenance) and immune differentiation/migration (leukocyte migration; regulatory T cell differentiation), suggesting a shared role in neural and immune cell development. Some glycan and copper homeostasis terms appear but are less represented, so the core theme is neural-immune development.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021799","count":3},{"id":"GO:0002522","count":3},{"id":"GO:0002361","count":3},{"id":"GO:0097150","count":3},{"id":"GO:0010493","count":3}]},{"hash":"1317526895804455592","title":"Embryogenesis and Innate Immunity","description":"This cluster's terms center on innate immune response and inflammatory signaling, alongside developmental processes such as somite and spinal cord formation, EMT, and sprouting angiogenesis, pointing to proteins involved in tissue remodeling during development and immune system interactions.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0045087","count":21},{"id":"GO:0001837","count":21},{"id":"GO:0032332","count":21},{"id":"GO:0061053","count":21},{"id":"GO:0010744","count":21}]},{"hash":"179376269603477216","title":"Junction Assembly and Membrane Signaling","description":"The cluster is enriched for GO terms centered on assembly of cell junctions (smooth septate and paranodal) and cell surface receptor signaling, including integrin pathways, along with related trafficking and motility processes. This suggests a cohesive theme around membrane-associated adhesion structures and signaling, with some involvement in receptor-mediated interactions and intracellular transport. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090528","count":11},{"id":"GO:2001046","count":11},{"id":"GO:0030913","count":10},{"id":"GO:1901223","count":10},{"id":"GO:0046813","count":10}]},{"hash":"144713179485882124","title":"GPCR-cAMP Signaling and Metabolic Regulation","description":"The top terms cluster around GPCR pathways that activate adenylate cyclase and elevate cAMP, with calcium-release and GTPase activity regulation, alongside energy/metabolic processes (electron transport, thermogenesis) and transport functions (chloride transport, phototransduction), suggesting a cohesive theme of GPCR-cAMP\u2013mediated signaling linked to metabolic and transport regulation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0002024","count":6},{"id":"GO:0051281","count":6}]},{"hash":"387215709215921525","title":"Diverse transmembrane transport substrates","description":"The GO terms strongly point to membrane transport activities across a variety of substrates (nitrate, arabinose, fucose, sialic acid, 4-hydroxyphenylacetate, xenobiotics, sodium ions) and even neurotransmitter loading into vesicles. This indicates a unified theme around transmembrane transport rather than a single metabolic pathway, despite the diversity of substrates. The lack of interaction edges does not undermine this common function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":4},{"id":"GO:0015751","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0006004","count":4},{"id":"GO:0015739","count":4}]},{"hash":"1154766341061255677","title":"Microbial secondary metabolism and pigment biosynthesis","description":"This cluster is enriched for processes tied to secondary metabolite production (antibiotics, phylloquinone, melanin) and related vitamin/retinoid metabolism, plus sporulation, suggesting proteins involved in microbial biosynthetic pathways and developmental processes rather than a single canonical pathway.","confidence":"Medium","size":23,"edges":184,"triangles":817,"max_degree":22,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":16},{"id":"GO:0055114","count":15},{"id":"GO:0045150","count":15},{"id":"GO:0042376","count":14},{"id":"GO:0042572","count":14}]},{"hash":"124514206378908723","title":"ER stress response and translation regulation","description":"The cluster is dominated by ER stress-related terms (unfolded protein response and translation initiation regulation in response to ER stress), with supporting signals from general transcription, hormone responses (cAMP, glucocorticoid), and cell-cycle\u2013related processes, suggesting a coordinated stress-adaptation and gene-expression regulation program.","confidence":"High","size":23,"edges":77,"triangles":160,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0051591","count":5},{"id":"GO:0043278","count":5},{"id":"GO:0036494","count":5}]},{"hash":"1479291711219545684","title":"Proteoglycan Biosynthesis and ECM Development","description":"The top GO terms are dominated by dermatan/heparan sulfate proteoglycan biosynthetic/metabolic processes, pointing to glycosaminoglycan (GAG) assembly and extracellular matrix components. Additional terms such as chondrocyte development and ureteric bud formation suggest roles in cartilage and kidney development, consistent with proteoglycan involvement in signaling and tissue morphogenesis; obsolescent terms do not change the central theme. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030208","count":4},{"id":"GO:0050655","count":4},{"id":"GO:0002063","count":4},{"id":"GO:0015015","count":4},{"id":"GO:0060676","count":4}]},{"hash":"1982045052014381161","title":"Secondary metabolite biosynthesis","description":"The top GO terms point to production of specialized metabolites\u2014antibiotics, alkaloids, cinnamic acid, and toxins\u2014with associated amino acid catabolic processes, suggesting the cluster centers on biosynthesis of secondary metabolites rather than core cellular functions; note that some terms (e.g., protein homotetramerization, zinc stress) are broader, but the predominant signal is metabolite biosynthesis.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0019557","count":4},{"id":"GO:0009821","count":4},{"id":"GO:0051289","count":4},{"id":"GO:0009800","count":4}]},{"hash":"244065493075407309","title":"Lipid and xenobiotic catabolic pathways","description":"The top terms cluster around triglyceride and cholesterol metabolism and specific xenobiotic catabolic processes (dibenzo-p-dioxin, camphor), suggesting a cohesive theme of lipid and detoxification metabolism, with some broader transcription/mitosis terms likely reflecting general cellular processes rather than a shared specialized function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032094","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0006641","count":6},{"id":"GO:0032259","count":6}]},{"hash":"415102046901356548","title":"Cytoskeletal signaling in immune response and neural development","description":"This cluster's top GO terms span immune processes (innate/adaptive response, apoptosis, JNK regulation) and neural development/organization (postsynaptic density assembly, neuron differentiation). Several terms center on cytoskeleton dynamics (endocytosis regulation, ruffle assembly, actin cortical patch localization), suggesting proteins that coordinate signaling with actin remodeling in both immune and neural contexts. The name emphasizes cytoskeleton-driven signaling linking immunity and neural development.","confidence":"Medium","size":23,"edges":128,"triangles":195,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0097107","count":3},{"id":"GO:0002250","count":3}]},{"hash":"660026617608552984","title":"Broad-substrate membrane transporters","description":"This cluster shows GO terms centered on transmembrane transport of a wide range of substrates (nitrate, arabinose, fucose, sialic acid, xenobiotics, sodium ions) and even neurotransmitter loading into vesicles, suggesting a group of transporter proteins with broad substrate specificity rather than a single substrate. Confidence: Medium","confidence":"","size":23,"edges":23,"triangles":1,"max_degree":22,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042128","count":5},{"id":"GO:0015751","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0006004","count":4},{"id":"GO:0015739","count":4}]},{"hash":"2285504332894706909","title":"Calcium-Dependent Synaptic Signaling","description":"The cluster is dominated by GO terms for calcium ion transport and cellular responses to calcium, plus regulation of calcineurin-NFAT signaling and synaptic vesicle endocytosis, which together point to calcium-driven signaling in neurons and vesicle trafficking. Terms like short-term memory and caffeine response further support a neuronal calcium signaling theme. A few terms (N-glycan processing, platelet degranulation, kidney development) appear as background noise but do not override the calcium/neuronal pattern.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070588","count":5},{"id":"GO:0071277","count":5},{"id":"GO:0072286","count":5},{"id":"GO:0051091","count":5},{"id":"GO:0071313","count":5}]},{"hash":"1385588120951517589","title":"Developmental signaling and vesicle trafficking","description":"Based on the top GO terms, this cluster shows enrichment for diverse developmental processes (brain, skeletal system, hair follicle formation) alongside signaling and regulatory activities (GTPase regulation, glucose signaling) and cellular logistics (ER-to-Golgi transport, protein heterotrimerization). The common thread appears to be proteins involved in coordinating development through signaling pathways and vesicle trafficking, with supporting cell-cycle activity. Therefore, a label emphasizing developmental signaling and vesicle transport fits best.","confidence":"Medium","size":23,"edges":108,"triangles":327,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0001302","count":12},{"id":"GO:0043547","count":12},{"id":"GO:0051301","count":12},{"id":"GO:0006888","count":11},{"id":"GO:0007420","count":10}]},{"hash":"783086355961220925","title":"Developmental signaling and differentiation","description":"The top GO terms point to broad developmental roles: organ and tissue formation (heart, endodermal, vaginal development), neural development (neurogenesis, paranode axon localization), and general processes like cell proliferation, apoptosis, and adhesion, plus signaling pathways (Roundabout, T cell receptor). This suggests a cluster of proteins involved in diverse but development- and signaling-focused functions across tissues, rather than a single narrowly defined activity.","confidence":"Medium","size":23,"edges":85,"triangles":59,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":6},{"id":"GO:0007161","count":5},{"id":"GO:0035987","count":5},{"id":"GO:0006915","count":4},{"id":"GO:0060068","count":4}]},{"hash":"1721514699616588341","title":"Mitotic control and stress-responsive signaling","description":"This cluster centers on mitotic cell cycle processes (regulation of cytokinesis, mitotic cell cycle) and extends to signaling regulation (NF-kappaB, serine/threonine kinase activity) and post-translational modification (ubiquitination), with links to stress and developmental responses (hypoxia, xenobiotic response, cAMP, development). The common theme is cell-cycle control intertwined with signaling and stress-response pathways.","confidence":"Medium","size":23,"edges":223,"triangles":1216,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032465","count":3},{"id":"GO:0000278","count":3},{"id":"GO:1902527","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0071456","count":3}]},{"hash":"1194271754981395849","title":"Temperature sensing and GPCR signaling","description":"The top GO terms cluster around thermoception (temperature detection) and GPCR signaling, including negative regulation of protein serine/threonine kinase activity, which together point to temperature-responsive signal transduction via GPCR pathways. Additional terms on chemokine production, cell growth, and ubiquitination suggest broader regulatory roles linked to signaling. Some terms seem less directly connected (prostate development, telomere maintenance), but the core theme appears to be temperature sensing coupled with GPCR-mediated signaling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071901","count":8},{"id":"GO:0007205","count":8},{"id":"GO:0098907","count":8},{"id":"GO:0050955","count":7},{"id":"GO:2000340","count":7}]},{"hash":"1378916778454334037","title":"Regulatory signaling and protein modification","description":"The terms cluster around regulation and signaling processes (ubiquitination; GPCR signaling; vitamin D response; regulation of kinase activity; chemokine production; cell growth) with additional emphasis on post-translational modification (ubiquitination) and regulatory control across diverse contexts. This suggests a broad theme of modulation of signaling and protein function rather than a single, cohesive pathway. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0098907","count":6},{"id":"GO:0050955","count":5}]},{"hash":"1766228908914543339","title":"Embryonic development and tissue morphogenesis","description":"This cluster is driven by terms centered on development and tissue structuring (in utero embryonic development, tissue morphogenesis, cell-matrix adhesion, maintenance of lens transparency), suggesting a core theme around developmental processes and tissue organization. However, several outlier terms (leukocyte tethering/rolling, xenobiotic response, thyroid hormone metabolism, and signaling pathway regulation) indicate broader or multi-function roles, so the label captures a primary theme but with limited overall cohesion. ","confidence":"Low","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":4},{"id":"GO:0042403","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0045880","count":3},{"id":"GO:0090528","count":3}]},{"hash":"1356272735695258772","title":"Neuronal development and synaptic signaling","description":"The cluster is enriched for neural growth and connectivity terms, including axonogenesis, neurogenesis, trans-synaptic signaling, and paranode localization, indicating roles in neuron differentiation, axon targeting, and synapse formation; PI3K/AKT signaling supports neuronal survival and maturation.","confidence":"High","size":23,"edges":251,"triangles":1729,"max_degree":22,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050772","count":8},{"id":"GO:0043491","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0022008","count":8},{"id":"GO:0001779","count":8}]},{"hash":"452814093264732802","title":"Regulation of Translation Initiation and Gene Expression","description":"The cluster is dominated by GO terms about translation initiation and preinitiation complex formation (including reinitiation and IRES-dependent initiation) plus regulatory aspects of transcription, indicating a cohesive module that controls protein synthesis and gene expression. The presence of both translational and transcriptional regulation terms, along with growth- and stress-related signals, suggests a broader regulatory program governing expression under nutrient stress or viral contexts. This makes a label focused on translation initiation control, coupled with transcriptional regulation, most representative.","confidence":"Medium","size":23,"edges":67,"triangles":126,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0008283","count":4},{"id":"GO:0001403","count":4},{"id":"GO:0006351","count":4}]},{"hash":"477679395931747811","title":"Cytoskeletal remodeling and synapse assembly","description":"The cluster is enriched for GO terms tied to Rho GTPase signaling and actin organization (positive regulation of GTPase activity, regulation of Rho signaling, actin filament bundle assembly) along with synaptic processes (synaptic vesicle uncoating, synapse assembly), pointing to a shared theme of cytoskeletal dynamics driving cell movement and synaptic organization.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0016191","count":3},{"id":"GO:0051017","count":2},{"id":"GO:0090162","count":2}]},{"hash":"57876260941438458","title":"Glutamatergic Synapse Assembly and NMDA Regulation","description":"This cluster is characterized by GO terms tied to assembling both presynaptic and postsynaptic membranes, postsynaptic density components, gephyrin-related density organization, and regulation of NMDA receptor activity, plus positive regulation of glutamatergic transmission. These features point to a cohesive role in glutamatergic synapse formation and NMDA signaling, with a few peripheral terms ( xenobiotic response, cholesterol biosynthesis, proteolysis) that are less central to the core theme.","confidence":"High","size":23,"edges":9,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":4},{"id":"GO:0007612","count":3},{"id":"GO:0006695","count":3},{"id":"GO:0097104","count":3},{"id":"GO:0006508","count":3}]},{"hash":"611626623171822877","title":"Telomere maintenance regulation","description":"The top GO terms cluster around regulation of telomere maintenance, telomere localization to chromosome telomeric regions, and telomere capping, indicating a shared focus on telomere biology and genome stability. While some signaling-related terms appear, the dominant theme is telomere-related processes, suggesting these proteins collectively participate in telomere maintenance and telomere-based regulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904357","count":6},{"id":"GO:0070198","count":6},{"id":"GO:0070213","count":6},{"id":"GO:0070427","count":6},{"id":"GO:1904355","count":6}]},{"hash":"262974553902296545","title":"Glycosylation and ER protein folding","description":"Top GO terms point to glycosylation (N-glycan fucosylation, Lewis a epitope biosynthesis, L-fucose catabolic process) and protein maturation in the secretory pathway (protein folding in the ER, vacuolar protein processing). Although neural and immune migration terms appear, they are less representative than the glycan/ER signals, so the cluster is best described as glycosylation and ER-assisted protein processing.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021799","count":2},{"id":"GO:0002522","count":2},{"id":"GO:0002361","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0010493","count":2}]},{"hash":"610033184148531738","title":"Renin-angiotensin signaling and reproduction","description":"The cluster shows enrichment for renin-angiotensin system terms (brain RAS, regulation of renal output by angiotensin, renin secretion) alongside reproductive-related terms (spermatogenesis, single fertilization), with additional hints from motile cilium assembly and proteolysis. This suggests a functional module centered on angiotensin-mediated signaling affecting renal and reproductive physiology, albeit with some broader inflammatory and cellular processes present. Confidence: Medium","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002035","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0007283","count":2},{"id":"GO:0002019","count":2},{"id":"GO:0044458","count":2}]},{"hash":"1294348290712309870","title":"Unknown","description":"The top GO terms span a wide array of processes\u2014from antibiotic and biotin biosynthesis to heart development, visual perception, axonogenesis, and innate immune response\u2014along with cell cycle regulation and responses to toxins and drugs. This mix suggests no single cohesive biological function or pathway characterizes the entire cluster, making a unified label inappropriate.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0009636","count":4},{"id":"GO:0051534","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0007601","count":4}]},{"hash":"1888028725449380115","title":"Unknown","description":"These terms are highly diverse and include development in fish (anterior lateral line, left/right symmetry), chromatin-related processes (nucleosome disassembly), protein turnover regulation, receptor trafficking, and basic metabolism. Several terms are obsolete, signaling possible annotation noise. With no consistent common function across the 23 proteins, there is no robust unifying theme to assign a specific label.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048899","count":2},{"id":"GO:0007368","count":2},{"id":"GO:0001919","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0021882","count":1}]},{"hash":"1120990927168094522","title":"Ribosome biogenesis and protein synthesis","description":"The cluster is dominated by GO terms related to ribosome assembly and function\u2014ribosome biogenesis, small and large subunit biogenesis, ribosomal export from the nucleus, and cytoplasmic translation\u2014along with tRNA modification. There are also cell cycle/division terms that often accompany ribosome production. Together, these terms point to a cohesive group of proteins involved in assembling and operating the protein synthesis machinery, with potential coupling to cell cycle progression. This justifies a label centered on ribosome biogenesis and translation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0000055","count":3},{"id":"GO:0006400","count":3},{"id":"GO:0000747","count":3}]},{"hash":"802645143396120897","title":"Circadian neuronal signaling and excitability","description":"This cluster is dominated by neural signaling terms: calcium and sodium ion transport, membrane depolarization and hyperpolarization, and excitatory postsynaptic potential, all of which point to modulation of neuronal excitability. The presence of startle response and locomotory behavior terms further supports involvement in circadian-regulated neural circuits that drive behavior. The inclusion of regulation of circadian sleep/wake cycle strengthens a circadian-neuronal axis interpretation. A skin development term appears but likely reflects multifunctional proteins rather than a core feature of this cluster.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045188","count":10},{"id":"GO:0098703","count":10},{"id":"GO:0001964","count":10},{"id":"GO:0035725","count":9},{"id":"GO:0048265","count":7}]},{"hash":"1129064958956684056","title":"Innate Immunity and Inflammatory Signaling","description":"The top GO terms cluster around innate immune response and defense against pathogens (Gram-positive bacteria, yeast), with signals for reactive oxygen and nitric oxide production and regulation of inflammatory processes. There is an outlier term about myelination, but the dominant pattern is host defense and inflammatory signaling, justifying a label centered on innate immunity and inflammation. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0001878","count":4},{"id":"GO:0019933","count":4},{"id":"GO:0022011","count":4}]},{"hash":"1639879547924686067","title":"Axon guidance and neural crest migration","description":"The cluster\u2019s top GO terms converge on neural development, especially axon guidance (semaphorin-plexin signaling, axon projection guidance, axonal fasciculation), neural crest\u2013derived cell migration, and myelination, with heterophilic cell adhesion supporting neural connectivity.","confidence":"High","size":23,"edges":3,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0007413","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0097491","count":7},{"id":"GO:0036486","count":7}]},{"hash":"1449455137154009234","title":"Neural development and synaptic localization","description":"This cluster is driven by GO terms for hippocampus development and cortex layer formation, plus protein localization to the synapse, which together point to roles in neural development and synaptic organization. Additional terms related to rhythmic processes and mRNA processing suggest regulation in neural tissue, with cholesterol biosynthesis and proteasomal degradation providing metabolic/regulatory support. Overall, the proteins seem to converge on neural development with synaptic targeting emphasis.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048511","count":3},{"id":"GO:0032436","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0035418","count":3},{"id":"GO:0021819","count":3}]},{"hash":"1517194392674258177","title":"Collagen Fibril Organization and ECM Remodeling Inhibition","description":"This cluster is dominated by collagen fibril organization, pointing to extracellular matrix (ECM) structure and remodeling. The frequent terms for negative regulation of endopeptidase activity, angiogenesis, and protein kinase activity, plus mechanical stimulus response and bone resorption, support a theme of ECM remodeling and its signaling control. Some neural development terms (axonogenesis, synapse assembly) may reflect ECM roles in nervous system development, but the core signal centers on ECM organization and its suppression of remodeling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":5},{"id":"GO:0010951","count":4},{"id":"GO:0016525","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0010596","count":3}]},{"hash":"1718235346120713313","title":"Steroid and retinoid lipid metabolism","description":"Based on the top GO terms, the cluster centers on metabolism of lipid-soluble compounds: retinoids (retinol, retinal, retinoic acid), steroids (testosterone, androgens), and fatty acids (elongation, very long-chain). This pattern indicates a cohesive functional group involved in processing lipids and lipid-derived signaling molecules and vitamins, with related terms like phylloquinone catabolism reinforcing a lipid/ vitamin metabolism theme.","confidence":"High","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":18},{"id":"GO:0042572","count":17},{"id":"GO:0061370","count":17},{"id":"GO:0042574","count":17},{"id":"GO:0008209","count":17}]},{"hash":"499324863118602020","title":"Craniofacial neural crest and retinoid metabolism","description":"The top GO terms show strong enrichment for retinol/retinal metabolic processes alongside neural crest\u2013driven craniofacial development (nose, harderian gland, hindbrain) and related growth programs, suggesting a coordinated vitamin A\u2013dependent craniofacial/sensory development cluster rather than a single tissue. This combination supports a unifying theme of craniofacial neural crest patterning tied to retinoid signaling.","confidence":"High","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":22},{"id":"GO:0042574","count":22},{"id":"GO:0048738","count":15},{"id":"GO:0070384","count":15},{"id":"GO:0030902","count":15}]},{"hash":"718812059407597659","title":"Bacterial lipid and quinone biosynthesis","description":"The proteins show strong representation of fatty acid metabolic processes (long-, very long-, and medium-chain) and menaquinone biosynthesis, pointing to microbial lipid and quinone metabolism as the core theme. While a few terms like bioluminescence or seed coat development may be incidental, the dominant pattern supports a label centered on bacterial lipid and quinone biosynthesis.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1902987","count":8},{"id":"GO:0009234","count":7},{"id":"GO:0044539","count":7},{"id":"GO:0043041","count":7},{"id":"GO:0000038","count":7}]},{"hash":"557556775773238058","title":"Organogenesis and tissue differentiation","description":"This cluster shows enrichment for morphogenesis and differentiation across multiple tissues (embryonic eye, ventricular heart tissue, prostate gland, ovarian follicle) along with DNA-templated transcription, suggesting a coordinated developmental program. The presence of several developmental GO terms plus some metabolism terms likely indicates proteins involved in growth/differentiation with supporting metabolic context, rather than a single tissue-specific function.","confidence":"Medium","size":22,"edges":137,"triangles":341,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0055114","count":5},{"id":"GO:0048048","count":5},{"id":"GO:0055010","count":5},{"id":"GO:0019510","count":4}]},{"hash":"1993404989261810917","title":"Embryonic organ development and morphogenesis","description":"The cluster\u2019s top GO terms center on organ and organismal development across multiple tissues (heart, placenta, gonad, hindlimb, prostate) and processes like multicellular development and morphogenesis, with supporting proliferation signals (cell cycle, myoblast proliferation). This suggests a cohesive theme of developmental and morphogenetic programs rather than a single tissue-specific function.","confidence":"High","size":22,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0001890","count":5},{"id":"GO:0007275","count":5}]},{"hash":"2013436289850015378","title":"Pollen exine formation and anther dehiscence","description":"This cluster is strongly tied to plant reproductive development, highlighted by GO terms for pollen exine formation and anther dehiscence, indicating roles in pollen wall assembly and release. Additional terms for cell division and protein processing fit with cellular remodeling during pollen development, while nucleotide catabolic processes reflect broad cellular metabolism. Overall, the theme centers on pollen formation and release in plants.","confidence":"Medium","size":22,"edges":153,"triangles":770,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0000011","count":6},{"id":"GO:0000281","count":5},{"id":"GO:0010584","count":4},{"id":"GO:0046032","count":4},{"id":"GO:0046712","count":4}]},{"hash":"1126822133090155885","title":"Glycinergic synaptic transmission and amino acid transport","description":"This cluster is dominated by glycine-related neural signaling and amino acid transport (glycine import, glycinergic transmission, taurine transport) with related glial and neurodevelopmental terms, pointing to a module of inhibitory neurotransmission and amino acid handling in the nervous system.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060092","count":6},{"id":"GO:0021984","count":6},{"id":"GO:0042420","count":6},{"id":"GO:0042066","count":6},{"id":"GO:0015734","count":6}]},{"hash":"918043083979642696","title":"Developmental transcription and cell cycle regulation","description":"The cluster shows enrichment for DNA-templated transcription along with cell cycle-related terms (G1/S transition, re-entry into mitotic cell cycle) and development-associated processes (cerebral cortex development, mammary gland epithelial cell proliferation), plus apoptosis and insulin signaling regulation. This combination points to a core theme of transcriptional control guiding cellular proliferation during development, with mitotic progression and growth signaling, making a developmental transcription\u2013cell cycle regulatory label appropriate.","confidence":"Medium","size":22,"edges":7,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0021987","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0048240","count":8},{"id":"GO:0045793","count":8}]},{"hash":"354493664231032163","title":"Transcription and Cell Cycle Regulation","description":"The GO terms cluster around DNA-templated transcription and multiple proliferation- and division-related processes (cell division; negative regulation of meiotic cell cycle; cardiac muscle cell proliferation), with supporting signaling components (cellular response to cGMP; negative regulation of receptor guanylyl cyclase signaling) and a bud neck localization term, which together suggest roles in coordinating gene expression with cell growth and division. Confidence is medium due to the mix of transcription, proliferation, and signaling terms, without a single dominant theme.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0046827","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0051447","count":3},{"id":"GO:0071321","count":3}]},{"hash":"2282247469705246459","title":"Ribosome Biogenesis and Cell Division","description":"The cluster is dominated by GO terms for ribosome biogenesis, ribosomal subunit biogenesis, and translation, indicating a core role in protein synthesis. It also includes several cell division-related terms (cell division, mitotic cell cycle, cell septum assembly), suggesting a link between ribosome production and cell cycle progression. A few terms relate to regulatory or stress responses, but the strongest signal is ribosome assembly paired with division processes.","confidence":"High","size":22,"edges":7,"triangles":4,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0042254","count":6},{"id":"GO:0000747","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0000278","count":4}]},{"hash":"764914370713802462","title":"Proteoglycan Biosynthesis and ECM Signaling","description":"The cluster is dominated by GO terms for proteoglycan biosynthesis (heparan sulfate, chondroitin sulfate, keratan sulfate) and extracellular matrix components, suggesting a shared function in producing ECM proteoglycans. Additional terms point to roles in development, investigation of signaling pathways (e.g., PDGF receptor signaling, PI3K/AKT), and synapse assembly, which are consistent with ECM proteoglycans modulating cell adhesion, migration, and neural development. Despite some obsolescence notes, the core theme ties to ECM proteoglycan production and related signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":5},{"id":"GO:0030206","count":5},{"id":"GO:0019233","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0018146","count":3}]},{"hash":"556175405516126607","title":"Unknown","description":"The top GO terms cover very diverse biological themes (lipid and xenobiotic metabolism, methylation) alongside multiple developmental processes (uterus, female gonad, retina vasculature, tongue muscle differentiation) and cell-cycle regulation. There isn't a single cohesive function linking these terms, so a concise, representative label cannot be determined.","confidence":"","size":22,"edges":8,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006641","count":8},{"id":"GO:0060065","count":8},{"id":"GO:0061298","count":8},{"id":"GO:0032259","count":7},{"id":"GO:0008585","count":7}]},{"hash":"1851707489995132741","title":"Integrin signaling and cytoskeletal remodeling","description":"The cluster\u2019s top GO terms cluster around integrin-mediated signaling, regulation of cell adhesion via integrins, and cytoskeletal processes such as stress fiber and microvillus assembly, along with Rho signaling and TGF-beta\u2013related responses. Together these indicate a module coordinating adhesion signaling with actin cytoskeleton dynamics, rather than a single linear pathway, justifying a label focused on integrin signaling and cytoskeletal remodeling.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0008285","count":7},{"id":"GO:0035023","count":7},{"id":"GO:0007229","count":6},{"id":"GO:0071560","count":6},{"id":"GO:0030033","count":6}]},{"hash":"1020999263761427275","title":"Neuro-immune signaling","description":"This cluster links neural development and synaptic functions (hippocampus development, synaptic vesicle exocytosis, neuron apoptotic regulation) with immune signaling and stress responses (Th1 response, IL-23 regulation, JNK cascade, NF-kappaB). The combination suggests a theme of coordinated neuro-immune signaling and related intracellular pathways, despite some odd or deprecated terms that may arise from mixed annotations.","confidence":"Medium","size":22,"edges":168,"triangles":645,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010796","count":6},{"id":"GO:0031384","count":6},{"id":"GO:0046330","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0042088","count":5}]},{"hash":"2198525190404164251","title":"Mechanotransduction and Synaptic Plasticity","description":"This cluster is dominated by GO terms tied to mechanical stimulus responses (cellular response to mechanical stimulus, response to muscle stretch) and synaptic plasticity (long-term potentiation, regulation of synaptic plasticity by receptor localization to synapse), suggesting proteins that function in mechanosensitive signaling that modulates synaptic strength. While there are additional terms related to telomere maintenance and angiogenesis, these are less central to the main pattern of mechanotransduction linked to synaptic modulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2001275","count":5},{"id":"GO:0071260","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0001525","count":4},{"id":"GO:1904355","count":3}]},{"hash":"71421275835896780","title":"Ribosome biogenesis and translation with division roles","description":"Top GO terms are dominated by ribosome biogenesis (ribosomal large subunit biogenesis, ribosome biogenesis) and translation-related processes (DNA-templated transcription, translation reinitiation, formation of translation preinitiation complex). This points to a core module of ribosome assembly and initiation of protein synthesis. Additional terms like microtubule severing, CENP-A chromatin assembly, and cell division suggest links to chromosome organization and mitotic progression, implying these proteins participate both in ribosome-related functions and cell-cycle events. Taken together, the cluster seems to capture a ribosome/translation-focused program with ancillary roles in chromatin assembly and cell division.","confidence":"High","size":22,"edges":32,"triangles":18,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042273","count":6},{"id":"GO:0042254","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5}]},{"hash":"375913019878435898","title":"Unknown","description":"The top terms span telomere capping/maintenance, mRNA processing, adipocyte differentiation, heart rhythm regulation, muscle stretch response, and cell migration, with no clear central process, suggesting this cluster does not map to a single coherent function.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1904355","count":8},{"id":"GO:0007205","count":8},{"id":"GO:0035994","count":8},{"id":"GO:0032212","count":8},{"id":"GO:0045736","count":8}]},{"hash":"753601451918048379","title":"Vesicle trafficking and inflammatory signaling","description":"This cluster shows strong enrichment for regulation of synaptic vesicle exocytosis and endocytosis, plus intracellular protein transport, pointing to vesicle trafficking as the core function. The concurrent inclusion of MyD88-dependent Toll-like receptor signaling and inflammatory response terms suggests these vesicle processes may intersect with innate immune signaling, potentially via endosomal pathways. While a few outliers exist (e.g., mating projection growth, angiogenesis), the dominant theme is vesicle dynamics with an inflammatory signaling context.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:2000300","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0016525","count":3},{"id":"GO:0010796","count":3},{"id":"GO:0006886","count":3}]},{"hash":"915239502284919360","title":"Neuronal signaling and energy metabolism","description":"Top terms cluster around synaptic vesicle dynamics and GPCR/small GTPase signaling, alongside metabolic processes like glucose transport, fatty acid oxidation, and insulin signaling. The combination points to a neural signaling\u2013energy regulation axis affecting locomotion. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015758","count":3},{"id":"GO:0032000","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0016185","count":3},{"id":"GO:2000300","count":3}]},{"hash":"1618174674863087440","title":"TLR-MyD88-driven inflammatory signaling","description":"Represents an innate immune activation cluster dominated by MyD88-dependent Toll-like receptor signaling, inflammatory response, and defense against bacteria. Key terms include MyD88-dependent TLR signaling, inflammatory response, defense response to Gram-positive bacteria, and cellular response to lipopolysaccharide, with downstream signaling such as small GTPase-mediated signal transduction and TH1-type immune response, plus signals linked to tissue damage and stress responses. Overall, the set is best described as a cohesive innate immune/inflammatory signaling program.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":7},{"id":"GO:0002755","count":6},{"id":"GO:0006954","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0050729","count":5}]},{"hash":"2125709058329399613","title":"TLR signaling and innate immunity","description":"This cluster is dominated by Toll-like receptor signaling terms (TLR2/3/9) and innate immune responses (defense against virus, cellular response to LPS), indicating a coherent innate immune signaling function. Some non-immune terms (collagen fibril organization, angiogenesis regulation, dendritic spine morphogenesis) appear but are less represented, suggesting the core signal is immune-related.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0034162","count":5},{"id":"GO:0035641","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0016525","count":5},{"id":"GO:0034138","count":5}]},{"hash":"77241651370073160","title":"GTPase-driven signaling and stress-response pathways","description":"The cluster centers on GO terms tied to signal transduction, notably small GTPase\u2013mediated pathways (Rho), ERK cascade regulation, and cellular responses to stimuli (xenobiotic, nutrient). Additional terms touch on apoptosis and differentiation, suggesting a broader theme of signaling networks governing cell fate and stress responses rather than a single specific pathway. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0035023","count":3}]},{"hash":"111705395081202643","title":"NF-kB/JNK Immune Signaling and Endocytosis","description":"The top GO terms point to immune signaling and transcription factor regulation (positive/canonical NF-kappaB, NF-kappaB signaling, JNK cascade, T cell receptor signaling, interferon production) alongside trafficking processes (endocytosis, endosome transport) and cytoskeletal-related regulation (GTPase activity). This suggests a cohesive theme of immune signal transduction coupled with endocytic trafficking, rather than a single isolated process.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0034260","count":4},{"id":"GO:0046330","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0045022","count":4}]},{"hash":"2277493239190309253","title":"Inflammation-driven vascular remodeling","description":"This cluster centers on inflammatory signaling and vascular remodeling, with prominent terms for innate and acute inflammatory responses, endothelial cell migration/proliferation, epithelial-to-mesenchymal transition, collagen fibril organization, and protease/zymogen activation. The inclusion of foam cell differentiation further links to atherosclerosis-related processes, indicating a cohesive set of functions around inflammation-induced endothelial/ECM changes.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010744","count":22},{"id":"GO:0002438","count":22},{"id":"GO:0030199","count":22},{"id":"GO:2000483","count":22},{"id":"GO:0043542","count":22}]},{"hash":"529166282362536677","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0006446","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0009561","count":2},{"id":"GO:0000472","count":2}]},{"hash":"2234451099290153334","title":"Immune signaling to microbial cell walls","description":"The GO terms emphasize immune-related functions and responses to microbial components, including positive regulation of the JNK cascade, cellular response to chitin, chitin and peptidoglycan catabolic/biosynthetic processes, and T-helper 1 type immune response. These together suggest a module of proteins involved in sensing and signaling in response to fungal and bacterial cell wall components, rather than a single metabolic pathway. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046330","count":2},{"id":"GO:0042088","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0032707","count":2},{"id":"GO:1902083","count":2}]},{"hash":"1663300568250073801","title":"Adenylate Cyclase-Activating GPCR Signaling","description":"This cluster is dominated by GO terms for GPCR signaling that activates adenylate cyclase and downstream cAMP pathways (GO:0007190, GO:0010579, GO:0071881), with supporting terms in dopaminergic transmission, adrenergic signaling, and related physiological processes. While some terms touch on energy metabolism and heat/gastric functions, the recurring theme is GPCR-mediated adenylate cyclase activation and cAMP signaling, suggesting this as the core function of the cluster.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":22},{"id":"GO:0010579","count":22},{"id":"GO:0045777","count":22},{"id":"GO:0022900","count":22},{"id":"GO:0010818","count":21}]},{"hash":"715625809490274096","title":"Calcium-Dependent Neural and Muscular Signaling","description":"The cluster prominently features calcium signaling-related terms (calcium ion transport, cellular response to calcium) alongside neural and muscular functions (memory, neurotransmitter secretion, retinal development, cardiac muscle contraction). This suggests a shared theme of calcium-mediated signaling that operates across neural, muscular, and sensory tissues, with stress and apoptotic regulation connected through calcium pathways. While kidney development is included, the common thread appears to be calcium-driven signaling in diverse tissues.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072221","count":7},{"id":"GO:0042554","count":5},{"id":"GO:0007613","count":5},{"id":"GO:0007269","count":5},{"id":"GO:0071456","count":5}]},{"hash":"529215087112527446","title":"Collagen Biosynthesis and ECM Organization","description":"The dominant terms center on collagen production and organization (collagen biosynthetic process, collagen fibril organization) and cuticle formation, plus Golgi-to-plasma membrane transport and cell adhesion, all pointing to extracellular matrix assembly and adhesion processes. Other terms touch on signaling regulation, which may reflect broader cellular coordination but do not outweigh the ECM/collagen theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":2},{"id":"GO:0018996","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0032964","count":2},{"id":"GO:0006958","count":2}]},{"hash":"1531813924728061275","title":"Innate immune response and coagulation","description":"The top GO terms cluster around inflammatory host defense: response to lipopolysaccharide, complement activation, neutrophil-mediated killing, and blood coagulation. This points to innate immunity and coagulation cascades as the main theme. Additional terms\u2014such as midbrain development, Wnt signaling, and transcription regulation\u2014are broader or secondary to the core theme, possibly reflecting multifunctional proteins or annotation noise. Overall, the common thread is inflammation-driven defense and clotting processes rather than a single specialized function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0032496","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0007596","count":6}]},{"hash":"1280554437761275279","title":"Neuronal development and synaptic remodeling","description":"The terms center on neuronal processes: dendritic spine morphogenesis, ephrin receptor signaling, cellular response to retinoic acid, and cell migration/adhesion, which together point to neural development and synaptic connectivity. Occasional transport/metabolism terms are present but less informative for the core theme. This supports labeling the cluster as neuronal development and synaptic remodeling with medium confidence.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0071300","count":3},{"id":"GO:0050798","count":3},{"id":"GO:0048013","count":3}]},{"hash":"774709588999215409","title":"Temperature Sensing and Signaling","description":"The cluster\u2019s top GO terms include thermoception and detection of temperature stimulus involved in thermoception, pointing to a shared theme of temperature sensing. Other terms indicate broader signaling and regulatory processes (kinase activity regulation, ubiquitination, cell growth), suggesting temperature-responsive regulation within a wider cellular signaling context. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050955","count":3},{"id":"GO:0071901","count":3},{"id":"GO:2000340","count":3},{"id":"GO:0060743","count":3},{"id":"GO:1904357","count":3}]},{"hash":"1601277628894762202","title":"Kidney Development and Calcium Signaling","description":"This cluster centers on metanephric kidney development (collecting duct and connecting tubule) and calcium/NFAT signaling (calcium transport, cellular response to calcium, calcineurin-NFAT cascade), with supporting PI signaling, suggesting calcium-driven kidney morphogenesis; some terms like astrocyte activation and memory may be broader annotations.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072205","count":12},{"id":"GO:0042994","count":12},{"id":"GO:0070588","count":11},{"id":"GO:0071277","count":11},{"id":"GO:0072286","count":11}]},{"hash":"1434265937447371518","title":"Neurodevelopment and antiviral defense","description":"The cluster shows strong neural development signals (multicellular and forebrain development, visual learning, positive regulation of synapse assembly) alongside antiviral/immune terms (defense response to virus, cellular response to dsRNA, negative regulation of viral genome replication, IL-6 production), suggesting proteins involved in brain development that also participate in neuroimmune signaling rather than a single cohesive pathway. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045071","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0008542","count":2}]},{"hash":"1769548521095221097","title":"DNA replication and chromatin assembly","description":"Based on the terms, the proteins in this cluster are linked to chromatin dynamics (nucleosome/chromatin assembly and histone exchange) and DNA replication/repair (UV-damage excision repair, HR repair, and mitotic replication). Although a couple terms are obsolete or peripheral (e.g., renal system process, stress fiber regulation), the dominant theme is nuclear DNA maintenance and chromatin remodeling. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":2},{"id":"GO:0001558","count":2},{"id":"GO:0043486","count":1},{"id":"GO:0010847","count":1},{"id":"GO:0006334","count":1}]},{"hash":"1178639375899839524","title":"Tissue development and morphogenesis","description":"The cluster centers on developmental differentiation and tissue morphogenesis across multiple lineages (trophoblast giant cells, lens fibers, cartilage, salivary gland branching, pancreatic and endocrine development, left-right patterning). The presence of cell adhesion terms and regulation of Rho-mediated signaling further supports roles in cell\u2013cell interactions and cytoskeletal remodeling during morphogenesis, rather than metabolism or basic signaling alone.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":4},{"id":"GO:0060707","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0045214","count":3}]},{"hash":"916557193940467291","title":"Mitochondrial Translation and Ribosome Assembly","description":"Based on the top GO terms, the cluster centers on mitochondrial protein synthesis (mitochondrial translation, elongation, termination) and ribosome assembly, with supporting signals for general translation and mitochondrial-associated redox balance. While a few isolated terms (antibiotic response, apoptotic signaling) appear, the dominant pattern points to a mitochondrial translation/biogenesis module.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0032543","count":2},{"id":"GO:0045454","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0070126","count":1}]},{"hash":"1862950371005219080","title":"Embryonic development and tissue differentiation","description":"The top GO terms cluster around embryonic processes across multiple tissues (neural tube formation, digestive tract morphogenesis, muscle and vascular differentiation) and include gene expression regulation (transcription/translation) and epigenetic modification (H3-K36 methylation), indicating a cohesive theme of development governed by gene regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035019","count":2},{"id":"GO:0001841","count":2},{"id":"GO:0048546","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0010452","count":2}]},{"hash":"1539534879403032389","title":"Membrane Transporters for Nutrients and Xenobiotics","description":"The top GO terms indicate diverse transmembrane transport activities across substrates such as nitrate/nitrite, phosphate, sugars, sialic acid, fucose, vitamins, and xenobiotics, plus a vesicular neurotransmitter loading term. This points to a cluster of transporter proteins specialized in moving a range of substrates across membranes, rather than enzymes or structural components.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":4},{"id":"GO:0035461","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0098700","count":3}]},{"hash":"1682700664922059587","title":"RNA modification and ribosome biogenesis","description":"This cluster is dominated by RNA-related methylation (tRNA wobble uridine methylation, rRNA guanine-N7 methylation) and ribosome biogenesis processes (ribosomal small subunit export, cell growth), with a supporting histone methylation term. The pattern suggests a cohesive theme around nucleic acid modification and ribosome assembly, despite a few outlier terms.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043985","count":5},{"id":"GO:0009236","count":5},{"id":"GO:0002098","count":5},{"id":"GO:0016049","count":5},{"id":"GO:0000056","count":5}]},{"hash":"2248644302898668196","title":"Neural development and axon guidance","description":"The cluster is enriched for neural development terms such as cerebellar Purkinje cell layer development, synapse maturation, sympathetic neuron projection guidance, neural crest cell migration, and semaphorin-plexin signaling in axon guidance, suggesting a core theme of neuronal connectivity and patterning. Some terms like complement activation or PKC signaling regulation appear less central, but the dominant pattern points to neural development and axon pathfinding.","confidence":"High","size":22,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090036","count":5},{"id":"GO:0021680","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0060074","count":5},{"id":"GO:0007338","count":5}]},{"hash":"1851065668012183805","title":"TLR\u2013MyD88 NF-\u03baB Signaling","description":"The top GO terms are dominated by toll-like receptor signaling (TLR9 and MyD88-dependent) with I-kappaB phosphorylation and ubiquitination, pointing to canonical NF-\u03baB\u2013mediated innate immune signaling. While there are some auxiliary terms related to stress or neuronal processes, the core motif is TLR-driven inflammatory signaling, so this label reflects the cluster\u2019s primary function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034162","count":1},{"id":"GO:0019800","count":1},{"id":"GO:0051901","count":1},{"id":"GO:0002755","count":1},{"id":"GO:0002091","count":1}]},{"hash":"2241081742491148509","title":"Telomere maintenance and telomerase regulation","description":"The top GO terms cluster around telomere maintenance, telomere localization to chromosome ends, telomere capping, and telomerase regulation, with related ADP-ribosylation processes, indicating a cohesive telomere biology module.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904357","count":5},{"id":"GO:0070198","count":5},{"id":"GO:0070213","count":5},{"id":"GO:1904355","count":5},{"id":"GO:1900383","count":5}]},{"hash":"146936219913400714","title":"Transmembrane Transporters","description":"A cluster dominated by GO terms for transmembrane transport of diverse substrates (ion, sugar, nitrate, xenobiotic, etc.) and vesicular loading, pointing to a coherent theme of membrane transporter proteins rather than metabolism alone.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0042128","count":2},{"id":"GO:0015751","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0006004","count":2}]},{"hash":"569529261900020615","title":"Cardiac development and neural crest morphogenesis","description":"The top GO terms point to heart formation processes, including left/right axis specification, cardiac right ventricle formation, ventricular trabecula morphogenesis, and outflow tract morphogenesis, with neural crest involvement at the core of cardiac morphogenesis. Notch signaling regulation also appears, fitting a developmental cardiac context. Obsolete terms are likely noise and can be ignored. Overall, the cluster is best described as a cardiac development/neural crest morphogenesis group.","confidence":"High","size":21,"edges":7,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0045463","count":10},{"id":"GO:0007612","count":9},{"id":"GO:0042691","count":9},{"id":"GO:0070986","count":9}]},{"hash":"988165804851313198","title":"TLR/LPS-driven TH1 immune signaling","description":"The cluster is dominated by terms tied to innate immune sensing and cytokine-driven responses, including TLR9 signaling, cellular response to lipopolysaccharide, TH1-type immune response, and regulation of IL-12/IL-23 pathways, plus JNK cascade modulation. This points to a coherent theme of innate immune signaling and cytokine regulation, with protein transmembrane transport suggesting receptor trafficking. Some auxiliary terms (e.g., male gonad development) may reflect annotation noise, but do not override the prevailing immune-focused function of the cluster.","confidence":"High","size":21,"edges":55,"triangles":26,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032707","count":8},{"id":"GO:0042088","count":8},{"id":"GO:0071260","count":8},{"id":"GO:0046330","count":8},{"id":"GO:0071806","count":6}]},{"hash":"451617981772280794","title":"Secondary metabolite biosynthesis","description":"Proteins in this cluster are enriched for GO terms describing biosynthetic pathways of diverse secondary metabolites and pigments, including antibiotic biosynthesis, phylloquinone and retinal/pigment-related processes, tropane alkaloid biosynthesis, and steroid/hormone metabolism. This suggests a cohesive theme around production of specialized metabolites across taxa rather than primary metabolism, hence the label Secondary metabolite biosynthesis. ","confidence":"High","size":21,"edges":119,"triangles":377,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":21},{"id":"GO:0042376","count":19},{"id":"GO:0055114","count":19},{"id":"GO:0006704","count":19},{"id":"GO:0008207","count":19}]},{"hash":"2267709728834735536","title":"Metabolite Biosynthesis and Transcription Regulation","description":"This cluster shows strong representation of biosynthetic processes (antibiotic, biotin, retinol, poly-hydroxybutyrate, testosterone, androgen) and also terms related to transcription regulation (DNA-templated transcription and its regulation), suggesting proteins involved in producing diverse metabolites and coordinating their gene expression. The presence of a redox-related term and antibiotic response further supports a theme around metabolic production and regulation in response to environmental cues.","confidence":"Medium","size":21,"edges":61,"triangles":77,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0017000","count":6},{"id":"GO:0009102","count":5},{"id":"GO:0046677","count":5},{"id":"GO:0006351","count":5}]},{"hash":"1931642997391172088","title":"Bacterial lipid biosynthesis and membrane metabolism","description":"The cluster is dominated by GO terms for fatty acid biosynthesis (including long- and very long-chain), lipoteichoic acid biosynthesis, long-chain fatty acid import, and menaquinone biosynthesis, all central to bacterial membrane lipid production and function. While there are a few outlier terms (bioluminescence, seed coat development), the strongest signal ties to lipid/membrane biosynthesis and related cofactors. ","confidence":"High","size":21,"edges":65,"triangles":47,"max_degree":12,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006633","count":8},{"id":"GO:0070395","count":8},{"id":"GO:1902987","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0009234","count":5}]},{"hash":"132063149725198095","title":"Bacterial Fatty Acid and Menaquinone Biosynthesis","description":"These 21 proteins are enriched for lipid metabolism and cofactor biosynthesis terms, including long-chain and very long-chain fatty acid metabolism, fatty acid import, and menaquinone biosynthetic process. This points to a coherent theme of bacterial lipid handling and quinone cofactor production. Some other terms (bioluminescence, NRPS activation, seed coat development) appear less central or may reflect annotation noise, but do not override the lipids/quinone-focused pattern.","confidence":"High","size":21,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":9},{"id":"GO:0044539","count":9},{"id":"GO:0043041","count":9},{"id":"GO:0000038","count":9},{"id":"GO:0008218","count":9}]},{"hash":"762638560528487738","title":"Proteoglycan biosynthesis and sulfation","description":"This cluster is dominated by glycosaminoglycan (GAG) biosynthesis terms, including keratan sulfate and dermatan/heparin proteoglycan biosynthetic processes, plus protein sulfation and sulfate assimilation. Together these point to a core theme of proteoglycan production and sulfation modifications, with other terms like thyroid hormone metabolism or ethanol catabolism likely representing broader metabolic connections rather than a unifying function. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042403","count":5},{"id":"GO:0006068","count":3},{"id":"GO:0018146","count":3},{"id":"GO:0030205","count":3},{"id":"GO:0030210","count":3}]},{"hash":"1816791966822274790","title":"Developmental cell fate specification","description":"Based on the predominance of tissue- and lineage-specific differentiation terms (neuronal subtypes, spinal cord lineages, pancreas and heart/bronchiole development), the cluster appears to represent a multi-tissue developmental fate specification program. The general transcription term (RNA polymerase II) likely reflects gene regulation driving these fate decisions, rather than a single pathway. ","confidence":"High","size":21,"edges":154,"triangles":816,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0043433","count":10},{"id":"GO:0021892","count":10},{"id":"GO:0021520","count":10},{"id":"GO:0060163","count":10}]},{"hash":"360959501761371424","title":"Developmental gene regulation and differentiation","description":"This cluster shows multiple developmental process terms (brain, spinal cord, skin, multicellular organism development, trophoblast differentiation) along with gene expression control terms (DNA-templated transcription, alternative mRNA splicing via spliceosome, regulatory ncRNA-mediated gene silencing). Together, they suggest proteins that coordinate development and cell fate through transcriptional and post-transcriptional regulation, rather than a single tissue-specific function. The presence of an obsolete ERAD term is likely incidental. Overall, the label reflects a broad developmental regulatory role.","confidence":"Medium","size":21,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0043588","count":2}]},{"hash":"2142359544710502066","title":"TLR/NF-kappaB Innate Inflammatory Signaling","description":"The cluster is dominated by innate immune signaling terms: MyD88-dependent Toll-like receptor signaling and canonical NF-kappaB activation, along with inflammatory response and cytokine production (IL-23, IL-17), plus responses to peptidoglycan and JNK cascade, pointing to a cohesive NF-kappaB\u2013driven inflammatory module. The obsolete GO term still aligns with the same pathway, reinforcing the theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0006954","count":5},{"id":"GO:0043123","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0002755","count":4}]},{"hash":"1196896099732921252","title":"Mitotic cycle progression and DNA replication","description":"The cluster is dominated by GO terms related to cell cycle progression and DNA replication (G1/S transition, G2/M transition, DNA replication, re-entry into mitosis, kinetochore localization, meiotic cell cycle). These themes point to proteins involved in mitosis and chromosome segregation, with some proliferation-related terms (Schwann cell development, mammary gland epithelial cell proliferation) likely reflecting broader proliferation roles.","confidence":"High","size":21,"edges":96,"triangles":277,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000082","count":10},{"id":"GO:0034501","count":7},{"id":"GO:0000086","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0014044","count":7}]},{"hash":"1337089067784754782","title":"Unknown","description":"The top GO terms are highly diverse, including fat cell differentiation, thermoception, regulation of SA node action potential, kinase activity regulation, chemokine production, epithelial maturation in prostate development, telomere maintenance, and general cell growth. There is no single coherent function tying these terms together, so the cluster cannot be confidently assigned a specific biological theme.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":7},{"id":"GO:0010745","count":6},{"id":"GO:0045444","count":6},{"id":"GO:0098907","count":6},{"id":"GO:0050955","count":5}]},{"hash":"1864158128769742044","title":"Rho GTPase signaling and actin remodeling","description":"This cluster is dominated by GO terms for small GTPase-mediated signal transduction and regulation of Rho signaling, plus actin cytoskeleton organization, pointing to coordinated cytoskeletal dynamics controlled by Rho family GTPases. Additional signals like PI3K-Akt, prostaglandin response, and apoptosis-related terms suggest broader context, but the core theme remains GTPase-driven signaling that governs actin remodeling.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007264","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0097194","count":4},{"id":"GO:0032633","count":4},{"id":"GO:0030036","count":4}]},{"hash":"1459005336785711924","title":"Diverse Membrane Transporters","description":"The cluster is dominated by a variety of transmembrane transport GO terms, covering nitrite/nitrate, arabinose, sialic acid, fucose, 4-hydroxyphenylacetate, and xenobiotic substrates, plus a vesicular transport term. This pattern points to a group of proteins whose main role is transporting diverse nutrients and compounds across membranes, rather than a single metabolic pathway. The heart development term appears incidental. Confidence: High","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0042128","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0015751","count":3}]},{"hash":"1116099621030373832","title":"Glycan biosynthesis and AGP metabolism","description":"The cluster\u2019s top GO terms are dominated by glycosylation- and polysaccharide-related processes (arabinogalactan protein metabolism, Lewis a epitope biosynthesis, poly-N-acetyllactosamine biosynthetic, and O-linked glycosylation pathways) plus mucilage/seed coat biosynthesis, all pointing to extracellular matrix components and glycan assembly. Some terms also touch on development and cell adhesion (e.g., follicle cell adhesion), suggesting a theme of glycan-based cell wall or extracellular matrix functions across organisms. Overall, glycan biosynthesis and AGP-related metabolism appears to be the unifying thread. ","confidence":"Medium","size":21,"edges":6,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1900087","count":3},{"id":"GO:0010493","count":3},{"id":"GO:0001744","count":3},{"id":"GO:0075015","count":3},{"id":"GO:0030311","count":3}]},{"hash":"1323049698817308865","title":"GTPase signaling and actin remodeling in development","description":"Top GO terms cluster around small GTPase regulation and signaling, actin nucleation via Arp2/3, and developmental processes including brain development and cell division, indicating a module coordinating GTPase activity with cytoskeletal dynamics and mitosis during neural development and related behaviors. High","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0007420","count":2}]},{"hash":"45011978601413610","title":"TLR4/LPS-triggered innate immune signaling","description":"This cluster centers on innate immune and inflammatory responses to bacterial components, notably LPS signaling via TLR4, with downstream cytokine and chemokine production (TNF, chemokines), and related defenses against bacteria, reflecting a coherent theme of TLR4-driven innate immune activation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0006954","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0034142","count":3},{"id":"GO:0032760","count":3}]},{"hash":"1300451095002348519","title":"NF-kappaB/ERK immune signaling and axon guidance","description":"This cluster is enriched for canonical NF-kappaB signaling, ERK1/2 cascade, TLR2 signaling, and positive regulation of B cell activation, pointing to a core immune signaling module; the presence of axonal extension and fasciculation terms suggests a potential link to neural development or axon guidance as well.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0043123","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0034134","count":4},{"id":"GO:0050871","count":4},{"id":"GO:0007249","count":4}]},{"hash":"11288074239135651","title":"Calcium-Triggered Secretion Signaling","description":"The GO terms show a core emphasis on calcium release into the cytosol, neurotransmitter secretion, and phosphatidylinositol-mediated signaling, alongside regulation of GTPase activity and mRNA transport, which together point to vesicle trafficking and calcium-driven signaling. Additional hints from hypoxia and glucocorticoid response, and a single mitotic cell cycle term, suggest broader regulatory roles rather than a single pathway. Overall, the cluster appears to represent calcium- and secretion-related signaling with associated regulatory processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0001569","count":3},{"id":"GO:0010288","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0051384","count":3}]},{"hash":"154658489062291620","title":"Unknown","description":"The GO terms are scattered across temperature sensing, broad regulatory processes (protein ubiquitination, kinase activity regulation), development (prostate epithelial maturation, cerebellar neuron differentiation), telomere maintenance, and chemokine production, with no single cohesive function tying the proteins together. The lack of connections and a clear common pathway suggests there isn\u2019t a unique, interpretable cluster function to label beyond Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0050955","count":8},{"id":"GO:0071901","count":8},{"id":"GO:2000340","count":8},{"id":"GO:0060743","count":8},{"id":"GO:1904357","count":8}]},{"hash":"212751633225459000","title":"Presynaptic vesicle cycling and tubulin assembly","description":"The strongest signals are presynaptic functions (synaptic vesicle recycling, protein localization to presynapse) and cytoskeletal/tubulin biogenesis (post-chaperonin tubulin folding, tubulin complex assembly), suggesting a cluster of proteins involved in neurotransmitter cycling and cytoskeletal organization. Some other terms (transcription/translation regulation, DNA recombination, mating growth) are broader or less directly linked, but do not override the dominant presynaptic/cytoskeletal theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036465","count":2},{"id":"GO:0048266","count":2},{"id":"GO:0007023","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0032013","count":2}]},{"hash":"1956777082468890461","title":"Neural and sensory development","description":"The GO terms are dominated by neural and sensory tissue development (inner ear, midbrain, trigeminal and retinal ganglia, spinal cord interneurons) with supportive signals for other organogenesis (pituitary, digestive tract) and a related transcriptional regulatory role (negative regulation of transcription by RNA polymerase II). This suggests proteins that coordinate neurodevelopment and sensory neuron formation, coupled with transcriptional control.","confidence":"Medium","size":21,"edges":11,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0048839","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0021983","count":6},{"id":"GO:0055114","count":6}]},{"hash":"629509690091562285","title":"Unknown","description":"The GO terms span DNA repair, transcription, lipid metabolism and transport, mitochondrial fission, signaling (JNK), endothelial activation, and even locomotion, with several obsolete terms, showing no single cohesive biological function for the cluster. None","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":4},{"id":"GO:0006360","count":4},{"id":"GO:0070816","count":4},{"id":"GO:0042118","count":3},{"id":"GO:0042157","count":3}]},{"hash":"895587118330458040","title":"Proteoglycan sulfation and GAG biosynthesis","description":"This cluster is dominated by GO terms related to proteoglycan biosynthesis and sulfation of glycosaminoglycans (keratan, heparan, dermatan), indicating a cohesive theme around proteoglycan assembly and modification. The presence of several obsolete terms alongside sulfation-related processes suggests some annotation legacy, but the core function appears to be proteoglycan biosynthesis/modification. A couple peripheral terms (angiotensin regulation, fat cell differentiation) may reflect broader roles or annotation noise.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":4},{"id":"GO:0015015","count":3},{"id":"GO:0006478","count":2},{"id":"GO:0006068","count":2},{"id":"GO:0018146","count":2}]},{"hash":"128579579754026382","title":"Xenobiotic and Ion Transporters","description":"This cluster is dominated by transmembrane transport GO terms, including xenobiotic and vitamin transport, various ion transports (potassium, phosphate, nitrate, nitrite, sialic acid), and neurotransmitter loading into synaptic vesicles, pointing to a cohesive set of membrane transporter proteins across diverse substrates. The lack of internal edges doesn't undermine this functional coherence.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":18},{"id":"GO:0035461","count":18},{"id":"GO:0042891","count":13},{"id":"GO:0071805","count":12},{"id":"GO:0042908","count":11}]},{"hash":"608436435489739426","title":"GPCR Signaling and Tissue Development","description":"The top terms strongly point to GPCR-mediated signaling, including activation of adenylate cyclase and related cAMP pathways, and Rho signaling downstream of GPCRs. In addition, there are terms related to acetylcholine metabolism and inflammatory response, plus developmental processes in lung, ovary, and mammary tissue, suggesting a theme of GPCR signaling with roles in tissue development and inflammatory regulation. Confidence in this label is Medium.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":8},{"id":"GO:0045777","count":8},{"id":"GO:0022900","count":8},{"id":"GO:0035025","count":6},{"id":"GO:0060408","count":5}]},{"hash":"74472791410357292","title":"Developmental Signaling and Morphogenesis","description":"The GO terms cluster around developmental processes and tissue morphogenesis, with signaling pathway regulation (Wnt, JNK), left-right patterning, and various organ/tissue development (heart, cartilage, pancreas, endocrine system), plus cell migration, suggesting a broad role in developmental patterning rather than a single tissue-specific function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0016477","count":3}]},{"hash":"358334208629187633","title":"Ribosome Biogenesis and rRNA Maturation","description":"The top GO terms point strongly to maturation of SSU-rRNA and ribosomal small subunit biogenesis, along with broader gene expression. Other terms like lipopolysaccharide response and IL-12 regulation appear less central, suggesting the core theme is ribosome assembly and RNA processing with linked transcriptional activity. The sparse network (Max Degree 1) indicates these proteins may be co-expressed components of the ribosome biogenesis pathway rather than a tightly connected signaling module.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030490","count":2},{"id":"GO:0010467","count":2},{"id":"GO:0043085","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0070207","count":2}]},{"hash":"59405877830449336","title":"GTPase signaling and neuromuscular junction development","description":"The cluster is dominated by small GTPase\u2013mediated signal transduction, with several terms pointing to neuromuscular junction development and acetylcholine receptor clustering, suggesting a role in signaling at nerve\u2013muscle interfaces. A few meiosis-related terms appear, which may reflect annotation noise rather than a shared function. Overall, the strongest signal centers on GTPase signaling and neuromuscular junction processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":3},{"id":"GO:2001241","count":2},{"id":"GO:0050728","count":2},{"id":"GO:0010032","count":2},{"id":"GO:0042518","count":2}]},{"hash":"1858865949394178298","title":"Growth Factor Signaling and Endocytosis","description":"The cluster is dominated by GO terms related to growth factor receptor signaling (EGF, PDGF, GH receptor) and receptor-mediated endocytosis, with accompanying GTPase activity regulation (Rac). While a few terms are more peripheral (osteoclast differentiation, antibiotic biosynthesis, extrinsic apoptotic signaling), the core theme points to growth factor\u2013driven signaling and membrane internalization.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0045671","count":2},{"id":"GO:0060396","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0008625","count":2}]},{"hash":"151536713045948730","title":"Neural progenitor mitosis and nuclear migration","description":"This cluster shows recurring GO terms centered on microtubule-based mitosis and nuclear movements (metaphase/anaphase transition, astral microtubule organization, pronuclear and interkinetic nuclear migration) and neural development (cerebral cortex development), suggesting proteins involved in neural progenitor cell division and cortical development. Some terms like macrophage activation or cardiac hypertrophy are outliers, but the dominant theme is mitotic spindle dynamics and neural progenitor nuclear dynamics.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035562","count":2},{"id":"GO:0042116","count":2},{"id":"GO:1903244","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0071805","count":2}]},{"hash":"1430634600376309966","title":"Phototransduction and GPCR-cAMP signaling","description":"The cluster is dominated by GO terms connecting GPCR-mediated signaling to adenylate cyclase activation, cAMP signaling, and calcium release, with strong emphasis on visual perception and opsin-mediated signaling. This points to a photoreceptor signaling module where light-activated opsins trigger GPCR pathways leading to cAMP and calcium dynamics. Some terms such as Rho signaling or amphetamine response may reflect broader GPCR signaling, but the visual perception and opsin-related terms define the core theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":14},{"id":"GO:0043547","count":14},{"id":"GO:0008284","count":14},{"id":"GO:0022400","count":13},{"id":"GO:0007601","count":13}]},{"hash":"2037952406132377276","title":"Neural signaling and plasticity","description":"Top GO terms are dominated by nervous system\u2013related functions (pain perception, memory, and synaptic plasticity such as long-term potentiation) and ion transport (sodium/calcium) that underlie neuronal signaling. Additional terms relate to neural development (oligodendrocyte differentiation) and broader cellular processes (transcription), but the overall enrichment points to neural signaling and plasticity as the cluster\u2019s core theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050966","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0060291","count":2},{"id":"GO:0098735","count":2}]},{"hash":"1745443960289564434","title":"Calcium signaling and vesicle trafficking","description":"This cluster centers on calcium-related processes (calcium ion transport and release) and vesicle trafficking activities (pinocytosis, endosome-to-Golgi transport), with related signaling contexts in neurons and heart (memory and cardiac conduction) suggesting a cohesive theme of calcium-mediated signaling coupled to membrane dynamics.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070431","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0048549","count":3},{"id":"GO:0034499","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1946984957167834183","title":"Unknown","description":"The top GO terms are highly diverse and span immune (complement activation), extracellular matrix (collagen fibril organization), nervous system (myelination), and sensory perception (taste and tactile), among others. With no clear shared function or pathway and no edges or interactions, there is no coherent theme tying these proteins together, so a single informative label cannot be assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0051901","count":2},{"id":"GO:0042552","count":2}]},{"hash":"525264173018153566","title":"Unknown","description":"The GO terms are mixed across immune response, nervous system development, myelination, and tissue maintenance, with no clear shared pathway among them. There are no edges or triangles, suggesting no connected functional module in this cluster; while innate immune terms appear, other terms are development- or tissue-specific. This lack of a unifying theme makes it inappropriate to assign a precise label.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0050729","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0042552","count":3}]},{"hash":"192295436634772975","title":"Inflammation and vascular remodeling","description":"The proteins are enriched for inflammatory response and cellular response to lipopolysaccharide, with frequent mentions of positive regulation of angiogenesis and cell migration related to heart development, suggesting a theme of inflammation-associated vascular remodeling rather than a single tight pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006954","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0008542","count":1},{"id":"GO:0090232","count":1}]},{"hash":"2033077632871024760","title":"Plant hormone signaling and nitrate/peptide transport","description":"The top terms point to plant hormone pathways (auxin signaling and gibberellin homeostasis) and to nutrient handling (nitrate assimilation/transport and dipeptide/oligopeptide transport), suggesting a coordinated role in growth signaling and nutrient uptake. A single term (complement activation) seems out of place and may reflect annotation noise, but the dominant pattern supports this theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010951","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0009734","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0009635","count":1}]},{"hash":"2171139478404050805","title":"Axon Guidance and Synapse Formation","description":"The majority of top GO terms describe axon extension/axonogenesis, axonal fasciculation, corpus callosum development, and positive regulation of synapse assembly, pointing to neural development and connectivity; while there are a few outliers (e.g., TLR signaling), the dominant theme is axon guidance and synapse formation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048846","count":5},{"id":"GO:0022038","count":5},{"id":"GO:0006469","count":5},{"id":"GO:0007413","count":5},{"id":"GO:0007409","count":5}]},{"hash":"959457566675389456","title":"Neural development and synapse formation","description":"This cluster is enriched for GO terms tied to nervous system development, synapse assembly, and MAPK signaling (ERK cascade), along with neuron-specific processes such as voltage-gated channel clustering. While a few terms touch broader development or immune-related processes (angiogenesis, mast cell differentiation), the dominant pattern points to neural development and synaptic signaling pathways, justifying a label focused on neural development and synapse formation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0007399","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0060374","count":4},{"id":"GO:0051965","count":4}]},{"hash":"654127724873093152","title":"Mechanotransduction and tissue remodeling","description":"Based on the top GO terms, the cluster is dominated by mechanosensitive and ECM-related processes (cellular response to mechanical stimulus; collagen fibril organization; branching in blood vessel morphogenesis; cardiac muscle contraction), pointing to tissue remodeling driven by mechanical cues across tissues. Additional terms reflect broader stress and metabolic regulation that can modulate signaling ( xenobiotic response, ROS, thyroid hormone metabolism), with kinase activity regulation suggesting fine-tuning of signaling. Overall, the dominant theme is mechanotransduction and tissue remodeling. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0007409","count":6},{"id":"GO:0030199","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0035690","count":4}]},{"hash":"699276442859894866","title":"Unknown","description":"The top GO terms are diverse and do not converge on a single coherent function: they include TNF production regulation, LDL receptor\u2013related catabolic processes, insulin processing, nerve growth factor production, and even embryonic axis development. With such a mix and several obsolete terms, there isn\u2019t a clear, representative theme to name the cluster beyond Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032760","count":2},{"id":"GO:0015015","count":2},{"id":"GO:0030206","count":2},{"id":"GO:1905596","count":1},{"id":"GO:0032805","count":1}]},{"hash":"1890877021677878711","title":"Negative regulators of signaling and metabolism","description":"These proteins are linked to suppressing multiple pathways, including insulin receptor signaling, Notch signaling, glucose import, ATP production, and mitochondrial processes, with additional hints of broader signal transduction and cell cycle regulation. The shared theme is negative regulation of signaling and metabolic activities rather than a single specific pathway, so this label captures the cluster\u2019s overall function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046627","count":4},{"id":"GO:2001170","count":4},{"id":"GO:0007266","count":3},{"id":"GO:0045746","count":3},{"id":"GO:2001274","count":3}]},{"hash":"1916543811393849785","title":"NOD1/2 signaling and innate immune activation","description":"This cluster is dominated by GO terms for NOD1 and NOD2 signaling pathways, innate immune response, macrophage activation, and IL-12\u2013mediated TH1 differentiation, with additional links to necroptotic signaling and apoptotic regulation. The core theme ties to innate immune sensing and inflammatory signaling, with spleen development and neuronal stem cell maintenance appearing as broader, likely indirect associations. Therefore, the label emphasizes the primary functional module: NOD1/2 signaling and innate immune activation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070427","count":2},{"id":"GO:0045627","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0097150","count":2},{"id":"GO:2001244","count":1}]},{"hash":"740932564038848236","title":"Neural Development and Axonogenesis","description":"The dominant GO terms point to brain development and axon growth (axonogenesis, forebrain morphogenesis, axonal transport), suggesting a neural development-focused cluster. Some terms reflect broader cellular processes (DNA repair, ubiquitin-dependent degradation) or neuroinflammatory signaling, but the core signal is neural development and axon connectivity.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007409","count":4},{"id":"GO:0006281","count":4},{"id":"GO:1900015","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0008283","count":3}]},{"hash":"798074112951784159","title":"Retinoid metabolism and Notch-regulated osteoblast differentiation","description":"The top GO terms strongly point to retinol/retinal (retinoid) metabolism, with notoch signaling influencing osteoblast differentiation. This suggests a theme where retinoid pathways modulate Notch signaling and bone cell differentiation. Other terms like peptide hydroxylation and ion transport are present but less central to the core theme. ","confidence":"Medium","size":20,"edges":171,"triangles":892,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042572","count":15},{"id":"GO:0046370","count":13},{"id":"GO:0030961","count":13},{"id":"GO:0042574","count":13},{"id":"GO:0055114","count":12}]},{"hash":"800601228397826379","title":"Sugar and retinoid metabolism with redox stress","description":"This cluster centers on metabolism of small molecules such as ethanol, xylitol, and fructose, together with retinoid metabolism (retinol and retinoic acid). The GO terms also point to redox and stress-related responses (nitrosative stress, antineoplastic agent response, extracellular signal regulation), suggesting a metabolic module linked to xenobiotic handling and redox signaling rather than a single canonical pathway.","confidence":"Medium","size":20,"edges":162,"triangles":780,"max_degree":19,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0006068","count":11},{"id":"GO:0042572","count":11},{"id":"GO:0006069","count":11},{"id":"GO:0042573","count":10},{"id":"GO:1900116","count":10}]},{"hash":"2264122282427786903","title":"Central Carbon Metabolism","description":"The top GO terms strongly point to core energy and substrate processing: glycolysis, the TCA cycle, and amino-acid turnover (L-alanine, L-glutamate/glutamine), with pyruvate interfacing these pathways. This suggests a cluster of enzymes involved in central carbon metabolism rather than a single specialized pathway. The antibiotic biosynthetic process and other terms may reflect broader metabolic capacity rather than defining the cluster; thus the best label is Central Carbon Metabolism.","confidence":"High","size":20,"edges":144,"triangles":627,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0042853","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0042866","count":4},{"id":"GO:0019552","count":3}]},{"hash":"288918985697365460","title":"Oxidative stress and metabolism","description":"The GO terms show a pattern around metabolic processes and redox-related responses, including oxidation-reduction, cellular response to superoxide, and response to toxic substances, plus general metabolic activity and amino acid transport. A few terms (nitrogen fixation, angiogenesis) are less cohesive with the main theme, possibly reflecting annotation breadth. Overall, the dominant signal ties metabolism to oxidative stress response.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:1902000","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0043154","count":2}]},{"hash":"1881071818486977553","title":"Immune signaling and stress-response regulation","description":"The cluster centers on immune receptor signaling (T cell receptor and Fc-epsilon receptor pathways) with broader signaling cross-talk including Wnt and NF-kappaB pathways. It also features cellular stress responses (unfolded protein response, ER stress, and oxidative-stress\u2013related apoptosis regulation) and redox/metabolic support (iron-sulfur cluster assembly). Together, these proteins appear to coordinate immune signaling with cell survival decisions under stress, rather than a single isolated pathway.","confidence":"Medium","size":20,"edges":91,"triangles":233,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0050852","count":7},{"id":"GO:0090263","count":7},{"id":"GO:0038095","count":7},{"id":"GO:0038061","count":5},{"id":"GO:0016226","count":5}]},{"hash":"206173045202116948","title":"Cell adhesion and extracellular matrix regulation","description":"These proteins cluster around cell-matrix adhesion, cell adhesion, and positive regulation of cell-matrix adhesion, with a linked tissue regeneration signal, suggesting roles in establishing or modulating cell\u2013ECM interactions during tissue repair. Copper ion transport/homeostasis and xenobiotic transport terms may reflect copper-dependent enzymes involved in matrix remodeling or drug response, but the dominant theme is adhesion and ECM regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":1},{"id":"GO:0042246","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0001954","count":1},{"id":"GO:1990384","count":1}]},{"hash":"1662586954620714075","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"Top GO terms cluster around biosynthesis and modification of glycosaminoglycans and proteoglycans (keratan sulfate, heparan sulfate, chondroitin/dermatan sulfate) including sulfation processes, pointing to a shared role in extracellular matrix proteoglycan production. Some terms are obsolete, but the recurring theme supports a proteoglycan/GAG biosynthesis focus.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0015015","count":3},{"id":"GO:0030206","count":3},{"id":"GO:0006478","count":3},{"id":"GO:0042403","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1635123695850692474","title":"Dopaminergic signaling and sensory transduction","description":"The cluster shows a clear emphasis on neural signaling and sensory pathways: dopaminergic synaptic transmission, regulation of dopamine metabolism, phototransduction, and adrenergic receptor\u2013related signaling. Immune cell chemotaxis terms are present but less representative of the core theme, suggesting the proteins are mainly involved in neural/sensory functions with some regulatory/off-target roles. ","confidence":"Medium","size":20,"edges":20,"triangles":17,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090023","count":4},{"id":"GO:0018298","count":4},{"id":"GO:0007603","count":4},{"id":"GO:0042053","count":4},{"id":"GO:0006351","count":3}]},{"hash":"1814158670375572","title":"Genome maintenance and cell-cycle control","description":"This cluster is enriched for nucleic acid metabolism (DNA recombination, tRNA processing) and cell-cycle regulation (G1/S transition), with related redox balance and hormonal-response terms. While some annotations are obsolete or peripheral, the core theme centers on genome maintenance and control of cell division.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":4},{"id":"GO:0008033","count":2},{"id":"GO:0071375","count":2},{"id":"GO:1900087","count":2},{"id":"GO:0045454","count":2}]},{"hash":"89950184317768068","title":"ECM adhesion and vascular remodeling","description":"The terms cluster around extracellular matrix organization (collagen fibril organization), cell adhesion (cell-matrix and heterophilic), and cell migration/angiogenesis (endothelial and smooth muscle migration, sprouting angiogenesis), plus skeletal development and coagulation. This points to proteins involved in ECM interactions that regulate vascular remodeling and tissue development, justifying a label centered on ECM adhesion and vascular remodeling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0007160","count":5},{"id":"GO:0007596","count":5},{"id":"GO:2001027","count":5},{"id":"GO:0051965","count":5}]},{"hash":"2090180359115495582","title":"Translational Control and Antiviral Response","description":"The top GO terms center on translation and its regulation (translation, positive regulation of translation, regulation of translational initiation by eIF2 alpha phosphorylation) alongside innate immune response and negative regulation of viral genome replication, suggesting a cluster of proteins involved in stress-induced translational control and antiviral defense, with some synaptic localization hints.","confidence":"Medium","size":20,"edges":111,"triangles":392,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0045727","count":4},{"id":"GO:0006977","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0006397","count":3}]},{"hash":"105653344300422387","title":"Nuclear transcription and RNA processing","description":"This cluster\u2019s top GO terms center on nuclear gene expression and DNA metabolism: DNA replication, topological changes, recombination, spliceosome-associated RNA processing (splicing, prespliceosome assembly), and transcription regulation by RNA polymerase II. These points indicate a cohesive theme of genome maintenance and RNA processing in the nucleus, despite a couple of outliers that may reflect broader roles or annotations.","confidence":"Medium","size":20,"edges":36,"triangles":24,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0035640","count":7},{"id":"GO:0090394","count":7},{"id":"GO:0000398","count":6},{"id":"GO:0045944","count":6}]},{"hash":"1346334324913429221","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":127,"triangles":493,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009408","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0070389","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0048172","count":4}]},{"hash":"1906563087707376768","title":"Innate immune signaling and ubiquitin-regulated proteolysis","description":"This cluster centers on innate immune response and signaling, with GO terms for NF-kappaB activation, JNK regulation, and ubiquitin-dependent protein turnover (ERAD, autoubiquitination). The presence of actin polymerization and dendritic spine morphogenesis suggests cytoskeletal remodeling accompanying immune signaling, and the host-mediated suppression of symbiont invasion aligns with host defense roles. Taken together, the themes point to immune signal transduction tightly coordinated with ubiquitin-mediated degradation.","confidence":"High","size":20,"edges":159,"triangles":772,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0051865","count":2}]},{"hash":"1865261479070851314","title":"NOD1/2 Innate Immune Signaling","description":"The strongest terms are GO:0070427 and GO:0070431 for NOD1 and NOD2 signaling, pointing to innate immune sensing. Additional terms cover cell migration, ephrin signaling regulation, vitamin D response, and synaptic/plasticity-related regulation, suggesting broader cell signaling ties that often accompany immune signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0070427","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0070431","count":6},{"id":"GO:1900383","count":6},{"id":"GO:0007205","count":6}]},{"hash":"458660788914158681","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0006469","count":6},{"id":"GO:1901896","count":6},{"id":"GO:0001519","count":5},{"id":"GO:0007014","count":5}]},{"hash":"437859292198021091","title":"Unknown","description":"The top GO terms cover a mix of ubiquitination, RNA processing, collagen biosynthesis, cell adhesion, immune cell differentiation, apoptotic signaling, and even eye morphogenesis, with no single dominant function tying the proteins together. This lack of a cohesive theme suggests the cluster cannot be meaningfully named by a shared, specific function.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0030853","count":1},{"id":"GO:0032964","count":1},{"id":"GO:0060355","count":1}]},{"hash":"574983884029529529","title":"Developmental Regulation and Signaling","description":"The cluster shows enrichment across multiple development-related terms (bone, heart, uterus, SA node, neural tube patterning) and associated signaling pathways (including Hedgehog-related regulation and T cell signaling). It also includes broader regulatory processes (alternative splicing, ncRNA-mediated silencing) and some stress/immune aspects (phagocytosis, heat response), suggesting a collection of proteins involved in general developmental regulation and signaling rather than a single precise function.","confidence":"Medium","size":20,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006909","count":2},{"id":"GO:0060348","count":2},{"id":"GO:1901621","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0031047","count":2}]},{"hash":"930125125928946550","title":"Post-transcriptional mRNA processing and translation control","description":"These proteins appear to function in post-transcriptional gene regulation, as reflected by GO terms for spliceosome-mediated alternative splicing regulation, mRNA stabilization/modification, and regulation of translational initiation, including preinitiation complex formation and small-subunit processome assembly, along with miRNA-mediated silencing and IRES-dependent initiation. The cluster thus centers on coordinating RNA processing with control of translation, supporting a cohesive post-transcriptional regulatory module.","confidence":"High","size":20,"edges":14,"triangles":4,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":5},{"id":"GO:1903586","count":5},{"id":"GO:0048255","count":5},{"id":"GO:0035278","count":5},{"id":"GO:0075522","count":5}]},{"hash":"743320568054621148","title":"Synaptic signaling and retina development","description":"The top GO terms cluster around neuronal communication and eye development: retrograde trans-synaptic signaling, learning, regulation of receptor recycling, and neurotransmitter receptor biosynthesis point to synaptic signaling and plasticity; retina development indicates tissue-specific roles in the eye. Together these terms suggest a cluster of proteins involved in neural signaling pathways and eye development.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0051384","count":14},{"id":"GO:0007612","count":14},{"id":"GO:0098942","count":14},{"id":"GO:0051593","count":14},{"id":"GO:0045212","count":14}]},{"hash":"828872358685420778","title":"Neuronal Synapse Assembly and Membrane Trafficking","description":"This cluster centers on neural development and synaptic formation, with GO terms for synapse assembly and brain development, plus calcium-responsive signaling and endocytic/autophagic processes. The inclusion of ubiquitin-dependent endocytosis and lipid-related pathways (phosphatidylinositol signaling, phosphatidylcholine metabolism) supports membrane dynamics essential for synaptic function, suggesting a module of neuronal signaling and membrane trafficking.","confidence":"High","size":20,"edges":175,"triangles":897,"max_degree":19,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007416","count":4},{"id":"GO:0032024","count":4},{"id":"GO:0071277","count":3},{"id":"GO:0061736","count":3},{"id":"GO:0090153","count":3}]},{"hash":"628960234490926252","title":"Embryonic organ morphogenesis","description":"Top GO terms indicate broad multicellular development with organ-specific morphogenesis across heart, midbrain, pancreas, neural crest, limbs, digestive tract, and gonads, plus transcriptional regulation. This pattern suggests proteins involved in coordinating embryonic development and morphogenesis across multiple tissues, rather than a single organ-specific function.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0007275","count":11},{"id":"GO:0030901","count":11},{"id":"GO:0007507","count":11},{"id":"GO:0031018","count":10}]},{"hash":"2222635968594571763","title":"Platelet activation and fibrinolysis","description":"This cluster is dominated by GO terms tied to coagulation-related processes: platelet activation, plasminogen activation, and fibrinolysis, suggesting a hemostasis/coagulation theme. Other terms (inflammation, microtubule dynamics, plant/root growth signals) appear less central and may reflect broader cellular functions or noise. Overall, platelet activation with fibrinolysis best captures the core signal.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030168","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0031639","count":2},{"id":"GO:0042730","count":2},{"id":"GO:0071347","count":2}]},{"hash":"513199751905294696","title":"ECM Remodeling and Angiogenesis","description":"This cluster is dominated by collagen-related terms (collagen fibril organization, collagen biosynthetic process) and angiogenesis, with additional signals of epithelial-to-mesenchymal transition, cell adhesion, and developmental differentiation, suggesting a core function in extracellular matrix remodeling and vascular development. The presence of innate immune and complement activation terms may reflect inflammation or tissue remodeling contexts that accompany ECM changes. Overall, the data point to a cohesive theme of collagen-driven ECM dynamics supporting angiogenesis and EMT during development or repair.","confidence":"High","size":20,"edges":87,"triangles":148,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0045087","count":2},{"id":"GO:0001837","count":2},{"id":"GO:0032964","count":2}]},{"hash":"1214861734289385854","title":"Unknown","description":"The cluster shows a mix of terms across innate immunity, neural development, cell signaling, and trafficking (e.g., innate immune response, neuron/dendritic spine development, JUN phosphorylation, integrin/PDGF signaling, transcytosis, DNA replication), with no singular, cohesive function tying all proteins together.","confidence":"","size":20,"edges":146,"triangles":558,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0048666","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0007229","count":2},{"id":"GO:0032633","count":2}]},{"hash":"1077515420303408889","title":"Sensory Stimulus Detection and Signaling","description":"This cluster is dominated by GO terms related to detecting mechanical and chemical stimuli involved in sensory perception of pain, and the cellular response to mechanical stimulus, which points to a sensory signaling theme. Additional terms like response to vitamin D, ubiquitination, autophagy, and vesicle transport suggest broader regulatory roles but do not override the core sensory-detection motif.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":6},{"id":"GO:0016567","count":4},{"id":"GO:0050966","count":4},{"id":"GO:0050968","count":4},{"id":"GO:0071260","count":4}]},{"hash":"530527695184019276","title":"Ubiquitin-Dependent NF-\u03baB Regulation and Innate Immunity","description":"This cluster is enriched for proteins involved in modulating canonical NF-\u03baB signaling through ubiquitination processes (including autoubiquitination and K63-linked ubiquitination), linked to the innate immune response, autophagy, and ER-associated degradation, with additional connections to vitamin D response and LPS signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043123","count":12},{"id":"GO:0042787","count":12},{"id":"GO:0051865","count":11},{"id":"GO:0051092","count":11},{"id":"GO:0033280","count":10}]},{"hash":"877179026514609740","title":"Unknown","description":"The GO terms are highly diverse: endothelial proliferation, gonad and hair follicle development, spermatogenesis, dsRNA response, metal ion response, osteoclast differentiation, and general cell division. With no clear shared function or pathway and no edges connecting proteins, the cluster does not convey a coherent theme. Therefore the appropriate label is Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0001937","count":5},{"id":"GO:0061000","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0071360","count":4},{"id":"GO:0008585","count":4}]},{"hash":"560500271107289026","title":"Vertebrate Neural Development and Immune Functions","description":"The top GO terms cluster around neural development and synapse formation (nervous system development, forebrain development, positive regulation of synapse assembly), suggesting a neural development signature. Concurrent immune-related terms (defense response to Gram-positive bacterium, complement activation) indicate additional immune roles, pointing to functions in vertebrate development with immune involvement. The lack of edges implies dispersed interactions, but the GO terms collectively support this broad theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0051965","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0043569","count":4},{"id":"GO:0007399","count":4}]},{"hash":"2297883381125858333","title":"Migration and EMT/adhesion signaling","description":"The cluster is dominated by GO terms tied to cell movement and adhesion (leukocyte migration, integrin activation, epithelial to mesenchymal transition) and tissue remodeling (skeletal morphogenesis, EGFR signaling). This points to a cohesive theme of regulating cell-ECM interactions, motility, and state changes during development or repair, with peripheral hints of neuronal associations (memory, response to amphetamine) that are less central to the core function. Overall, the proteins seem tied to adhesion and migration/EMT processes.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050900","count":2},{"id":"GO:0048705","count":2},{"id":"GO:0033622","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0032516","count":2}]},{"hash":"838052331284118925","title":"Lipid Biosynthesis and Vesicle Transport","description":"The cluster shows a strong enrichment for fatty acid and sphingolipid biosynthetic processes (long-chain, very long-chain, unsaturated) alongside membrane trafficking terms (post-Golgi vesicle transport, late endosome to vacuole transport), suggesting a cohesive theme around lipid metabolism linked to vesicular transport. Some development/sensory terms are present but far less represented.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001757","count":2},{"id":"GO:0060088","count":1},{"id":"GO:0050910","count":1},{"id":"GO:0034625","count":1},{"id":"GO:0030148","count":1}]},{"hash":"1682073980489503429","title":"Embryonic morphogenesis and organ development","description":"The GO terms show a coherent developmental theme\u2014eye development, neural tube closure, embryonic digit morphogenesis, skin development, and cilium assembly\u2014suggesting embryogenesis and organogenesis; metabolic terms like menaquinone synthesis and long-chain fatty acid import appear less connected but do not negate the overall signal.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":2},{"id":"GO:0045453","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0001843","count":2}]},{"hash":"1061877631912094382","title":"Cartilage ECM Formation and Remodeling","description":"These terms cluster around cartilage development and extracellular matrix (ECM) organization. Cartilage condensation and collagen fibril organization indicate chondrogenesis, while actin cytoskeleton organization and Rho signaling reflect cell shape changes and motility during matrix deposition. Additional terms point to tissue morphogenesis and barrier/vascular remodeling, supporting a connective tissue remodeling theme. Sensory perception of sound appears ancillary in this context.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":4},{"id":"GO:0030199","count":4},{"id":"GO:1901492","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1274644203612001095","title":"Unknown","description":"Top terms span neuronal synaptic regulation (NMDA receptor activity, receptor internalization, negative regulation of excitatory postsynaptic potential) and immune/bone-related processes, plus RNA processing terms, with no single cohesive function dominating. The lack of a clear shared theme suggests the cluster lacks a specific, interpretable function.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000310","count":2},{"id":"GO:0031623","count":2},{"id":"GO:0090394","count":2},{"id":"GO:0048025","count":2},{"id":"GO:0061512","count":2}]},{"hash":"1655705160745879855","title":"Unknown","description":"The Top Terms span xenobiotic response, various biosynthetic processes (biotin, menaquinone, antibiotic), cell cycle regulation, signaling, and diverse sensory/physiological terms (vision, retinal development, cardiac contraction). There is no single cohesive function or pathway tying these proteins together, and the lack of edges suggests a heterogeneous cluster rather than a defined biological module.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035690","count":6},{"id":"GO:0009102","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0000086","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1553764024751465462","title":"Unknown","description":"The GO terms are highly diverse, spanning multiple organ development (heart, retina, cerebellum, valve morphogenesis) and also lipid/energy metabolism (mitochondrial ATP synthesis, ether lipid, platelet activating factor, and plant cutin biosynthesis). There is no single cohesive function or pathway linking these terms, and the lack of edges further suggests heterogeneity. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003139","count":2},{"id":"GO:0003407","count":2},{"id":"GO:0003203","count":2},{"id":"GO:0003181","count":2},{"id":"GO:0042775","count":2}]},{"hash":"249556910702286675","title":"Musculoskeletal and cardiac development","description":"The top GO terms are dominated by developmental processes, especially skeletal system development, chondrocyte development, skeletal muscle satellite cell maintenance in regeneration, and heart development, with an additional signal of anterior/posterior axon guidance and immune-related activation terms. This points to a cluster of proteins involved in tissue- and organ-level development across musculoskeletal and cardiovascular lineages, rather than a single pathway. Therefore \u201cMusculoskeletal and cardiac development\u201d is an intuitive label that captures the main theme of the cluster.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0033564","count":2},{"id":"GO:0090197","count":2}]},{"hash":"271803137391258018","title":"Actin cytoskeleton organization and microvillus assembly","description":"The top GO terms are dominated by actin cytoskeleton organization and microvillus assembly, with supporting signals from Rho-mediated pathways and related processes like endothelium junctions and synaptic localization. This points to a cohesive function in cytoskeletal remodeling and organization across cell types (hair cells, neurons, endothelial cells, heart), which aligns with the observed protein set. Therefore, the label captures the cluster\u2019s central theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007266","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0090557","count":2}]},{"hash":"1177487065456845535","title":"Unknown","description":"The Top Terms mix neural development and sensory functions (synaptic plasticity, hearing, otolith morphogenesis, locomotion) with carbohydrate metabolism/catabolic processes (xylan, arabinan, L-arabinose). There is no clear, shared functional theme or pathway connecting these terms, and the cluster has no edges, suggesting a non-coherent grouping. Therefore, Unknown with no confidence.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048169","count":2},{"id":"GO:0008625","count":2},{"id":"GO:0045493","count":2},{"id":"GO:0046373","count":2},{"id":"GO:0007605","count":2}]},{"hash":"1652924286026437642","title":"Developmental signaling and tissue remodeling","description":"The top terms span multicellular development, ossification, embryo implantation, blood coagulation, and signaling/receptor organization, suggesting a theme of development and structural remodeling across tissues (vascular and skeletal) with associated signaling pathways. Some terms are broad or obsolete, but the common thread points to developmental/tissue-remodeling processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007596","count":7},{"id":"GO:0045987","count":6},{"id":"GO:0007568","count":6},{"id":"GO:0019800","count":6},{"id":"GO:0007275","count":6}]},{"hash":"1783384595616421877","title":"Arabidopsis defense signaling and camalexin biosynthesis","description":"The terms point strongly to plant immune responses: defense against bacteria, systemic acquired resistance, hypersensitive response, wound response, and UV-B response, plus specific involvement in camalexin biosynthesis and its positive regulation. The combination suggests a cohesive cluster of plant defense signaling and production of camalexin, a key Arabidopsis phytoalexin, with auxin signaling indicating hormonal crosstalk during defense.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0071365","count":2},{"id":"GO:0010252","count":2},{"id":"GO:0034052","count":2},{"id":"GO:0010120","count":2}]},{"hash":"1909078362128944626","title":"Unknown","description":"The GO terms are dispersed across transcription, development, lipids/metabolism, xenobiotic catabolism, and even behavioral responses, with no clear shared process tying the proteins together. This suggests the cluster may be a mixed collection rather than a single functional module.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009624","count":2},{"id":"GO:0001662","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006641","count":1},{"id":"GO:0032259","count":1}]},{"hash":"22577602148924750","title":"TLR signaling and neuronal cytoskeletal dynamics","description":"This cluster features toll-like receptor signaling terms (MyD88-dependent TLR signaling and TLR9 signaling) alongside neural development processes such as axon extension, synapse assembly, and actin filament severing, suggesting a theme where immune signaling interfaces with neuronal structure and development. Given the presence of both immune and neural cytoskeleton/axon-related terms, the label captures the main shared signal, but the lack of observed interactions makes the cohesion only moderate.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":3},{"id":"GO:1900747","count":3},{"id":"GO:0051014","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0034162","count":2}]},{"hash":"1509066881792714683","title":"ECM remodeling and integrin-mediated adhesion","description":"The cluster is dominated by terms related to extracellular matrix organization (collagen fibril organization), proteolysis, and cell-ECM interactions (integrin-mediated adhesion) which together point to remodeling of the ECM and adhesive dynamics. This is consistent with cell migration and developmental processes such as somite formation and cuticle-based molting that depend on ECM remodeling. Endocytosis and insulin signaling modulation appear as secondary or supporting processes rather than core themes. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006898","count":3},{"id":"GO:0061053","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0016477","count":2}]},{"hash":"1541072524672506680","title":"Unknown","description":"The top GO terms are highly diverse, spanning neural behavior, auditory perception, ion transport and exocytosis, epithelium maintenance, cell adhesion, apoptosis, immune signaling, and mitochondrial fission, with no shared pathway or functional theme. Additionally, there are no edges connecting the proteins, so a cohesive, representative label cannot be assigned.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0010765","count":3},{"id":"GO:0030277","count":3},{"id":"GO:0007160","count":3}]},{"hash":"1829133503824518297","title":"Histone modification and chromatin assembly","description":"The cluster\u2019s top GO terms are dominated by histone H3\u2013related modifications (K14 acetylation, K4 dimethylation, K27 acetylation/trimethylation) and nucleosome assembly, pointing to chromatin remodeling and epigenetic regulation. A few terms related to sarcomere organization or placenta morphogenesis appear but are less representative. Overall, the core theme is chromatin modification and nucleosome maintenance.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0071440","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0080182","count":2},{"id":"GO:1901674","count":2}]},{"hash":"1979389625848195037","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"The top GO terms are dominated by biosynthetic processes for proteoglycans and glycosaminoglycans (heparan sulfate and chondroitin/chondroitin sulfate), suggesting the cluster centers on extracellular matrix component assembly. Additional terms like kidney development and hormone metabolism may reflect broader developmental/metabolic contexts but do not outweigh the proteoglycan/GAG biosynthesis signal.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019853","count":3},{"id":"GO:0006478","count":3},{"id":"GO:0030210","count":3},{"id":"GO:0042403","count":3},{"id":"GO:0030206","count":3}]},{"hash":"1158448033290038303","title":"Amino Acid and Cofactor Biosynthesis Cluster","description":"The top GO terms are dominated by biosynthetic pathways, including antibiotic biosynthesis, protoporphyrinogen IX (heme) biosynthesis, biotin biosynthesis, and various amino acid biosyntheses (beta-alanine, lysine) with a note on transcriptional regulation. This suggests a cohesive cluster of proteins involved in producing amino acids and cofactors, with some regulatory context, rather than degradation or catabolism. ","confidence":"High","size":19,"edges":124,"triangles":448,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":8},{"id":"GO:0019878","count":8},{"id":"GO:0006782","count":8},{"id":"GO:0009102","count":6},{"id":"GO:0019551","count":5}]},{"hash":"168842680704641697","title":"Proteoglycan biosynthesis and sulfation","description":"This cluster centers on sulfation and glycosaminoglycan biosynthesis, as reflected by GO terms for keratan sulfate and heparin proteoglycan biosynthetic processes, protein sulfation, and sulfate assimilation. While some terms like flavonoid metabolism and ethanol catabolic process are present, the strongest and most coherent signal is sulfation-related modifications of proteoglycans, suggesting a common functional theme around extracellular matrix glycosaminoglycan production and modification.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000103","count":5},{"id":"GO:0009812","count":5},{"id":"GO:0006068","count":4},{"id":"GO:0018146","count":4},{"id":"GO:0030205","count":4}]},{"hash":"688843228595274637","title":"Embryonic organ morphogenesis and patterning","description":"Consistent with multiple GO terms tied to development and morphogenesis, including midbrain development, camera-type eye development, embryonic eye morphogenesis, left/right pattern formation, and general multicellular organism development. The transcriptional regulation term supports developmental gene control, while apoptosis and immune-related terms may reflect remodeling during development. Overall, the cluster centers on embryonic organ patterning and morphogenesis, especially eye and brain structures.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0032496","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0060972","count":4}]},{"hash":"61320948143150332","title":"Adhesion and angiogenesis regulation","description":"The dominant GO terms point to cell-matrix and cell-cell adhesion, complemented by regulation of angiogenesis and VEGF signaling, suggesting a theme of adhesion-associated control of vascular remodeling. Some other terms (complement activation, thyroid hormone generation, junction assembly, Hedgehog signaling) are less central to this core. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0007157","count":4},{"id":"GO:0006590","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0071372","count":3}]},{"hash":"536200584269543946","title":"Diverse solute membrane transporters","description":"The GO terms are dominated by transmembrane transport across diverse substrates (nitrate, arabinose, fucose, sialic acid, 4-hydroxyphenylacetate, xenobiotics, sodium) and even neurotransmitter loading into vesicles, pointing to a core function as membrane transport proteins handling multiple solutes. A few metabolism terms appear but do not override the transport theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":8},{"id":"GO:0015751","count":6},{"id":"GO:1900754","count":6},{"id":"GO:0006004","count":6},{"id":"GO:0015739","count":6}]},{"hash":"2117152173771481504","title":"Embryonic organogenesis and tissue morphogenesis","description":"The top GO terms point to multiple embryonic development processes across different tissues (kidney development, duct formation, cartilage condensation, lymphatic morphogenesis) and some accompanying immune signaling (Fc-gamma receptor signaling, basophil activation). There isn\u2019t a single cohesive pathway, but the shared theme is embryonic tissue development across organs, with peripheral immune-related signaling contexts. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060355","count":7},{"id":"GO:0072218","count":7},{"id":"GO:0090238","count":7},{"id":"GO:0038094","count":7},{"id":"GO:0051873","count":7}]},{"hash":"2160017347117171269","title":"Myoblast fusion and muscle development","description":"This cluster is dominated by terms tied to muscle formation and differentiation (myoblast fusion, multicellular organism development, response to muscle activity), with supporting signals like negative regulation of Wnt signaling and cell proliferation to facilitate myogenesis. While a few terms (e.g., visual perception) seem unrelated, the overall pattern centers on muscle development, cell migration, and cell cycle regulation during differentiation, suggesting a cohesive myogenesis-focused group.","confidence":"High","size":19,"edges":40,"triangles":24,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043065","count":11},{"id":"GO:0008285","count":11},{"id":"GO:0090090","count":10},{"id":"GO:0016477","count":10},{"id":"GO:0007275","count":9}]},{"hash":"1502137884313614253","title":"Neural development and cellular growth","description":"This cluster combines GO terms tied to neural development (brain development, multicellular organism development, long-term synaptic potentiation) with core growth and protein synthesis processes (ribosome biogenesis, cell division/mitotic cell cycle, ER-to-Golgi transport) and signaling (positive regulation of JNK cascade). The overarching theme seems to be development of neural tissue accompanied by active protein production, trafficking, and growth signaling, justifying a label around neural development with growth. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0000747","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1253709963302750686","title":"Diverse regulation of signaling and gene expression","description":"The top GO terms point to multiple regulatory roles: modulation of signaling (GTPase activity and kinase activity), gene expression control (miRNA metabolism), and growth/differentiation processes (stem cell proliferation, spermatogenesis, vitamin D response). While the cluster spans varied processes, the unifying theme is regulation of signaling and cellular development, rather than a single pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0072089","count":5},{"id":"GO:1903886","count":5},{"id":"GO:0018032","count":5},{"id":"GO:0001519","count":5}]},{"hash":"715199341680829359","title":"Unknown","description":"The GO terms span quite different biology (thermoception and temperature sensing, GPCR signaling, heart rhythm regulation, chemokine production, prostate epithelial maturation, telomere maintenance, ubiquitination, and cell growth), with no single cohesive function dominating the cluster.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007205","count":9},{"id":"GO:0098907","count":9},{"id":"GO:0050955","count":8},{"id":"GO:0071901","count":8},{"id":"GO:2000340","count":8}]},{"hash":"1535387727607138787","title":"Unknown","description":"The top GO terms are highly diverse (nervous system development, innate immune response, circadian rhythm regulation, flower development, tRNA modification, etc.) with no clear shared function or pathway, and there are no protein\u2013protein interactions suggested by edges, so no cohesive cluster label can be assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0042787","count":2},{"id":"GO:0035914","count":2}]},{"hash":"240052975447392354","title":"TLR signaling and NF-kappaB activation","description":"This cluster centers on toll-like receptor pathways (TLR2, TLR3, TLR9), lipopolysaccharide response, and NF-kappaB activation, indicating a cohesive innate immune signaling module. While there are notes of B cell activation and platelet activation regulation, the dominant pattern is TLR-driven inflammatory signaling.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034134","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0050871","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0034138","count":2}]},{"hash":"408126423314560792","title":"Embryonic organ morphogenesis","description":"The terms point to development and morphogenesis across multiple embryonic tissues (heart, hindlimb, eye, placenta, habenula, prostate) rather than a single tissue-specific process, with additional broad transcription regulation terms, indicating a general embryonic development program.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0008584","count":8},{"id":"GO:0035116","count":8},{"id":"GO:0060527","count":8},{"id":"GO:2000288","count":8}]},{"hash":"387903933703483793","title":"Innate immune NF-kappaB/TNF signaling via ubiquitination","description":"This cluster centers on innate immune responses coordinated by ubiquitin-dependent regulation of NF-kappaB and TNF signaling, including modulation of the JNK cascade and I-kappaB phosphorylation, with specific K63 and K6 ubiquitination events; a single outlier term related to X chromosome inactivation likely reflects noise rather than a core function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":13},{"id":"GO:0042787","count":13},{"id":"GO:0051092","count":13},{"id":"GO:0009048","count":12},{"id":"GO:0046328","count":12}]},{"hash":"941459767868151514","title":"Germline RNA Processing and Meiosis","description":"This cluster centers on germline development and meiotic processes (germ-line cyst encapsulation, meiotic cell cycle, karyogamy) and includes RNA processing/editing functions (primary miRNA processing, A-to-I editing, mRNA destabilization/methylation), suggesting a cohesive role in germline RNA regulation during meiosis.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990744","count":1},{"id":"GO:0019827","count":1},{"id":"GO:0046020","count":1},{"id":"GO:0061157","count":1},{"id":"GO:0030708","count":1}]},{"hash":"1262046253005009133","title":"Thermoception and Temperature Sensing","description":"The top GO terms are dominated by thermoception and detection of temperature stimulus, indicating a clear focus on temperature sensing. Other terms point to broad regulatory processes that are less specific to a single function, so the core theme appears to be temperature sensation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071901","count":9},{"id":"GO:0021707","count":9},{"id":"GO:0050955","count":8},{"id":"GO:2000340","count":8},{"id":"GO:0060743","count":8}]},{"hash":"745667999295850475","title":"GPCR-CAMP Signaling and Energy Regulation","description":"The top GO terms cluster around activation/inhibition of adenylyl cyclase and GPCR signaling (GO:0010579, GO:0007190, GO:0010818, GO:0071881), which points to cAMP-mediated signaling pathways. Coupled with energy/metabolic processes such as the electron transport chain and heat generation (GO:0022900, GO:0031649), plus neuroendocrine and immune-related terms (dopaminergic transmission, histamine-induced secretion, T cell chemotaxis, blood pressure regulation), the combined pattern suggests GPCR-driven signaling that modulates energy metabolism and broader physiological responses. Therefore, a GPCR-cAMP\u2013driven energy regulation theme fits best.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":16},{"id":"GO:0007190","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0010579","count":16},{"id":"GO:0010818","count":13}]},{"hash":"81367756164075046","title":"Neural development and apoptosis regulation","description":"The major GO terms emphasize brain development, multicellular organism development, glial apoptotic processes, and regulation of apoptotic DNA fragmentation, with additional signaling in response to TGF-beta\u2014suggesting a theme around neural development and cell fate/survival. Some terms like ribosome biogenesis and protein oligomerization reflect general cellular processes and may be incidental to this cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":6},{"id":"GO:0051301","count":4},{"id":"GO:0000747","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0071560","count":4}]},{"hash":"550465280713069820","title":"Membrane Transport Proteins","description":"This cluster centers on various transmembrane transport processes for diverse substrates\u2014organic anions and cations, glucose, nitrate, phosphate, and xenobiotics\u2014as well as neurotransmitter loading into synaptic vesicles, indicating a cohesive group of membrane transporters. A cellular response to glucose starvation is present but still related to nutrient flux, reinforcing the transport-focused theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043252","count":3},{"id":"GO:0042149","count":2},{"id":"GO:0044381","count":2},{"id":"GO:0070715","count":2},{"id":"GO:0006855","count":2}]},{"hash":"1710698388695131082","title":"GPCR-Mediated cAMP Signaling","description":"The top GO terms are dominated by adenylate cyclase activation/inhibition and GPCR signaling, including pathways that activate or inhibit adenylate cyclase, along with downstream physiological processes like blood pressure regulation and dopaminergic signaling. This points to a cohesive theme centered on GPCR-driven cAMP signaling, even though a few terms (e.g., electron transport) suggest broader roles. Overall, the cluster seems to reflect proteins involved in GPCR-to-adenylyl cyclase signaling and its systemic effects.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":17},{"id":"GO:0010579","count":17},{"id":"GO:0045777","count":17},{"id":"GO:0022900","count":17},{"id":"GO:0010818","count":15}]},{"hash":"1872621812116183601","title":"Neural development and synapse formation","description":"Top GO terms indicate neural morphogenesis and synaptogenesis: axonogenesis, corpus callosum development, and positive regulation of synapse assembly. Also enriched are actin cytoskeleton remodeling (actin crosslink formation), Rho signaling regulation, and calcium signaling, all of which drive neurite outgrowth and synapse formation. A peripheral term (thyroid hormone metabolic process) may reflect developmental regulation rather than a core neural function. Overall, the cluster is best described as proteins involved in neural development and connectivity.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0042403","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0051965","count":2}]},{"hash":"862815229567450323","title":"Transmembrane transporters for xenobiotics, sugars, and ions","description":"This cluster is characterized by strong enrichment in transmembrane transport GO terms across xenobiotics, vitamins, sugars, and various ions, including glucose transport and insulin-stimulated glucose import, as well as potassium, sodium, and phosphate transport. The common thread is membrane transporter proteins that move diverse substrates across membranes, pointing to a coherent set of transporter functions rather than other enzymatic or regulatory roles.","confidence":"High","size":19,"edges":107,"triangles":227,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":18},{"id":"GO:0035461","count":18},{"id":"GO:0042908","count":18},{"id":"GO:0071805","count":17},{"id":"GO:0042149","count":17}]},{"hash":"2254184091913002317","title":"Ubiquitin-Dependent Immune Signaling","description":"The top GO terms point to ubiquitin-mediated proteolysis (ubiquitin-dependent protein catabolic process, autoubiquitination, K63- and K6-linked ubiquitination) along with immune signaling pathways (NF-kappaB activation, TNF signaling, V(D)J recombination). This suggests a cluster of proteins that regulate protein turnover and signaling in immune responses, possibly modulating antiviral processes and chromatin-related regulation via ubiquitination.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0043123","count":11},{"id":"GO:0051865","count":11},{"id":"GO:0070534","count":11},{"id":"GO:0036205","count":10}]},{"hash":"196835317604311308","title":"Ubiquitin-Proteasome System Components","description":"This cluster is dominated by GO terms tied to ubiquitination and ubiquitin-dependent degradation (ubiquitin-dependent protein catabolic process, protein ubiquitination, autoubiquitination, ERAD pathway, and specific ubiquitin linkages like K63- and K6-linked). Supporting terms reflect regulatory roles of ubiquitination in signaling (e.g., JNK cascade) and related regulation layers such as dosage compensation. The overall theme is proteostasis and ubiquitin-mediated turnover, making the ubiquitin-proteasome system the best-fitting label.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0033280","count":7},{"id":"GO:0051865","count":7},{"id":"GO:0016567","count":6},{"id":"GO:0000083","count":5}]},{"hash":"1092373193228005092","title":"Nuclear transport and NPC assembly","description":"This cluster is dominated by GO terms tied to nuclear import and transport: NLS-bearing protein import into the nucleus, ribosomal protein import into the nucleus, nuclear pore complex assembly, and mRNA transport. The positive regulation of GTPase activity suggests Ran-GTPase\u2013dependent control of nuclear trafficking, which fits with the mitotic cell cycle connections and NPC assembly. Some terms like defense response and desumoylation regulation appear peripheral, but the strongest theme is nuclear transport and pore complex dynamics.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000278","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0006610","count":3}]},{"hash":"907800842625818977","title":"Developmental Regulation of Muscle and Neural Differentiation","description":"The top GO terms point to broad developmental processes with emphasis on muscle (sarcomere organization, skeletal system development) and neural differentiation (neuron projection development, multicellular development). Transcriptional control (DNA-templated transcription) and regulatory aspects (positive regulation of GTPase activity, proteasomal degradation) further support a theme of developmental gene regulation affecting muscle and nerve formation. Although there are no reported interactions in this cluster, the functional signals consistently relate to multicellular development and lineage specification toward muscle and neural tissues.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0046827","count":3},{"id":"GO:0045214","count":3},{"id":"GO:0031146","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1186809509278964255","title":"RNA splicing and peptide hormone processing","description":"Two main themes emerge: RNA processing (mRNA splicing via spliceosome) and peptide/hormone maturation (insulin processing, enkephalin processing, peptide pheromone maturation, nerve growth factor production). A few terms linked to LDL receptor regulation and embryonic axis specification are present but less connected to these themes, suggesting the cluster spans two distinct functions rather than a single coherent one.","confidence":"Low","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:1905596","count":1},{"id":"GO:0032805","count":1},{"id":"GO:0007354","count":1},{"id":"GO:0032802","count":1}]},{"hash":"843400622702281868","title":"Unknown","description":"The top GO terms are highly diverse (cardiac proliferation, DNA-templated transcription, various signaling pathways including cGMP and cAMP/PKA, immune regulation, drug response, olfactory perception, and yeast bud neck localization) with no clear shared function or interactions, so there isn't a cohesive theme to name.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060038","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0051447","count":2},{"id":"GO:0071321","count":2},{"id":"GO:0046007","count":2}]},{"hash":"2025229389349657880","title":"TLR-mediated inflammatory signaling","description":"Top terms in the cluster are dominated by Toll-like receptor pathways (MyD88-dependent and TLR9), LPS signaling, and inflammatory responses, indicating innate immune activation. Some terms also touch on mitochondrial dynamics and related signaling cascades that can intersect with inflammation, but the primary theme is TLR-driven inflammatory signaling. Confidence in this being a representative label is Medium.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090141","count":6},{"id":"GO:0060161","count":6},{"id":"GO:0002755","count":6},{"id":"GO:0006954","count":6},{"id":"GO:0031663","count":6}]},{"hash":"1303755570011907256","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning plant hormone responses, animal development, and unrelated processes, with several obsolete terms. There is no clear common function that ties these proteins together, so the cluster cannot be assigned a coherent biological label.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019800","count":2},{"id":"GO:0061290","count":2},{"id":"GO:1902499","count":2},{"id":"GO:0060236","count":2},{"id":"GO:0061038","count":2}]},{"hash":"998722751554383576","title":"Ocular development and visual perception with inflammatory signaling","description":"The top GO terms point to eye/retina biology, with visual perception and retina vasculature development in a camera-type eye being prominent. Other terms like cell-matrix adhesion and prostaglandin/immune signaling (TNF regulation, LPS response) suggest accompanying extracellular and inflammatory processes that can occur in ocular tissues during development or injury. Together, these indicate a cluster centered on eye development/function with inflammatory signaling, rather than a non-specific mix of processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0032720","count":3},{"id":"GO:0007596","count":3}]},{"hash":"332436683086914228","title":"BMP-regulated cartilage and heart development","description":"The cluster centers on BMP signaling and developmental processes such as cartilage condensation and ventricular septum development, with supporting roles in multicellular morphogenesis, endothelial adhesion, and integrin-mediated cell adhesion. This points to BMP-driven morphogenesis in cartilage and cardiac tissue, making a developmental, organogenesis-focused label appropriate.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051091","count":3},{"id":"GO:0030513","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0001502","count":3},{"id":"GO:0010832","count":3}]},{"hash":"2040316364120833641","title":"Membrane Transporters","description":"The cluster is enriched for diverse transmembrane transport GO terms, including ions (potassium, nitrite, nitrate, phosphate), nutrients (vitamins, sialic acid), xenobiotics, and neurotransmitter loading into synaptic vesicles, suggesting a cohesive set of transporter proteins. This broad transmembrane transport theme ties the GO signals together under a single functional class.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0006855","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0035435","count":3}]},{"hash":"1153381258283567923","title":"Vertebrate Embryonic Development and Morphogenesis","description":"This cluster centers on developmental processes across placental formation, tissue differentiation, patterning (left-right), cartilage morphogenesis, endocrine system development, and neural structure formation (e.g., trigeminal ganglion), indicating a cohesive theme of vertebrate embryogenesis and organogenesis, with some associated transcriptional regulation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0060972","count":4}]},{"hash":"464667226452610214","title":"MAPK Signaling and Transcription Regulation","description":"The dominant GO terms point to two major MAPK cascades (p38 and ERK1/2) and DNA-templated transcription, with stimuli-responsive terms like GM-CSF and PMA suggesting signal-induced transcriptional programs. Additional RNA processing and proteasomal regulation terms appear as supporting layers, but the core theme is signaling-driven transcriptional control.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0046827","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0098789","count":3},{"id":"GO:0034247","count":3}]},{"hash":"1852863451837092635","title":"TLR signaling\u2013driven innate immunity","description":"The terms center on innate immune response, defenses against bacteria and viruses, detection of lipopolysaccharide, and activation of Toll-like receptor pathways (TLR3 and TLR6) with downstream IL-6 production. This points to a cohesive cluster of proteins involved in TLR-mediated pathogen recognition and cytokine signaling.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0050829","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0050830","count":4}]},{"hash":"1650830535138400284","title":"Sensory organ and nerve development","description":"The top GO terms are dominated by sensory and neural development (multicellular organism development; auditory receptor cell development; otolith morphogenesis; trigeminal nerve structural organization), indicating the cluster likely centers on sensory organ/nerve formation. A few terms about immune defense and ribosome maturation appear as outliers and may reflect broad housekeeping or annotation noise rather than core cluster function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0000462","count":2},{"id":"GO:0032689","count":2},{"id":"GO:0060117","count":2}]},{"hash":"1818465770671211300","title":"MAPK/TGF-\u03b2 signaling in development","description":"Explanation: The terms cluster around broad developmental processes (multicellular development, angiogenesis, axonogenesis, muscle and lung differentiation) and key signaling pathways (ERK/MAPK cascade and TGF-\u03b2 signaling), suggesting proteins in this group function in developmentally driven signal transduction across tissues.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010923","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0010801","count":2},{"id":"GO:0000187","count":2}]},{"hash":"884817340902808376","title":"Neural development and inflammatory signaling","description":"The terms show a clear emphasis on nervous system development and synapse-related processes (synapse assembly, axon guidance, nervous system development) alongside immune/inflammatory pathways (inflammatory response, TNF production, complement activation, NF-kappaB signaling). The presence of collagen fibril organization and cellular response to mechanical stimulus suggests extracellular matrix remodeling and mechanotransduction relevant to developing neural tissue. Overall, the cluster seems to reflect neural development with concurrent inflammatory signaling and ECM dynamics.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0042346","count":3}]},{"hash":"362881529682626682","title":"Neuronal excitability and synaptic signaling","description":"This cluster is dominated by GO terms for excitatory postsynaptic potential, sodium/potassium/calcium ion transport, GABA signaling, and behavioral processes (startle, locomotion, noise perception, circadian sleep regulation). Together they point to proteins involved in neuronal signaling and ion-channel\u2013driven excitability that underpins synaptic transmission and related behaviors.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":14},{"id":"GO:0035725","count":14},{"id":"GO:0071805","count":14},{"id":"GO:0045188","count":13},{"id":"GO:0098703","count":13}]},{"hash":"824782178621763594","title":"Immune signaling and raft-associated trafficking","description":"The top GO terms are dominated by immune-related pathways: regulation of T cell antigen processing and presentation, T cell receptor signaling, and Toll-like receptor 3 signaling. These are complemented by terms on membrane raft assembly and protein transport into membrane rafts, plus microtubule-based movement and regulation of GTPase activity, indicating coordinated intracellular trafficking and cytoskeletal dynamics. Aggresome assembly also points to protein quality control linked to cellular stress responses, which can intersect immune signaling. A few terms related to nervous system development appear but are less represented, suggesting the core function is immune signaling with raft-associated trafficking rather than neuronal processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043087","count":2},{"id":"GO:0007018","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0070842","count":2},{"id":"GO:0032596","count":1}]},{"hash":"85531786929098516","title":"Rho GTPase Signaling Cluster","description":"The dominant GO terms are Rho protein signal transduction and regulation of Rho signaling, pointing to a core Rho GTPase\u2013driven signaling cluster. Co-occurring terms reference muscle development and nerve-related processes (skeletal muscle fiber development, axonogenesis) and even B cell receptor signaling, suggesting broader signaling roles linked through Rho pathways. Overall, the label captures the central theme, with some functional diversity among the proteins.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0019933","count":2},{"id":"GO:0014898","count":2}]},{"hash":"2164390473455302045","title":"Diverse Substrate Membrane Transporters","description":"The cluster is dominated by multiple transmembrane transport GO terms across a variety of substrates (nitrate, arabinose, fucose, sialic acid, xenobiotics, sodium ions) and a transporter-related function for neurotransmitter loading, indicating proteins that broadly mediate membrane transport of diverse metabolites.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0015751","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0006004","count":3},{"id":"GO:0015739","count":3}]},{"hash":"2175498861198722895","title":"Diverse metabolism and substrate transport","description":"The cluster\u2019s GO terms cover multiple metabolic processes (vitamin A/retinol metabolism, insulin processing, visual perception, fucose metabolism) and several substrate transport activities (arabinose, sialic acid, 4-hydroxyphenylacetate, nitrate assimilation). This suggests proteins involved in handling and transforming a variety of nutrients rather than a single cohesive pathway, supporting a label of diverse metabolism and substrate transport. ","confidence":"Low","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006776","count":2},{"id":"GO:0042572","count":2},{"id":"GO:0030070","count":2},{"id":"GO:0042730","count":2},{"id":"GO:0007601","count":2}]},{"hash":"365870964574706679","title":"Unknown","description":"The GO terms include male gonad development, ER stress\u2013induced apoptosis, mitotic spindle assembly, Wnt signaling regulation, auditory perception, transcription, receptor clustering, extracellular matrix organization, protein transport into membrane rafts, and T cell antigen processing. These terms are from disparate biological areas with no clear single functional theme, so a concise cluster label cannot be confidently assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0030111","count":2},{"id":"GO:0007605","count":2}]},{"hash":"1198501525298152618","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006189","count":3},{"id":"GO:0006541","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0006223","count":2},{"id":"GO:0006098","count":2}]},{"hash":"575281572929949558","title":"Plant photorespiration and related metabolism","description":"The cluster's top GO terms concentrate on plant carbon metabolism, especially photorespiration and related pathways (photorespiration, oxidative photosynthetic carbon pathway, glycolate catabolism), with supporting signals from amino acid and isoprenoid biosynthesis, suggesting a plant-centric metabolic program linked to photosynthetic carbon processing.","confidence":"High","size":18,"edges":11,"triangles":5,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0008299","count":10},{"id":"GO:0018924","count":10},{"id":"GO:0001561","count":10},{"id":"GO:0046296","count":10},{"id":"GO:0055114","count":10}]},{"hash":"1027334825595913339","title":"Cardiac and vascular morphogenesis","description":"This cluster is dominated by GO terms related to heart development and cardiovascular formation, including coronary artery morphogenesis, endocardium morphogenesis, arterial endothelial differentiation, aortic valve morphogenesis, and cardiac vascular smooth muscle development. While a couple terms touch on broader regulatory processes, the core signal is heart and blood vessel morphogenesis. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060982","count":17},{"id":"GO:0072602","count":16},{"id":"GO:0009912","count":16},{"id":"GO:0060842","count":16},{"id":"GO:0003180","count":16}]},{"hash":"2194435670988168653","title":"Calcium-Driven Vesicle Trafficking","description":"The terms cluster around calcium-regulated processes and vesicle dynamics: calcium ion transport and cellular response to calcium ion highlight calcium signaling, while regulation of synaptic vesicle endocytosis and platelet degranulation point to vesicle trafficking and secretion. Developmental terms and protein processing annotations are present but secondary, suggesting proteins involved in Ca2+-dependent membrane trafficking across tissues. Confidence: Medium","confidence":"","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006470","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0070588","count":3},{"id":"GO:0071277","count":3},{"id":"GO:0019800","count":3}]},{"hash":"646804983553633707","title":"RNA Methylation and Ribosome Biogenesis","description":"This cluster is dominated by GO terms related to RNA modification and processing, including RNA (guanine-N7)-methylation, 7-methylguanosine mRNA capping, rRNA methylation, and tRNA wobble uridine modification, as well as ribosomal small subunit export from the nucleus, all of which point to RNA maturation and ribosome assembly activities. While a couple of terms (nodulation, cobalamin biosynthesis) seem less connected and may reflect annotation noise or cross-species effects, the core themes consistently center on RNA modification and ribosome biogenesis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":16},{"id":"GO:0006370","count":16},{"id":"GO:0043985","count":14},{"id":"GO:0009236","count":14},{"id":"GO:0002098","count":14}]},{"hash":"845826781800043806","title":"Glycosaminoglycan proteoglycan biosynthesis and ECM development","description":"The top GO terms cluster around biosynthesis/metabolism of glycosaminoglycan proteoglycans (heparan sulfate, chondroitin/dermatan sulfate) and related proteoglycans, with additional development terms (chondrocyte development, eye morphogenesis, ureteric bud formation) reflecting proteoglycans\u2019 roles in extracellular matrix\u2013mediated morphogenesis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":2},{"id":"GO:0030206","count":2},{"id":"GO:0048593","count":2},{"id":"GO:0030208","count":1},{"id":"GO:0050655","count":1}]},{"hash":"155082771637756423","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":120,"triangles":388,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:1901289","count":1},{"id":"GO:0019427","count":1},{"id":"GO:0045733","count":1},{"id":"GO:0019679","count":1},{"id":"GO:0001680","count":1}]},{"hash":"369967133751853557","title":"Integrin signaling and ECM remodeling in development and immunity","description":"Based on the top GO terms, the cluster centers on integrin-mediated signaling, hyaluronan metabolism, and regulation of metallopeptidases, all pointing to extracellular matrix (ECM) interactions and remodeling. Additional terms like T cell activation, substrate-dependent cell migration, and chondrocyte morphogenesis suggest processes where cell adhesion to and movement through the ECM are key, including immune cell trafficking and tissue development. Some terms (e.g., stamen formation) may reflect cross-kingdom annotations or noise, but the dominant signal is ECM adhesion/remodeling and related signaling in development and immunity.","confidence":"Medium","size":18,"edges":73,"triangles":108,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":14},{"id":"GO:0030212","count":14},{"id":"GO:1905050","count":13},{"id":"GO:0002291","count":12},{"id":"GO:0006929","count":11}]},{"hash":"1008996146791845299","title":"Developmental Regulation of Cell Cycle and Telomeres","description":"This cluster groups proteins linked to broad developmental processes (multicellular organism development, forebrain development, fat cell differentiation) with core cell cycle and telomere maintenance activities (mitotic cell cycle, telomere capping/maintenance, regulation of CDK activity) and RNA processing. The shared theme appears to be proteins involved in developmental differentiation that also coordinate genome stability and cell division. Inference is thus that this cluster represents development-related regulation intertwined with cell cycle and telomere biology.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:0030900","count":7},{"id":"GO:0000278","count":7},{"id":"GO:1904355","count":6},{"id":"GO:0035994","count":6}]},{"hash":"87442911139491622","title":"Cardiac and Neural Ion Channel Regulation","description":"Top GO terms center on ion channel clustering, calcium transport, and signaling relevant to heart development, blood vessel morphogenesis, and neuronal processes (memory and neurotransmitter secretion). This points to a group of proteins that regulate excitability and signaling in both cardiac and neural tissues, with hints of hypoxia response and apoptotic regulation. Therefore, a concise label capturing ion-channel\u2013driven signaling in heart and brain is appropriate.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007613","count":8},{"id":"GO:0038095","count":8},{"id":"GO:0007269","count":8},{"id":"GO:0032516","count":8},{"id":"GO:0071456","count":8}]},{"hash":"1094025377242264210","title":"Cerebellar neuron differentiation and synaptic signaling","description":"The top GO terms point to neuronal development and synaptic regulation (cerebellar granule cell differentiation, CNS development, regulation of synaptic plasticity by receptor localization to synapse, ephrin signaling), with supporting intracellular signaling and protein interaction terms, suggesting a cluster centered on neuronal differentiation and synaptic signaling rather than other processes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021707","count":3},{"id":"GO:1900383","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0010745","count":3},{"id":"GO:1901187","count":3}]},{"hash":"47753501592805480","title":"RNA processing and translation regulation","description":"This cluster combines spliceosome- and mRNA processing-related GO terms (splicing regulation, mRNA stabilization, mRNA modification) with translation-related terms (regulation of translational initiation, preinitiation complex formation, IRES-dependent initiation, miRNA-mediated silencing), indicating a shared involvement in RNA maturation and control of translation.","confidence":"High","size":18,"edges":144,"triangles":688,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":6},{"id":"GO:1903586","count":6},{"id":"GO:0048255","count":6},{"id":"GO:0035278","count":6},{"id":"GO:0075522","count":6}]},{"hash":"1922403933562255080","title":"Heart morphogenesis and vascular differentiation","description":"The top GO terms point to venous endothelial differentiation and cardiac right atrium morphogenesis, indicating cardiovascular development. Notch signaling involvement and its regulation during heart field cardioblast proliferation further support a heart-development theme, with mechanical stimulus response plausibly reflecting cardiac tissue mechanics. Some terms (vitamin D response, chemokine production) are peripheral but do not override the central cardiovascular signal.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060843","count":3},{"id":"GO:0003213","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0003270","count":3}]},{"hash":"1005885880116049070","title":"Neural and organ development with ER-stress\u2013induced apoptosis","description":"The cluster is strongly enriched for developmental processes (brain, forebrain, neural tube, kidney, multicellular organism development) and transcription-related terms, with supporting signals for JNK cascade regulation and ER-stress\u2013driven apoptotic pathways, suggesting a group of proteins involved in embryonic neural/organ development linked to stress-response signaling. Defense-related term is present but seems less central to the main theme of development, leaving embryogenesis and stress signaling as the core of the cluster\u2019s function.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0007275","count":6},{"id":"GO:0070059","count":6},{"id":"GO:0001822","count":6}]},{"hash":"2187034540726952247","title":"Vertebrate organogenesis and neurodevelopment","description":"This cluster centers on developmental processes across multiple tissues\u2014pituitary gland and pancreas development, inner ear morphogenesis, cortical regionalization and GABAergic interneuron differentiation\u2014along with general transcriptional machinery (RNA polymerase II). The diversity of organ-specific GO terms suggests proteins in this cluster participate in vertebrate organogenesis with a neurodevelopmental component.","confidence":"High","size":18,"edges":13,"triangles":2,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":6},{"id":"GO:0031018","count":6},{"id":"GO:0090190","count":6},{"id":"GO:0006366","count":6},{"id":"GO:0021796","count":5}]},{"hash":"1240261601474011923","title":"Calcium-Dependent Immune Signaling","description":"The proteins are enriched for calcium-related processes (calcium ion transport, ER calcium homeostasis, regulation of calcium-mediated signaling) and immune signaling pathways (Fc-epsilon receptor signaling, cytokine production like IL-6 and MCP-1). This points to a theme of calcium-regulated immune responses, despite a few terms that appear unrelated (thyroid metabolism, segmentation) which may reflect noise or misannotations. The combination of calcium signaling and immune modulation suggests a cohesive, specific function cluster around calcium-dependent immune signaling.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006816","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0038095","count":2},{"id":"GO:0042403","count":2},{"id":"GO:0002230","count":1}]},{"hash":"1618846265147078498","title":"TLR Signaling and Inflammatory Response","description":"Proteins in this cluster strongly associate with Toll-like receptor pathways (TLR2, TLR3, TLR9), responses to lipopolysaccharide, NF-kB activation, and inflammatory/antiviral defense including interferon production. The dominant GO terms point to innate immune sensing and downstream inflammatory signaling, with a minor note toward cellular responses to mechanical stimuli, but the core theme is TLR-driven inflammation. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0034134","count":4},{"id":"GO:0034162","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0034138","count":4},{"id":"GO:0043123","count":4}]},{"hash":"1250316760703923719","title":"Neural differentiation and transcriptional regulation","description":"The cluster combines terms for DNA-templated transcription and RNA polymerase II\u2013mediated transcription with multiple neural development and cell fate terms (cerebral cortex GABAergic interneuron differentiation, spinal cord motor neuron fate specification, subpallium neuron fate commitment, spinal cord oligodendrocyte fate specification) and circadian regulation of gene expression, suggesting a cohesive module where transcriptional control governs neural development and timing.","confidence":"Medium","size":18,"edges":141,"triangles":643,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:0006366","count":8},{"id":"GO:0021892","count":6},{"id":"GO:0021520","count":6},{"id":"GO:0032922","count":6}]},{"hash":"1434378685253032656","title":"Unknown","description":"The cluster\u2019s GO terms are diverse: some relate to plant light signaling (regulation of photomorphogenesis, response to blue light), but others point to general cellular processes (RNA splicing, transcriptional regulation, ribosome export, and mitochondrial electron transport). There isn't a single clear functional theme tying all proteins together, so a concise, specific label cannot be confidently assigned beyond Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010099","count":1},{"id":"GO:0080022","count":1},{"id":"GO:1904667","count":1},{"id":"GO:0055121","count":1},{"id":"GO:0032298","count":1}]},{"hash":"2192951225137135391","title":"Spermatogenesis Epigenetic Regulation","description":"The dominant GO terms point to epigenetic control of gene expression, including transcription regulation, chromatin remodeling, and various histone modifications, plus imprinting. Contextual terms like Sertoli cell barrier establishment and sperm-related processes (capacitation) suggest a testis/spermatogenesis focus, with some transporter terms possibly reflecting metabolic needs in this tissue.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0036124","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0097368","count":2},{"id":"GO:0034773","count":2}]},{"hash":"1542198651730687233","title":"Calcium-Dependent Neuronal Signaling","description":"The top GO terms point to calcium-driven processes in neural contexts: calcium ion transport and cellular response, regulation of presynaptic calcium, synaptic vesicle endocytosis, short-term memory, and calcineurin-NFAT signaling. Retina development aligns with neural tissue development, while other terms may reflect broader calcium roles in development and cell division. Taken together, the cluster appears to group proteins involved in calcium-dependent neuronal signaling and synaptic function.","confidence":"Medium","size":18,"edges":8,"triangles":3,"max_degree":4,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0010842","count":12},{"id":"GO:1900242","count":11},{"id":"GO:0070588","count":6},{"id":"GO:0071277","count":6},{"id":"GO:0072286","count":6}]},{"hash":"1627422594078937750","title":"Neural development and synapse assembly","description":"The cluster is dominated by GO terms related to nervous system development and synapse assembly (positive regulation of synapse assembly, nervous system development), with supporting terms like cell migration and mRNA processing that fit neuronal biology. A few terms (telomere maintenance, fat cell differentiation, B cell signaling) appear more tangential, suggesting some functional pleiotropy, but the strongest signal centers on neural development and synaptic organization.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0006397","count":6},{"id":"GO:0045444","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0016477","count":6}]},{"hash":"2070896726495864685","title":"Unknown","description":"The Top Terms span mRNA processing, differentiation, immune signaling, migration, development, centrosome cycle, and telomere regulation, with no single functional theme dominating. This heterogeneity suggests no cohesive cluster-level function beyond a broad, multi-function protein set.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":4},{"id":"GO:0045444","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1067281551609195168","title":"Phototransduction and Sensory Signaling","description":"The top GO terms are dominated by phototransduction, regulation of opsin-mediated signaling, and sensory perception (including touch), pointing to a common theme of sensory signal transduction, especially light-based signaling in photoreceptors. Other terms (nuclear import, vacuole fusion, morphogenesis, apoptosis, GTPase regulation) appear peripheral, suggesting some broader cellular roles among the cluster proteins but not overriding the sensory signaling theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0042144","count":2},{"id":"GO:0010172","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0006607","count":2}]},{"hash":"126185615531598324","title":"Immune signaling (innate and adaptive)","description":"This cluster centers on immune-related signaling and inflammatory responses, including innate immunity, T cell receptor signaling, antiviral defense, and NF-kB\u2013related regulation and cytokine production (IL-8). Cytoskeletal remodeling and cell migration terms suggest immune cell movement, reinforcing a cohesive immune signaling module; peripheral terms like insulin signaling and an obsolete term are less central. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0008286","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0000147","count":3}]},{"hash":"565198154553945275","title":"Developmental Signaling and Cell Polarity","description":"Top GO terms indicate involvement in multiple signaling pathways (JAK activation, integrin signaling), cell fate and development processes (EMT, axis specification, B cell differentiation), and cellular localization/polarity (apical localization, paranode axon). The convergence on signaling and polarity across diverse contexts suggests a broad cluster of proteins coordinating development-related signaling and cellular organization, rather than a single specific function. The absence of edges supports a more diffuse association. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":3},{"id":"GO:0002315","count":3},{"id":"GO:0045176","count":3},{"id":"GO:0010718","count":2},{"id":"GO:0070986","count":2}]},{"hash":"1260021771448695078","title":"Unknown","description":"The top GO terms span diverse processes: GPCR acetylcholine receptor signaling, spermatogenesis and male gonad development, platelet activation, endothelial barrier establishment, bone development, and ubiquitination. The cluster lacks a single coherent biological theme or tightly linked function, suggesting no clear common function tying all proteins together.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007213","count":3},{"id":"GO:0061000","count":3},{"id":"GO:0007283","count":3},{"id":"GO:0008584","count":3},{"id":"GO:2000340","count":2}]},{"hash":"1571348670003515440","title":"Mitochondrial RNA processing and genome maintenance","description":"The cluster is enriched for RNA processing, tRNA modification, RNA and DNA repair, translation, and mitochondrial activities (electron transport and membrane permeability regulation), pointing to proteins coordinating mitochondrial gene expression with genome maintenance.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006281","count":3},{"id":"GO:0006123","count":3},{"id":"GO:0006307","count":2},{"id":"GO:0035552","count":2}]},{"hash":"528232951793129425","title":"Female reproductive system development","description":"The top GO terms are dominated by female reproductive organ development (female gonad, uterus, and female genitalia), with related structures like ureter and pituitary gland also appearing, indicating a cluster centered on reproductive organogenesis; a few metabolic/development terms are present but do not override the reproductive signal.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":6},{"id":"GO:0060065","count":6},{"id":"GO:0048565","count":5},{"id":"GO:0019383","count":4},{"id":"GO:0030540","count":4}]},{"hash":"1980629457112437690","title":"Integrin signaling and immune adhesion","description":"This cluster is dominated by GO terms for integrin-mediated signaling, cell adhesion, leukocyte tethering/rolling, platelet activation, and collagen fibril organization, pointing to a core theme of cell\u2013matrix adhesion coupled with immune activation and ECM remodeling. Complement activation pathways (classical and lectin) and response to fungi further support an immune-ECM interaction context. The vocalization behavior term is an outlier, but the majority of terms converge on adhesion and immune-related processes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007229","count":10},{"id":"GO:0071226","count":9},{"id":"GO:0001558","count":8},{"id":"GO:0006958","count":7},{"id":"GO:0030199","count":7}]},{"hash":"573697389191130493","title":"Nuclear gene expression and chromatin modification","description":"Proteins in this cluster are enriched for nuclear processes: DNA-templated transcription, mRNA splicing via spliceosome, and histone methylation (H3K9, H3K36). Additional terms point to ribosomal large subunit export from the nucleus and regulatory roles in the cell cycle and development (placenta morphogenesis, cardiac proliferation, extrathymic T cell differentiation). Taken together, the cluster appears to reflect nuclear gene expression control and epigenetic regulation, with links to development and differentiation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000398","count":4},{"id":"GO:2000134","count":3},{"id":"GO:0051567","count":3},{"id":"GO:0000055","count":3}]},{"hash":"464967059966927700","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043507","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0045453","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000472","count":2}]},{"hash":"257776944498589662","title":"Endosome-Lysosome Vesicle Trafficking","description":"The top GO terms cluster around endosome and lysosome organization and transport, alongside intra-Golgi vesicle transport and autophagy-related Cvt targeting, indicating a cohesive endomembrane trafficking module. Some terms (pollen tube growth, muramyl dipeptide response) may be incidental or cross-species noise, but the core signal points to vesicle trafficking among Golgi, endosomes, and lysosomes.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071225","count":2},{"id":"GO:0032147","count":2},{"id":"GO:0007040","count":1},{"id":"GO:0007032","count":1},{"id":"GO:0045022","count":1}]},{"hash":"956859085926444749","title":"Cell-cycle and transcription regulation","description":"The proteins are enriched for cell cycle and spindle assembly terms (GO:0007049, GO:0051225) and transcription regulation (GO:0000122), plus a note on protein ubiquitination regulation (GO:1902499). This combination points to roles in mitotic progression and gene expression control, rather than a single narrowly defined pathway. Some terms (e.g., bristle orientation, trophectoderm proliferation) seem incidental to the core cell-cycle/transcription themes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902499","count":2},{"id":"GO:0010216","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0048106","count":2}]},{"hash":"1184151410429285560","title":"GPCR-cAMP Signaling and Physiological Regulation","description":"The dominant GO terms point to G protein-coupled receptor signaling that modulates adenylate cyclase and downstream cAMP, linked to physiological outputs like blood pressure, heat generation, dopaminergic synaptic transmission, T cell chemotaxis, gastric acid secretion, and reproduction. The electron transport chain term is less central. Overall, the cluster centers on GPCR-mediated signaling with broad physiological roles.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":18},{"id":"GO:0045777","count":18},{"id":"GO:0022900","count":18},{"id":"GO:0007190","count":17},{"id":"GO:0010818","count":16}]},{"hash":"810092944879239127","title":"Embryonic Organogenesis and Placental Development","description":"This cluster shows enrichment for terms related to embryonic development and morphogenesis, including placental differentiation, endocrine system development, left/right pattern formation, cartilage morphogenesis, and heart-associated epithelial-to-mesenchymal transitions. The convergence on differentiation and tissue formation across multiple lineages suggests a cohesive theme of early organogenesis rather than a single tissue process.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060536","count":3}]},{"hash":"388470786112042231","title":"Neural development and visual system signaling","description":"Top terms point to cortical layer formation and retina/vision functions, alongside signaling and protein modulation (Rho signaling, intracellular signaling, ubiquitination). This suggests a broad theme of nervous system development and visual system maintenance, though the lack of edges implies loose connections among the proteins rather than a tight, single-pathway module.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032715","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0021819","count":2},{"id":"GO:0048265","count":2},{"id":"GO:0016567","count":2}]},{"hash":"1014687017148516727","title":"Regulation of signaling and transcription","description":"The top GO terms emphasize regulatory roles in signaling (positive regulation of GTPase activity, response to cAMP, GPCR-related signaling) and transcription (positive regulation of RNA Pol II), with additional links to differentiation (lung epithelium) and cardiac contraction, as well as cytokinesis regulation. This suggests a cohesive theme of proteins that modulate signaling cascades and transcriptional outputs rather than performing a single enzymatic function. Confidence: Medium","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032465","count":2},{"id":"GO:0010923","count":2},{"id":"GO:0060487","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0045944","count":2}]},{"hash":"1510885301803059906","title":"NF-kappaB signaling and endothelial barrier regulation","description":"The cluster is enriched for both canonical and non-canonical NF-kappaB signaling terms, plus related pathways such as JNK signaling, TGF-beta response, and Rho signaling, as well as tight junction assembly and endothelial barrier establishment. This combination points to a cohesive role in inflammatory signaling and regulation of endothelial cell junctions/barrier integrity, possibly during development or response to stimuli.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0008285","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0035023","count":2}]},{"hash":"750421003509852304","title":"Adrenergic GPCR Signaling and Blood Pressure Regulation","description":"This cluster is dominated by GPCR signaling terms, especially those involving adrenergic receptors and adenylate cyclase activity, along with vascular regulation terms like norepinephrine-epinephrine\u2013mediated vasoconstriction and positive regulation of blood pressure. Dopaminergic synaptic transmission and other GPCR-mediated signaling terms reinforce a signaling-centric theme tied to neural and cardiovascular functions. Some terms also touch on energy metabolism and thermogenesis, suggesting a broader cellular signaling context that links neural signaling with metabolic state. Overall, a cohesive label is \u201cAdrenergic GPCR Signaling and Blood Pressure Regulation.\u201d","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0010818","count":5},{"id":"GO:0071881","count":5}]},{"hash":"974798865016818794","title":"Transmembrane Transporters for Sugars and Ions","description":"This cluster is dominated by GO terms related to membrane transport of small molecules and ions, especially glucose and related metabolites, along with transport of cations, nitrate, phosphate, and xenobiotics, and even vesicular loading of neurotransmitters. The recurring theme is transmembrane transport and substrate handling across membranes, suggesting a group of transporter proteins or channels.","confidence":"High","size":18,"edges":136,"triangles":570,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":18},{"id":"GO:0044381","count":18},{"id":"GO:0070715","count":18},{"id":"GO:0006855","count":18},{"id":"GO:0015706","count":18}]},{"hash":"482595000987565398","title":"Regulatory signaling and neuronal development","description":"This cluster shows enrichment for regulatory GO terms spanning signaling cascades (e.g., CAMKK-AMPK, Wnt signalosome), neural development (nerve branching morphogenesis, regulation of synaptic activity), and broad regulatory processes (ubiquitination, phosphorylation-linked regulation, redox-related regulation). The common thread is involvement in regulation of signaling and development rather than a single, cohesive pathway, justifying a label focused on regulatory signaling and neural development.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905289","count":5},{"id":"GO:1904887","count":5},{"id":"GO:0071287","count":5},{"id":"GO:0035564","count":5},{"id":"GO:0035751","count":5}]},{"hash":"1197724720564670148","title":"Rho and Wnt Signaling in Development","description":"This cluster is dominated by GO terms tied to developmental signaling and cytoskeletal regulation, notably regulation of Rho protein signal transduction, Wnt signaling, and establishment of epithelial polarity, along with associated processes like cell migration and heart development. These together point to a coherent theme of signaling pathways guiding development and morphogenesis, underpinned by Rho and Wnt dynamics. Some terms like sensory perception of sound or insecticide response may be noise or broader associations, but the core cluster appears to reflect developmental signaling and polarity. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0007205","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0098703","count":2}]},{"hash":"1329643562623084064","title":"Host-Pathogen Interaction and Organ Development","description":"The GO terms show a mix of host-pathogen interaction signals (symbiont entry into host cell, viral penetration into host nucleus, proviral latency, host apoptosis activation) and organ/tissue development signals (glomerular basement membrane development, metanephric ascending limb development), along with an immune activity term (complement activation via lectin pathway) and general proteolysis. This blend suggests no single, cohesive function, but a theme around how hosts interact with pathogens/symbionts while also featuring developmental processes, particularly kidney-related development. Confidence: Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":2},{"id":"GO:0032836","count":2},{"id":"GO:0072218","count":2},{"id":"GO:1901492","count":2},{"id":"GO:0006508","count":1}]},{"hash":"2262578106861505275","title":"TLR-MyD88 Innate Immune Signaling","description":"The cluster is centered on Toll-like receptor pathways (TLR9 signaling, MyD88-dependent TLR signaling) and innate inflammatory responses, with supporting evidence from actin cytoskeleton remodeling and exocytosis, which are typical for activated innate immune cells coordinating cytokine secretion and defense against bacteria. This combination best captures the shared function of the proteins in this set.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006954","count":2},{"id":"GO:0051639","count":2},{"id":"GO:0006887","count":2},{"id":"GO:2000009","count":2},{"id":"GO:0035023","count":2}]},{"hash":"1117930349698052772","title":"Innate Antiviral Signaling and Inflammasome Regulation","description":"These proteins cluster around innate antiviral defense: RIG-I signaling, virus defense, and inflammasome regulation. The prominent terms\u2014defense response to virus, positive regulation of RIG-I signaling, and negative regulation of NLRP3 inflammasome assembly\u2014point to antiviral sensing and inflammatory control, with additional support from innate immune response and LPS signaling terms. A few outliers (e.g., placental morphogenesis) appear as noise.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051725","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0031664","count":2},{"id":"GO:0070842","count":2}]},{"hash":"1892026241618446877","title":"Metabolic Biosynthesis and Redox Processes","description":"This cluster groups proteins involved in a range of biosynthetic and redox-related pathways, including fatty acid, fructose, retinol, and ethanol metabolism, as well as antibiotic biosynthesis and methionine salvage, plus transcription-related activity and a lipopolysaccharide response. The unifying theme is broad metabolism and redox biology, with some ancillary roles in gene expression and stress response, making \"Metabolic Biosynthesis and Redox Processes\" a concise, representative label. ","confidence":"Medium","size":17,"edges":134,"triangles":650,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0042572","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0046370","count":4}]},{"hash":"1904611549338147995","title":"Rho Signaling and Vascular Permeability","description":"The top GO terms are dominated by Rho protein signal transduction (GO:0007266) and regulation of vascular permeability (GO:0043114), including positive regulation of Rho signaling (GO:0035025). This suggests a core theme around Rho-mediated cytoskeletal dynamics and signaling that can influence endothelial or vascular-related processes. Other terms present, such as mitotic spindle assembly and fat cell differentiation, may reflect broader or contextual roles or annotation noise, but the recurring Rho-related signals provide a cohesive functional thread. Therefore, the cluster is best described by a Rho signaling\u2013centric function with implications for vascular permeability.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045600","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0015015","count":3},{"id":"GO:0030206","count":3},{"id":"GO:0007266","count":2}]},{"hash":"1506329522115817543","title":"Apoptosis and RNA processing","description":"The top GO terms show clear signals for apoptotic processes (apoptotic process; regulation of mitochondrial membrane permeability involved in apoptotic process), suggesting a role in programmed cell death. There are also several RNA-centric terms (ribosome biogenesis, ribosomal large subunit biogenesis, mRNA splicing) and cell-cycle related terms, indicating involvement in essential RNA metabolism and cell maintenance. This combination points to a cluster that bridges apoptosis with core RNA/protein synthesis and processing pathways, hence the label. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0046011","count":2},{"id":"GO:0007427","count":2},{"id":"GO:1902108","count":2}]},{"hash":"1165005741341874960","title":"Integrin signaling and ECM remodeling with innate immunity","description":"This cluster centers on integrin-mediated signaling and extracellular matrix dynamics, with multiple GO terms referencing cell adhesion, migration, cartilage development, hyaluronan metabolism, and matrix metallopeptidase activity. It also includes innate immune-related terms (complement activation via lectin pathway and cellular response to fungal origin) and processes tied to tissue remodeling and wound repair (blood coagulation, dendrite remodeling). Taken together, the proteins likely participate in coordinated adhesion signaling, ECM remodeling, and innate immune responses during development or tissue maintenance. ","confidence":"Medium","size":17,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":6},{"id":"GO:0071226","count":6},{"id":"GO:0001502","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0006929","count":4}]},{"hash":"2171938056623077216","title":"Visual signal transduction and GPCR signaling","description":"This cluster is dominated by GO terms tied to vision and opsin-mediated signaling (visual perception, regulation of opsin signaling), and extends to GPCR-driven pathways such as adenylate cyclase activation, calcium release, and ERK/MAPK signaling, plus drug response terms (amphetamine, morphine) and GTPase regulation. While blood coagulation appears among terms, the strongest common theme is sensory/neuronal signal transduction via GPCRs and downstream calcium/cAMP/MAPK signaling, including phototransduction components. This supports a cohesive label around visual GPCR signaling and associated intracellular cascades.","confidence":"Medium","size":17,"edges":19,"triangles":1,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0022400","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0051281","count":6},{"id":"GO:0007190","count":6}]},{"hash":"1997126701231071635","title":"DNA replication and repair, genome maintenance","description":"This cluster is dominated by GO terms tied to DNA replication, base-excision repair, recombination, and chromatid cohesion, plus processes like RNA primer removal and resolution of recombination intermediates, which together reflect genome maintenance and replication fidelity. The presence of somatic hypermutation-related term and trinucleotide repeat maintenance fits within mutation/repair contexts, reinforcing a cohesive theme around genome integrity.","confidence":"High","size":17,"edges":55,"triangles":62,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006284","count":4},{"id":"GO:0016446","count":3},{"id":"GO:0006286","count":3},{"id":"GO:0035753","count":2}]},{"hash":"41885491205542180","title":"Broad Developmental and Differentiation","description":"The top GO terms span diverse developmental processes across multiple tissues (central nervous system development, dopaminergic synaptic transmission, fat cell differentiation, spermatid development, angiogenesis) and include general gene expression/ regulation aspects (mRNA processing, DNA replication, JUN phosphorylation, cell migration). This suggests a broad, non-specific developmental and transcription-regulation theme rather than a single cohesive pathway, so a high-level label about development and differentiation is appropriate but with moderate confidence due to the lack of a single dominant function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":3},{"id":"GO:0001963","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0007286","count":2}]},{"hash":"1509717127039154600","title":"Calcium-Dependent Synaptic Signaling and Memory","description":"This cluster is dominated by GO terms tied to calcium ion transport and signaling (calcium transmembrane transport, cellular response to calcium, regulation of presynaptic calcium), synaptic vesicle endocytosis, and calcium-dependent pathways (calcineurin-NFAT signaling), all of which are central to synaptic transmission and short-term memory formation. Some terms about retina development or kidney tubule development appear as broader developmental annotations, but the core signal reflects calcium-regulated neuronal/synaptic processes.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010842","count":15},{"id":"GO:0070588","count":14},{"id":"GO:0071277","count":14},{"id":"GO:0072286","count":14},{"id":"GO:1900242","count":14}]},{"hash":"1140429556259909557","title":"Ubiquitin-Dependent Proteolysis and Cell Cycle","description":"The cluster is dominated by ubiquitin-related pathways (ERAD, SCF-dependent degradation, autoubiquitination, K11-linked ubiquitination) and protein neddylation, pointing to proteasomal turnover as a central theme. It also includes mitotic cell cycle steps (G2/M) and DNA damage response (global genome nucleotide-excision repair), suggesting coordinated regulation of protein degradation with cell cycle progression and repair.","confidence":"High","size":17,"edges":134,"triangles":651,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030433","count":14},{"id":"GO:0070911","count":14},{"id":"GO:0051865","count":14},{"id":"GO:0031146","count":14},{"id":"GO:0070979","count":14}]},{"hash":"1130659747901631142","title":"RNA Processing and Ribosome Biogenesis","description":"The cluster is dominated by GO terms for spliceosome-mediated mRNA splicing, rRNA maturation, and ribosomal subunit biogenesis, plus RNA surveillance pathways, pointing to a nucleolar RNA-processing and ribosome assembly module. This combination suggests a cohesive function in RNA maturation and ribosome production.","confidence":"High","size":17,"edges":79,"triangles":178,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0000398","count":5},{"id":"GO:1902626","count":5},{"id":"GO:0000463","count":5}]},{"hash":"1709187303953034265","title":"TLR-Driven Innate Immune Signaling","description":"This cluster is dominated by GO terms for Toll-like receptor signaling (TLR9, MyD88-dependent and -independent), I\u03baB phosphorylation, and inflammatory cytokine production (IL-8, type III interferons), indicating innate immune activation and NF-\u03baB pathway regulation. Ubiquitination enrichment supports signaling regulation, and the mechanical stimulus term appears less central. Overall, the pattern points to TLR-mediated inflammatory signaling.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:0016567","count":4},{"id":"GO:0034162","count":3},{"id":"GO:0002755","count":3},{"id":"GO:0007252","count":3}]},{"hash":"1702489509033000730","title":"Developmental signaling and cell cycle regulation","description":"The GO terms cluster around embryonic and organ development (in utero embryonic development; multicellular organism development; metanephric collecting duct development) alongside cell-cycle and signaling-related processes (mitotic cell cycle; positive regulation of GTPase activity; positive regulation of protein serine/threonine kinase activity; protein autophosphorylation), with additional themes like mRNA transport and cellular response to hypoxia. This suggests a cohesive theme of developmental programs governed by signaling and regulatory mechanisms, even though the proteins may not form a tightly connected network in this dataset.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042994","count":4},{"id":"GO:0072205","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0001701","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1689370557845233654","title":"Eye and lung development regulators","description":"This cluster is enriched in terms tied to organogenesis of the eye (retina development, camera-type eye development, embryonic eye morphogenesis) and lung morphogenesis (epithelial tube branching involved in lung morphogenesis). The presence of transcription-related terms (transcription by RNA polymerase II, DNA-templated transcription, negative regulation of transcription) suggests these proteins include transcription factors or regulators coordinating these developmental programs. A minor term like osteoblast development and xenobiotic response may reflect broader regulatory roles, but the dominant signal is ocular and pulmonary development.","confidence":"Medium","size":17,"edges":99,"triangles":273,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002076","count":8},{"id":"GO:0060041","count":7},{"id":"GO:0002087","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0006366","count":5}]},{"hash":"1412271679885360760","title":"Neuroimmune signaling and synaptic plasticity","description":"The top GO terms combine innate immune response and T cell receptor signaling with neuronal development and synaptic plasticity, suggesting these proteins participate in immune signaling that also modulates neuronal signaling and development via shared pathways like ERK and PI3K. This indicates a cross-talk between immune and neural processes rather than a single tissue-specific function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0051092","count":6},{"id":"GO:2001238","count":5},{"id":"GO:0048169","count":5},{"id":"GO:0014068","count":5}]},{"hash":"1216440658872764681","title":"Nuclear Transport and TORC1 Signaling","description":"The top GO terms are heavily dominated by nucleocytoplasmic transport: ribosomal subunit export (small and large), import of hnRNP and transcription factors into the nucleus, and tRNA transport, pointing to a coherent theme of nuclear-cytoplasmic trafficking. The presence of TORC1 signaling and GTPase regulation terms suggests signaling pathways coordinating transport with growth, while other terms like xenobiotic response and cell division add context but do not override the core transport theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000056","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0006609","count":3},{"id":"GO:0042493","count":3}]},{"hash":"351730499218724506","title":"Immune signaling and apoptosis regulation","description":"The top GO terms point to immune-related signaling (ERK cascade regulation, IL-12 response, B cell differentiation, TGF-beta and dexamethasone responses) together with apoptosis processes (mitochondrial membrane permeability regulation, execution phase, developmental apoptotic processes). This pattern suggests proteins in this cluster coordinate immune signaling with programmed cell death, with a minor nod to neuronal guidance signals. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0045577","count":3},{"id":"GO:0070671","count":2},{"id":"GO:1902109","count":2},{"id":"GO:0097194","count":2}]},{"hash":"1922961061443025552","title":"Unknown","description":"The terms are highly diverse (axonogenesis, plant sugar catabolism, IL-4 response, ribosomal assembly, translation, calcium signaling, nephron development, transcription regulation, caffeine response) with no clear shared function and no network connectivity, so there isn\u2019t a coherent theme tying the proteins together.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":2},{"id":"GO:1902777","count":2},{"id":"GO:0071353","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0006412","count":1}]},{"hash":"667717410598424207","title":"DNA Replication and Repair Cluster","description":"The top GO terms are dominated by DNA replication (GO:0006260) and DNA repair (GO:0006281), with supporting signals from DNA-templated transcription (GO:0006351) and SOS response, pointing to a group of proteins involved in nuclear DNA maintenance, replication stress response, and transcription regulation. The presence of several obsolete terms likely reflects outdated annotations, but the core pattern supports a DNA replication/repair-focused cluster.","confidence":"High","size":17,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0030206","count":2},{"id":"GO:0006281","count":1},{"id":"GO:0019044","count":1},{"id":"GO:0000746","count":1}]},{"hash":"2212447572348086669","title":"Innate immune signaling and NF-kappaB regulation","description":"The cluster is enriched for innate immune pathways and inflammatory signaling: NOD1/2 signaling, positive regulation of canonical NF-kappaB, and chemokine production, with ubiquitination as a key regulatory mechanism. Vitamin D response and mechanotransduction terms may reflect broader cellular stress and contextual modulation, but the core theme centers on innate immune sensing and NF-kB\u2013driven responses. This supports a coherent label focused on innate immune signaling and NF-kappaB regulation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":8},{"id":"GO:0016567","count":6},{"id":"GO:0070427","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0070431","count":6}]},{"hash":"281692438716255749","title":"Cell adhesion and complement activation","description":"This cluster centers on adhesion-related processes (cell-matrix and cell-cell adhesion, leukocyte tethering/rolling) and robust involvement in complement activation across classical, lectin, and alternative pathways, suggesting a theme of adhesive immune interactions and complement-mediated responses. Additional terms (development, metabolism, platelet activation, thyroid hormone generation) are present but appear ancillary to the core adhesion/complement theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0007160","count":6},{"id":"GO:0007157","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0050901","count":5},{"id":"GO:0001867","count":5}]},{"hash":"1746704120682728712","title":"ER\u2013Golgi and Endosome Vesicle Trafficking","description":"This cluster is dominated by GO terms related to intracellular membrane transport among the ER, Golgi, and endosomes (ER\u2192Golgi, Golgi\u2192ER retrograde, endosome\u2192Golgi), plus Golgi localization and related vesicle budding/traffic. These terms point to a cohesive theme of vesicle trafficking within the secretory pathway and associated compartments, with some peripheral terms (pigmentation, virus response) likely reflecting broader cellular roles. Confidence: High","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":9},{"id":"GO:0006890","count":6},{"id":"GO:0043473","count":5},{"id":"GO:0042147","count":5},{"id":"GO:0043547","count":3}]},{"hash":"614639424593578083","title":"NF-kappaB\u2013driven immune signaling and autophagy","description":"These proteins are enriched for canonical and non-canonical NF-kappaB signaling, plus downstream immune-related processes (chemokine production, lymph node development), and pathways related to autophagy and cell survival (JNK regulation, necroptosis). Although a neuronal term appears, the dominant theme is NF-kappaB\u2013mediated immune signaling with related stress-response pathways, so the label captures the cluster\u2019s core function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043123","count":16},{"id":"GO:0048490","count":12},{"id":"GO:0072089","count":12},{"id":"GO:0006914","count":12},{"id":"GO:0009048","count":12}]},{"hash":"1077636319440228615","title":"RNA processing and translation regulation","description":"Most terms point to RNA metabolism and gene expression control (RNA capping, mRNA stability, translation initiation, and rRNA methylation), suggesting the cluster groups proteins involved in RNA processing/translation regulation. A few terms pertain to signaling or host-pathogen interactions (e.g., TGF-beta signaling, host-mediated viral genome activation) or plant immunity, which likely reflect broader multifunctionality or annotation noise in the dataset.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":2},{"id":"GO:0043525","count":2},{"id":"GO:2000809","count":2},{"id":"GO:0044829","count":1},{"id":"GO:0034052","count":1}]},{"hash":"1246814502799419166","title":"Transcriptional Regulation in Immune Cell Differentiation","description":"The cluster centers on transcription-related GO terms (DNA-templated transcription, RNA polymerase II\u2013mediated transcription) and immune cell development (hematopoietic stem cell proliferation, granulocyte differentiation, T cell differentiation in thymus), suggesting these proteins act as transcriptional regulators governing immune cell lineage decisions. Some signaling regulation terms (NF-kappaB, apoptotic signaling) align with immune signaling contexts, supporting a cohesive immune-differentiation transcription theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0010452","count":2},{"id":"GO:0045944","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0071425","count":1}]},{"hash":"845547417616198877","title":"Embryonic development and peptide hormone maturation","description":"This cluster centers on embryo development and patterning terms (anterior/posterior axis, kidney development) along with peptide hormone and neurotrophic maturation (insulin processing, nerve growth factor production, peptide pheromone maturation). While there are some lipid receptor-related terms, the strongest signal comes from developmental signaling and peptide hormone processing themes. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048671","count":3},{"id":"GO:0001822","count":3},{"id":"GO:1905596","count":2},{"id":"GO:0032805","count":2},{"id":"GO:0007354","count":2}]},{"hash":"255714040699065960","title":"Metanephric kidney development","description":"The strongest signals are metanephric collecting duct development and metanephric connecting tubule development, suggesting these proteins participate in nephron/renal tubule morphogenesis. Other terms point to broad regulatory and signaling roles (transcription factor activity regulation, protein kinase activity regulation, calcium/ xenobiotic responses), but the kidney development terms dominate, supporting a renal tubule development theme.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0072205","count":3},{"id":"GO:0042994","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0070588","count":2}]},{"hash":"406840598069569175","title":"Unknown","description":"The GO terms are highly diverse and span immune regulation (T cell homeostasis, calcineurin-NFAT signaling), vascular development (lymphangiogenesis), sensory perception (sound), various metabolic and cell-cycle processes (glycogen regulation, spindle-kinetochore attachment), lipid metabolism (lipid A biosynthesis, HMG-CoA-related activity), and metal ion response. There is no cohesive biological theme tying these terms together for this cluster, suggesting either a mixed set of functions or annotation noise. ","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043029","count":5},{"id":"GO:0007605","count":4},{"id":"GO:0001946","count":3},{"id":"GO:1900490","count":3},{"id":"GO:0051315","count":3}]},{"hash":"87441502473417819","title":"Embryonic development and organ morphogenesis","description":"The top terms cluster around broad developmental processes across multiple tissues and organs\u2014early embryogenesis (primitive streak formation), organ morphogenesis (eye development, pituitary development, lung morphogenesis), and lineage differentiation (PNS neuron development, granulocyte differentiation). This suggests proteins function in general developmental programs rather than a single pathway, justifying a label focused on embryonic development and morphogenesis.","confidence":"High","size":17,"edges":7,"triangles":2,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0090009","count":5},{"id":"GO:0048935","count":5}]},{"hash":"1487373488829778695","title":"Ubiquitin-dependent proteolysis and histone modification","description":"These proteins show strong enrichment for ubiquitin-related protein degradation (ubiquitin-dependent proteolysis, autoubiquitination, K6-linked ubiquitination) and chromatin-related processes (histone catabolic activity, histone ubiquitination). The inclusion of NF-kappaB signaling activation and V(D)J recombination suggests roles in immune signaling and chromatin remodeling driven by ubiquitination. Overall, the cluster centers on ubiquitin-mediated proteolysis and histone modification/dynamic chromatin regulation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0036205","count":11},{"id":"GO:1903265","count":11},{"id":"GO:0051865","count":11},{"id":"GO:0085020","count":11}]},{"hash":"1499765876594843717","title":"Plant glycan biosynthesis and epidermal development","description":"The Top Terms cluster around glycosylation and glycan biosynthesis (poly-N-acetyllactosamine, Lewis a epitope, O-linked glycosylation) together with epidermal development processes (root hair cell development, seed coat mucilage biosynthesis, maintenance of polarity). Although a few terms are outliers, the predominant theme links cell surface glycans to plant epidermal development, supporting this label. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0080147","count":2},{"id":"GO:0030311","count":2},{"id":"GO:0048354","count":2}]},{"hash":"502405930073581504","title":"Actin Cytoskeleton Signaling in Migration and Development","description":"The cluster is dominated by actin-related processes (actin filament bundle assembly, establishment of epithelial cell polarity, protein localization to actin cortical patch) and cell movement signals (cell migration, integrin-mediated signaling, endocytosis regulation), with additional enrichment in development and immune pathways (bone development, insulin receptor signaling, innate immune response, IL-4 production). This suggests a cytoskeleton-centered signaling network linking movement, polarity, and development with immune/metabolic cues.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051017","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0008286","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0060348","count":6}]},{"hash":"1065007757776929297","title":"Developmental Epigenetic Regulation and Myelination","description":"The terms cluster around epigenetic control (histone methylation and acetylation, DNA methylation-dependent heterochromatin) and developmental processes, notably myelination (galactosylceramide biosynthesis) and heart septum morphogenesis. This suggests a theme where chromatin-based transcriptional regulation guides neural development and myelin formation, with related developmental remodeling signals. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":1},{"id":"GO:0006682","count":1},{"id":"GO:0010452","count":1},{"id":"GO:0003149","count":1},{"id":"GO:0003289","count":1}]},{"hash":"1739718165560308386","title":"Nuclear Polyadenylation-Dependent RNA Decay","description":"Most terms point to nuclear RNA catabolic processes dependent on polyadenylation across multiple RNA types (mRNA, snoRNA, snRNA, rRNA, histone mRNA, and antisense transcripts), plus related RNA phosphodiester hydrolysis. This suggests a cohesive group of proteins involved in nuclear RNA surveillance and decay, with a single outlier term (neural tube development) not aligning with the core theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021915","count":2},{"id":"GO:0071042","count":2},{"id":"GO:0071036","count":2},{"id":"GO:0071039","count":2},{"id":"GO:0071044","count":2}]},{"hash":"1582387596299610971","title":"Unknown","description":"This cluster shows a mix of very diverse GO terms without a single clear theme: angiogenesis and T cell tolerance are immune/vascular, ionotropic glutamate signaling relates to neurons, while many terms relate to amino acid metabolism and cell wall processes in microbes. The lack of a unifying function and zero edges suggests the proteins do not share a common activity, so a coherent label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0016525","count":4},{"id":"GO:0002669","count":4},{"id":"GO:1900122","count":4},{"id":"GO:0035235","count":3},{"id":"GO:0006865","count":3}]},{"hash":"1358329864176807014","title":"Organelle trafficking and mitochondrial regulation","description":"The terms cluster around intracellular transport (Golgi to plasma membrane transport, lysosome organization) and mitochondrial regulation (mitochondrial membrane potential, cytochrome c release), with supporting notes on nutrient responses and choline transport; most terms suggest a theme of organelle trafficking and energy regulation, though one annotation (placenta development) seems unrelated and may be noise.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015871","count":1},{"id":"GO:0051452","count":1},{"id":"GO:1901352","count":1},{"id":"GO:0001892","count":1},{"id":"GO:0090201","count":1}]},{"hash":"448348109261024910","title":"Multiorgan Development and Immune Functions","description":"The top GO terms show development in several organs (pancreatic B cells, midbrain, inner ear, palate) along with immune/hemostatic terms (blood coagulation, classical complement activation, defense against fungus) and transcription regulation. This suggests the cluster comprises proteins involved in diverse developmental processes across multiple tissues, with ancillary immune-related functions, rather than a single cohesive pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0014068","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0006958","count":3}]},{"hash":"1371740043056615401","title":"Immune-Developmental Transcription Regulation","description":"The top GO terms point to immune context (peripheral T cell tolerance, thymocyte migration) and broad transcriptional control (negative regulation of transcription by RNA Pol II, chromatin regulation), with additional developmental processes (placenta morphogenesis, spermatid differentiation). This suggests a cluster of regulators involved in controlling gene expression across immune development and other developmental contexts, rather than a single narrow function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002458","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0061188","count":2},{"id":"GO:0045869","count":2},{"id":"GO:1904388","count":2}]},{"hash":"1676567753098848633","title":"Neural development and axon guidance with cell adhesion","description":"The top GO terms cluster around neural development and connectivity, with several entries on synapse assembly, motor neuron axon guidance, axonal fasciculation, and cell\u2013matrix/heterophilic adhesion, plus broader developmental terms. Immune-related terms appear less central, so the core theme is neural development and adhesion mechanisms guiding neural connectivity.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0007160","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0008045","count":4},{"id":"GO:0001501","count":4}]},{"hash":"13079054334937492","title":"Multisystem Development and Morphogenesis","description":"The top GO terms cluster around development and morphogenesis across tissues (multicellular organism development, eye morphogenesis, skeletal muscle fiber development, neuron axonogenesis, cardiac muscle regulation), with supporting cellular processes like microtubule organization and signaling. This points to a broad developmental theme rather than a single pathway, so a multisystem development label fits well.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0045618","count":2},{"id":"GO:2000811","count":2},{"id":"GO:0048936","count":2},{"id":"GO:0016330","count":2}]},{"hash":"1377654984199188245","title":"Unknown","description":"The top GO terms are highly diverse: pollen sperm cell differentiation, snoRNA processing, RNase MRP-dependent mRNA decay, chromosome condensation, intracellular protein transport, regulation of vesicle fusion, lens fiber morphogenesis, host-mediated activation of viral genome replication, and membrane trafficking. This spread does not reveal a single coherent function or pathway connecting all members, so a unified label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048235","count":1},{"id":"GO:0034965","count":1},{"id":"GO:0000294","count":1},{"id":"GO:0030261","count":1},{"id":"GO:0006886","count":1}]},{"hash":"1648395232733838589","title":"Kidney and vascular morphogenesis","description":"The top GO terms are dominated by metanephric kidney development (collecting duct, proximal/distal tubule morphogenesis) and vascular development (aorta, lymph vessel morphogenesis), suggesting proteins involved in organ morphogenesis, especially kidney and blood vessel formation. While a few terms touch regulatory processes, the prevailing theme is organ development. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072205","count":3},{"id":"GO:1903244","count":3},{"id":"GO:0042994","count":3},{"id":"GO:0050774","count":3},{"id":"GO:0036303","count":3}]},{"hash":"1459412543173226574","title":"Neuronal signaling and synaptic plasticity","description":"The top GO terms point to excitatory synaptic activity (EPSP), calcium and intracellular signaling, and neuron-specific processes such as cerebellar granule cell differentiation and long-term memory, all suggesting a cluster centered on neuronal communication and plasticity. Small GTPase signaling and regulation of broader cellular processes (e.g., protein export from nucleus) fit within neuromodulatory pathways, while heart rate regulation and amphetamine response hint at brain-related autonomic and dopaminergic signaling. Overall, the set is best described as neuronal signaling with synaptic plasticity features.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":3},{"id":"GO:0007264","count":2},{"id":"GO:0046827","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0002027","count":2}]},{"hash":"2103243325713019393","title":"Antiviral Innate Immune Response","description":"The top GO terms center on innate immunity and antiviral defense, including innate immune response, defense against virus, regulation of inflammasome activity (NLRP3), and NF-kB signaling regulation, suggesting this cluster represents antiviral innate immune functions. Some terms are obsolete or tangential, but the prevailing pattern supports an antiviral/innate immune theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":4},{"id":"GO:0061408","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0031664","count":3}]},{"hash":"430899365934501696","title":"Gene regulation and immune signaling","description":"The top GO terms cluster around regulation of gene expression (DNA-templated transcription, regulatory ncRNA-mediated post-transcriptional gene silencing) and immune/defense processes (innate immune response, NF-kappaB-related regulation, host-mediated defense). Ubiquitination terms (K63-linked ubiquitination, autoubiquitination) further tie signaling and transcription regulation together. While there are a few cytoskeleton/cell-adhesion hints, the core signal is regulation of transcription and immune signaling, with ubiquitination as a common regulatory mechanism. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":2},{"id":"GO:0051496","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0045087","count":2}]},{"hash":"2221275077595722088","title":"Complement activation and axon guidance proteins","description":"The cluster is enriched for complement pathway terms (classical/alternative activation and membrane attack complex regulation) alongside neural development/axon guidance terms (branchiomotor neuron axon guidance, axon extension, semaphorin-plexin signaling), suggesting two dominant themes: immune signaling and neural development. This dual representation warrants a label that captures both aspects.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":5},{"id":"GO:0006957","count":4},{"id":"GO:0001970","count":4},{"id":"GO:0071625","count":4},{"id":"GO:0001701","count":4}]},{"hash":"660821124858409803","title":"Innate Immune Response and Cytokine Production","description":"Based on the Top Terms, innate immune response and cytokine production are represented (both with count 2), along with negative regulation of cell migration, which suggests a theme around immune signaling and trafficking. While a couple of terms relate to ribosome biogenesis and peroxisome inheritance, these appear incidental to the dominant immune-related terms in this cluster, supporting a label focused on innate immunity.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030336","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0002374","count":2},{"id":"GO:0006360","count":1}]},{"hash":"466492717187640006","title":"Unknown","description":"The terms are highly diverse (signal transduction, RNA processing, autophagy/Cvt, hormone homeostasis, angiogenesis, development, memory, GPCR signaling, and general regulation) with no clear shared function or coherent pathway across the 17 proteins, and there are no edges to suggest a unified module. This cluster appears heterogeneous rather than functionally cohesive.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0010252","count":2},{"id":"GO:0001525","count":2}]},{"hash":"1060191547098028690","title":"Complement Activation and Blood Coagulation","description":"The cluster is dominated by GO terms for complement activation (classical and lectin pathways) and coagulation/fibrinolysis (plasminogen activation and regulation of fibrinolysis), indicating a coherent theme of innate immunity linked to coagulation. Peripheral terms like cell-matrix adhesion are present but secondary to the core complement-coagulation signal.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0031639","count":4},{"id":"GO:0051919","count":4}]},{"hash":"2059526246311807391","title":"Rho GTPase Signaling and Cytoskeletal Remodeling","description":"Based on the annotated terms, the cluster features Rho protein signal transduction, activation of GTPase activity, and cell morphogenesis, plus cell-matrix adhesion and regulation of vascular permeability, pointing to a cohesive theme of Rho-mediated cytoskeletal dynamics and adhesion. Although there are some immune-related terms (response to muramyl dipeptide, negative regulation of neutrophil degranulation), the dominant signal is signaling and structural remodeling governed by Rho GTPases.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":2},{"id":"GO:0000902","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0051534","count":2}]},{"hash":"1035554120160573560","title":"Multi-tissue morphogenesis and organ development","description":"The top GO terms cluster around morphogenesis and development across several tissues (heart/atrial tissue, cardiac muscle proliferation, skeletal muscle growth, collecting ducts, cloacal septation, etc.), plus related developmental processes like axon guidance. This suggests the proteins broadly participate in tissue formation and organogenesis rather than a single tissue-specific function, justifying a general developmental/morphogenetic label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055009","count":3},{"id":"GO:0060045","count":3},{"id":"GO:0048843","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0033280","count":3}]},{"hash":"502430520905394328","title":"Neurodevelopment and morphogenesis","description":"The top GO terms point to neural/sensory functions (learning, neurotransmitter secretion, sensory perception of sound, synapse assembly) alongside developmental/morphogenetic processes (skin and eye morphogenesis, cell adhesion, Wnt signaling, angiogenesis). This mix suggests a cluster of proteins involved in developmental signaling with neurosensory differentiation, rather than a single, narrow function. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043589","count":3},{"id":"GO:0048593","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0007612","count":2},{"id":"GO:0002043","count":2}]},{"hash":"2030573318706565791","title":"Ion transporters and neurotransmission","description":"The GO profile is dominated by transmembrane transport terms for ions (sodium, potassium) and various sugars, with additional signals pointing to neuronal processes (sensory perception of sound; glutamatergic synaptic transmission and guanylyl cyclase signaling). Together these suggest a set of membrane transport proteins that also participate in neuronal signaling, which justifies the label. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0007605","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0007168","count":2}]},{"hash":"551301285497002907","title":"Axon Guidance and Neural Crest Migration","description":"Most GO terms describe axon pathfinding and neuronal projection development (semaphorin-plexin signaling involved in axon guidance; sympathetic and branchiomotor neuron projection guidance; trigeminal nerve organization; axonal fasciculation). There is also neural crest migration context (ventral trunk neural crest cell migration) and growth-cone cytoskeletal regulation (Rho signaling). Collectively, these proteins likely participate in neural development, centered on axon guidance and neural crest\u2013derived migration.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0097491","count":2},{"id":"GO:0036486","count":2},{"id":"GO:1902287","count":2},{"id":"GO:0007413","count":2}]},{"hash":"114393149067424367","title":"Bacterial secondary metabolite biosynthesis","description":"The top GO terms indicate biosynthesis of specialized metabolites typical of bacteria, including siderophores, nonribosomal peptide biosynthesis, and menaquinone production, plus various fatty-acid\u2013related lipid metabolisms. While a plant seed coat term appears, the cohesive theme is microbial metabolite production, suggesting a cluster of proteins involved in bacterial secondary metabolism and lipid-derived metabolites. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":9},{"id":"GO:0044539","count":9},{"id":"GO:0043041","count":9},{"id":"GO:0000038","count":9},{"id":"GO:0008218","count":9}]},{"hash":"1247603070717787088","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around tissue morphogenesis and developmental patterning\u2014areas like smooth muscle migration, palatal shelf morphogenesis, coronary artery morphogenesis, axon extension/ guidance, and cell-matrix adhesion\u2014suggesting a shared role in embryonic tissue formation and neural/vascular patterning. Some terms (IL-4 production, cortisol response) are more peripheral but can occur within broader developmental contexts.","confidence":"High","size":16,"edges":19,"triangles":9,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014909","count":13},{"id":"GO:1990134","count":13},{"id":"GO:0007161","count":13},{"id":"GO:0044332","count":13},{"id":"GO:0051968","count":13}]},{"hash":"1534641678519323268","title":"Lipid metabolism and secondary metabolite biosynthesis","description":"The cluster shows strong representation of fatty acid oxidation and methyl-branched fatty acid metabolism, along with ectoine and verruculogen biosynthesis (and prostaglandin biosynthesis). This points to a core theme of lipid-based metabolism and production of small-molecule metabolites, common in microbes. Some regulatory terms appear but do not define the main function of the cluster, which is best captured by lipid metabolism and secondary metabolite biosynthesis.","confidence":"Medium","size":16,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001561","count":7},{"id":"GO:0097089","count":7},{"id":"GO:0019491","count":7},{"id":"GO:1902181","count":7},{"id":"GO:0042400","count":7}]},{"hash":"144553514322786070","title":"Redox and adhesion signaling in development","description":"Top terms cluster around redox/NO signaling, calcium-independent adhesion, receptor clustering, and morphogenesis-related processes, suggesting a theme of developmental signaling and cell\u2013matrix remodeling. While some terms are obsolete, the mixture points to NO/redox regulation coupled with adhesion dynamics guiding developmental tissue remodeling such as palatal morphogenesis and smooth muscle migration.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045429","count":10},{"id":"GO:0055114","count":9},{"id":"GO:0071372","count":9},{"id":"GO:0051926","count":9},{"id":"GO:0043154","count":9}]},{"hash":"2028243399675989486","title":"Lipid biosynthesis and steroid metabolism","description":"The top GO terms are dominated by lipid-related biosynthesis and metabolism, including fatty acid elongation, very long-chain fatty acid biosynthesis, sphingolipid biosynthesis, and retinoid/retinol and glucocorticoid biosynthesis. While a few terms like transcription regulation and phylloquinone catabolism appear, the strongest signal is lipid and steroid-related pathways, suggesting the cluster comprises proteins involved in lipid metabolism and steroid hormone pathways.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030497","count":16},{"id":"GO:0042761","count":16},{"id":"GO:0042376","count":16},{"id":"GO:0055114","count":16},{"id":"GO:0002138","count":16}]},{"hash":"2044368330827663942","title":"Unknown","description":"The terms span diverse processes from metabolism and detoxification to neural development and antibiotic response, with no single cohesive pathway linking them and no edges connecting proteins, suggesting no unified function to name.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0009820","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0048702","count":2},{"id":"GO:0071542","count":2}]},{"hash":"971819345853079981","title":"Cell cycle and innate immune signaling","description":"The top GO terms cluster around cell division, mitotic cell cycle, and apoptosis, paired with innate immune processes and inflammatory signaling (innate immune response, IL-12 response, JNK cascade). This points to a core theme of cell cycle control coupled with stress and immune signaling, with a few outliers (visual perception, lipoteichoic acid biosynthesis) likely reflecting annotation noise or multi-function proteins. ","confidence":"Medium","size":16,"edges":10,"triangles":7,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0007601","count":4},{"id":"GO:0071276","count":4}]},{"hash":"223572355689533473","title":"Regulators of Signaling and Cellular Dynamics","description":"The top GO terms point to proteins that positively regulate diverse processes (GTPase signaling, apoptosis, mitochondrial calcium, vesicle endocytosis, cell proliferation, migration, nuclear import), plus broader developmental roles like heart development and visual perception. This pattern suggests a cluster of regulatory proteins that modulate signaling pathways, intracellular transport, and cellular behavior rather than a single, cohesive enzymatic function. Therefore, a concise label emphasizing regulatory signaling and dynamic cellular processes fits best.","confidence":"Medium","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0007601","count":4},{"id":"GO:0042144","count":4},{"id":"GO:0051561","count":4}]},{"hash":"282604937525669034","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":8,"triangles":0,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071042","count":3},{"id":"GO:0045006","count":3},{"id":"GO:0071035","count":3},{"id":"GO:0070651","count":3},{"id":"GO:0071051","count":3}]},{"hash":"870009765036922394","title":"Multi-Tissue Organogenesis","description":"This cluster\u2019s GO terms span development and morphogenesis across diverse tissues (heart outflow tract, gonads, limbs, cartilage, pancreas, bone, prostate, muscle, retina). The common thread is organismal development and organ formation rather than a single specific process, so a label reflecting broad organogenesis across tissues fits best.","confidence":"Medium","size":16,"edges":6,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003148","count":5},{"id":"GO:0008584","count":4},{"id":"GO:0035116","count":4},{"id":"GO:0051216","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1496778732928837019","title":"GPCR-Mediated Signaling and Behavior","description":"The terms point to G protein-coupled receptor pathways that regulate adenylate cyclase and cAMP (adrenergic signaling, AC inhibition), with downstream effects on neural communication (dopaminergic transmission) and autonomic outputs (vasoconstriction, gastric acid secretion). They also touch on immune cell movement (T cell chemotaxis) and locomotion/behavior, suggesting a unifying role for GPCR signaling in neural, immune, and vascular functions, together influencing behavior. ","confidence":"Medium","size":16,"edges":62,"triangles":96,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010818","count":15},{"id":"GO:0071881","count":15},{"id":"GO:0031649","count":15},{"id":"GO:0001963","count":15},{"id":"GO:0001697","count":15}]},{"hash":"1392432438547081499","title":"Translation and ubiquitin signaling cluster","description":"The top GO terms center on translation (GO:0006412) and ubiquitination (GO:0000209, GO:1902523), suggesting a core theme of protein synthesis and post-translational modification. Additional terms point to broader regulatory roles in immune signaling (TLR pathway), metabolism (insulin secretion), and various developmental processes, which can all intersect with translational control and ubiquitin-mediated regulation. While some terms are diverse, the most representative shared functions appear to be protein production and ubiquitin-related regulation.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0051311","count":2},{"id":"GO:0060712","count":2},{"id":"GO:1990001","count":2},{"id":"GO:0045035","count":2}]},{"hash":"1112339504718636391","title":"Adhesion-driven migration and immune signaling","description":"The cluster is dominated by GO terms tied to cell adhesion and movement (substrate-dependent migration, integrin signaling, extravasation) alongside immune-related processes (T cell activation, complement activation) and ECM remodeling (metallopeptidase activity). While some terms reference development in cartilage or plants, the shared core appears to be adhesion/migration contexts with immune system involvement and protein turnover. Confidence: Medium","confidence":"","size":16,"edges":49,"triangles":101,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006929","count":10},{"id":"GO:0007229","count":10},{"id":"GO:1905050","count":10},{"id":"GO:0003429","count":10},{"id":"GO:0070208","count":10}]},{"hash":"688345420801031970","title":"RNA splicing and post-transcriptional regulation","description":"The cluster's GO terms converge on spliceosome-mediated splicing (cis and alternative), regulation of mRNA stability, mRNA stabilization, and ncRNA/miRNA-mediated silencing, with additional notes on translation initiation mechanisms, indicating a coherent theme of RNA processing and post-transcriptional control.","confidence":"High","size":16,"edges":118,"triangles":532,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":12},{"id":"GO:0048026","count":12},{"id":"GO:0045292","count":10},{"id":"GO:0006378","count":9},{"id":"GO:0010610","count":9}]},{"hash":"710508514597964532","title":"Integrin signaling, cell adhesion and immune activation","description":"The cluster centers on integrin-mediated signaling and heterotypic cell-cell adhesion with associated migration and extravasation, plus metallopeptidase activity suggesting ECM remodeling. Developmental terms (endodermal differentiation, chondrocyte morphogenesis) indicate tissue formation contexts, while immune-related terms (T cell activation via antigen presentation, complement activation) point to immune modulation during tissue remodeling. Together, these proteins appear to coordinate adhesion and migration processes with immune signaling in development and tissue remodeling.","confidence":"Medium","size":16,"edges":20,"triangles":2,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035987","count":7},{"id":"GO:0034113","count":7},{"id":"GO:0006929","count":6},{"id":"GO:0007229","count":6},{"id":"GO:1905050","count":6}]},{"hash":"1455928386423122561","title":"Innate Immune Signaling and Ubiquitin Regulation","description":"The dominant signals are innate immune response and ubiquitin-related regulation (ubiquitination and ubiquitin-dependent catabolic processes), including links to NF-kappaB pathway activity and regulation of T cell proliferation. While there are peripheral terms related to microtubule localization and telomere maintenance, the core theme appears to be innate immune signaling modulated by ubiquitin turnover, so the label reflects the strongest shared function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0035372","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0033280","count":5},{"id":"GO:0016567","count":4}]},{"hash":"2055823681965734568","title":"Negative regulators of membrane trafficking and ER quality control","description":"The cluster is enriched for GO terms about downregulating membrane trafficking and quality-control processes, including negative regulation of endocytosis, GPCR internalization, ERAD-related pathways, autophagosome maturation, and related signaling. While some terms are unrelated or obsolete, the prevailing theme ties to regulation of protein processing and trafficking at membranes and the ER. Overall, the proteins appear to act as negative regulators of trafficking and quality-control pathways.","confidence":"Medium","size":16,"edges":14,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0006517","count":4},{"id":"GO:0007160","count":4},{"id":"GO:1901097","count":3},{"id":"GO:1900186","count":3}]},{"hash":"737373160942177553","title":"Cardiac and muscle development","description":"The cluster shows a strong enrichment for terms related to heart and muscle formation, such as cardioblast migration, cardiac right ventricle formation, cardiac neural crest involvement in outflow tract morphogenesis, and myoblast/skeletal muscle differentiation. While there are a few broader or outlier terms (e.g., pancreas or sex determination), the dominant theme is cardiogenesis and myogenesis, suggesting these proteins function together in cardiac and skeletal muscle development pathways.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:2001038","count":16},{"id":"GO:0048712","count":16},{"id":"GO:0003326","count":15},{"id":"GO:0003219","count":15},{"id":"GO:0061309","count":15}]},{"hash":"1383751695489182598","title":"Cerebellar cortex development and Bergmann glia differentiation","description":"The top GO terms are dominated by cerebellar-specific processes: cerebellar cortex formation and Bergmann glial cell differentiation, indicating a clear focus on cerebellar development and glial maturation. While there are auxiliary terms related to MAPK/ERK signaling and other signaling pathways (T cell receptor, insulin signaling), they appear secondary to the cerebellar development signals, so the chosen label best represents the cluster\u2019s main function.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":14},{"id":"GO:0050860","count":14},{"id":"GO:0000200","count":14},{"id":"GO:0008285","count":13},{"id":"GO:0048679","count":13}]},{"hash":"1668084560944795509","title":"Ribosome Biogenesis and Cell Cycle Regulation","description":"This cluster is dominated by GO terms for ribosome biogenesis, translation initiation regulation, and mitotic cell cycle processes (including SCF- and APC/C-dependent proteolysis), suggesting a cohesive theme of coordinating protein synthesis with cell division and protein turnover. A single term about neuron projection development is present but does not define the core function.","confidence":"Medium","size":16,"edges":38,"triangles":52,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0031175","count":4},{"id":"GO:0000747","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1099204729160881581","title":"Negative regulation of signaling and protein turnover","description":"The cluster is dominated by GO terms about negative regulation of multiple signaling pathways (ERK, EGFR, M-CSF, cell proliferation, immune signaling) and ubiquitin-dependent degradation via multivesicular body sorting, plus intracellular transport. While a few terms hint at development (vestibular morphogenesis, epithelial migration), the common theme is dampening of signaling and protein turnover.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:0010633","count":2},{"id":"GO:0060116","count":2},{"id":"GO:0042059","count":2},{"id":"GO:1902227","count":2}]},{"hash":"1882469887045044456","title":"Cell Cycle Regulation and Development","description":"The top GO terms cluster around control of cell division (mitotic cell cycle, regulation of cytokinesis, meiotic chromosome alignment) with supporting developmental processes (angiogenesis, multicellular organism development, placental-related tissue development) and signaling/ubiquitination. Taken together, these terms point to a cohesive role in proliferative control and developmental progression in multicellular organisms, rather than a single, narrow function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032465","count":2},{"id":"GO:0000278","count":2},{"id":"GO:1902527","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0007275","count":2}]},{"hash":"809795501125695761","title":"Cell signaling and protein modification","description":"This cluster includes GO terms for ubiquitination, poly-ADP-ribosylation, receptor clustering, and intracellular signaling, suggesting roles in regulating signaling pathways via post-translational modification. The presence of transport terms (ion and arsenite transport) points to membrane-associated processes; overall the proteins likely contribute to signal transduction and regulatory modification, with some membrane transport activity.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0043252","count":2},{"id":"GO:0043113","count":2},{"id":"GO:0070212","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1146125884069812037","title":"Synaptic vesicle exocytosis and secretion","description":"This cluster is dominated by GO terms related to neurotransmitter secretion, regulation of synaptic vesicle exocytosis, and synaptic vesicle maturation, pointing to proteins involved in the presynaptic vesicle cycle and release machinery. Additional terms for calcium response and dense core vesicle exocytosis reinforce a presynaptic secretion role, even though a few terms may reflect broader signaling pathways. Overall, the functional theme centers on vesicle trafficking and neurotransmitter release.","confidence":"High","size":16,"edges":103,"triangles":350,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007269","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0016188","count":5},{"id":"GO:0010796","count":5},{"id":"GO:0099525","count":5}]},{"hash":"1252670437253119269","title":"TLR/NOD2\u2013NF-\u03baB innate immune signaling","description":"The top GO terms are dominated by innate immune pathways: TLR9 signaling, MyD88-dependent TLR signaling, I-kappaB phosphorylation (NF-\u03baB activation), and production of interferons and chemokines, plus a defense response to Gram-positive bacteria. These point to a cohesive module of Toll-like receptor\u2013 and NOD2\u2013mediated innate immune signaling and inflammatory gene regulation. A single outlier term (male gonad development) is likely non-representative noise and does not override the core theme.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":9},{"id":"GO:0008584","count":8},{"id":"GO:0042088","count":8},{"id":"GO:0071260","count":8},{"id":"GO:0034162","count":7}]},{"hash":"1571903863921128973","title":"Immune signaling and chemokine production","description":"The top GO terms point to immune activation and signaling (TH1 response, GPCR signaling, JNK/MAPK cascade) with notable chemokine production (CXCL1, CCL5) and regulation of IL-23 and IFN, suggesting a cluster focused on inflammatory immune communication and chemokine-mediated signaling, with some platelet-activation context.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010572","count":12},{"id":"GO:0046330","count":10},{"id":"GO:2000340","count":9},{"id":"GO:0007186","count":9},{"id":"GO:0042088","count":9}]},{"hash":"1525511913680845306","title":"GTPase Signaling and Cytoskeletal Regulation","description":"This cluster centers on small GTPase-mediated signaling and regulators of cytoskeletal dynamics (e.g., podosome assembly), pointing to control of cell migration and signaling cascades. The presence of T cell receptor signaling and Wnt pathway terms, alongside neural development references, suggests a broad set of signaling regulators that influence diverse contexts rather than a single pathway. Some terms may reflect broader roles or annotation noise, but the core theme is signaling with cytoskeletal/regulatory emphasis.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":4},{"id":"GO:0048873","count":4},{"id":"GO:0050732","count":3},{"id":"GO:0090051","count":3},{"id":"GO:0021762","count":3}]},{"hash":"1005011222009111149","title":"EGFR signaling and actin remodeling","description":"The cluster centers on EGFR signaling and cytoskeletal dynamics (stress fiber and lamellipodium assembly), with additional related processes like endocytic recycling and various developmental pathways (liver, bone, oligodendrocyte differentiation). This suggests a cohesive theme of signaling-driven actin remodeling coupled with development. ","confidence":"Medium","size":16,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051496","count":2},{"id":"GO:0007173","count":2},{"id":"GO:0010592","count":2},{"id":"GO:0045792","count":2},{"id":"GO:0032456","count":2}]},{"hash":"1448117718642491931","title":"Skeletal and mesenchymal development with immune signaling","description":"The top GO terms cluster around osteoblast differentiation, skeletal muscle differentiation, and cartilage development, pointing to mesenchymal lineage development. Additional terms like bone marrow proliferation and endocrine pancreas development suggest broader developmental programs in related lineages. Transcription-related terms (DNA-templated transcription, RNA polymerase II) indicate coordinated gene expression during development, while IL-4 response and TGFB stimulus reflect signaling contexts that can influence tissue differentiation. Taken together, the cluster centers on developmental programs for skeletal/muscle/cartilage lineages with accompanying immune signaling influences.","confidence":"Medium","size":16,"edges":85,"triangles":228,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071353","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0006366","count":6},{"id":"GO:0045669","count":6},{"id":"GO:0035914","count":6}]},{"hash":"443609742328473205","title":"Cytoskeletal remodeling and endocytosis","description":"This cluster centers on actin remodeling (polymerization, podosome/ruffle assembly) and membrane trafficking (endocytosis/phagocytosis), with linked cell polarity and signaling processes, indicating a cohesive cytoskeletal\u2013endocytic module.","confidence":"High","size":16,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":4},{"id":"GO:0071963","count":3},{"id":"GO:0070830","count":3},{"id":"GO:0030838","count":3},{"id":"GO:0050852","count":3}]},{"hash":"1162092547298233619","title":"Neuronal dendrite development and ephrin signaling","description":"This cluster's annotations are dominated by neural development and dendrite-related terms (dendrite development, positive regulation of dendrite morphogenesis, neuronal stem cell population maintenance) and ephrin receptor signaling, which points to neuronal differentiation and synaptic/axonal guidance roles. A couple of terms like leaf development and adaxial/abaxial pattern specification appear but are likely non-neuronal annotations or cross-species noise. Overall, the core theme is neural/dendritic development and ephrin signaling.","confidence":"Medium","size":16,"edges":22,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1902213","count":1},{"id":"GO:1900170","count":1},{"id":"GO:0016358","count":1},{"id":"GO:0097150","count":1},{"id":"GO:0009955","count":1}]},{"hash":"2257742211104822045","title":"Neuronal Synaptic Signaling Regulation","description":"The top GO terms point to neuronal function, especially regulation of synaptic vesicle endocytosis and excitatory postsynaptic potentials, suggesting a focus on synaptic transmission and postsynaptic activity. While there are some plant/fungal development and signaling terms in the mix, the strongest shared theme among the prominent terms is modulation of neuronal signaling pathways, including vesicle cycling and signaling cascades (e.g., CAMKK-AMPK). The lack of connectivity (no edges) implies a broader functional cluster, but the neuron-focused terms justify the label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900242","count":4},{"id":"GO:0060079","count":4},{"id":"GO:0034260","count":3},{"id":"GO:0035641","count":3},{"id":"GO:0099139","count":2}]},{"hash":"1331364609104794895","title":"Tissue development and morphogenesis","description":"GO terms cluster around developmental and morphogenetic processes across diverse tissues (cartilage, hair, gut, retina, gonads) rather than a single molecular function. The common thread is tissue and organ morphogenesis during development, which justifies a 'Tissue development and morphogenesis' label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":2},{"id":"GO:0002063","count":2},{"id":"GO:0044344","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0008584","count":2}]},{"hash":"1428050332061454349","title":"Developmental signaling and cytoskeletal remodeling","description":"The cluster is dominated by terms related to heart and muscle development and differentiation, together with cytoskeletal dynamics such as filopodium and microspike assembly and Rho signaling. This points to a cohesive theme of developmental processes coupled to actin cytoskeleton remodeling, despite some broader terms like synaptic plasticity and innate immunity appearing as ancillary signals.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0030035","count":3}]},{"hash":"200690135265395824","title":"Thermoception and neural differentiation cluster","description":"This group is mainly driven by temperature-sensing terms (thermoception and detection of temperature stimulus involved in thermoception) alongside a clear neural development signal (cerebellar granule cell differentiation). The presence of related organismal/developmental processes and regulatory tags like ubiquitination suggests a broader developmental signaling role, but the strongest cohesive signal centers on temperature sensing and neural differentiation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050955","count":4},{"id":"GO:0071901","count":4},{"id":"GO:2000340","count":4},{"id":"GO:0060743","count":4},{"id":"GO:1904357","count":4}]},{"hash":"1513449119659758268","title":"Lipid droplet triglyceride metabolism","description":"The top GO terms cluster around triglyceride storage, mobilization, biosynthesis, and protein localization to lipid droplets (e.g., triglyceride storage, triglyceride mobilization, positive regulation of triglyceride biosynthetic process, protein localization to lipid droplet, negative regulation of lipase activity). This points to a cohesive theme of lipid droplet\u2013associated triglyceride metabolism, with apoptosis-related terms present but not defining the core function. Overall, these proteins likely participate in the formation, storage, and turnover of triglycerides within lipid droplets.","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001836","count":1},{"id":"GO:0043154","count":1},{"id":"GO:2001240","count":1},{"id":"GO:0051902","count":1},{"id":"GO:0010890","count":1}]},{"hash":"2098975696558939097","title":"Unknown","description":"The top GO terms are scattered across carbohydrate catabolic processes (xylan, arabinan, L-arabinose) and diverse vertebrate development and neural processes (otolith morphogenesis, sensory perception of sound, adult locomotory behavior, paranodal junction assembly, ECM disassembly, smooth muscle migration). With no edges connecting the proteins, there\u2019s no coherent shared function emerging, so a concise, representative label cannot be established.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:2000427","count":4},{"id":"GO:0045493","count":3},{"id":"GO:0046373","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0032474","count":3}]},{"hash":"11453529613063781","title":"GPCR-Mediated Cardiovascular and Neural Signaling","description":"This cluster is dominated by GO terms tied to G protein-coupled receptor signaling (adenylate cyclase-activating/inhibiting pathways), which relate to cardiovascular regulation (blood pressure, norepinephrine-epinephrine vasoconstriction), neuromodulation (dopaminergic transmission), and related metabolic/immune processes (heat generation, histamine secretion, T cell chemotaxis). The combination points to neuroendocrine and autonomic signaling affecting cardiovascular and neural function, with a few outliers like electron transport chain and reproductive processes.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":15},{"id":"GO:0045777","count":15},{"id":"GO:0022900","count":15},{"id":"GO:0010818","count":14},{"id":"GO:0071881","count":14}]},{"hash":"1428387593167595247","title":"Glycan biosynthesis and fucosylation","description":"The strongest signals are glycosylation- and fucose-related processes (protein glycosylation, Lewis a epitope biosynthesis, fucosylation, L-fucose metabolism), with some accompanying carbohydrate metabolism terms. A few GO terms touch neural/immune migration, which can be influenced by glycan modifications but do not define a separate theme here. Thus the cluster is best labeled Glycan biosynthesis and fucosylation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":4},{"id":"GO:0005975","count":2},{"id":"GO:0036065","count":2},{"id":"GO:0021799","count":2},{"id":"GO:0002522","count":2}]},{"hash":"1137193833952648879","title":"Unknown","description":"TheTop Terms are highly diverse, covering signaling regulation (peptidyl-tyrosine phosphorylation; adenylate cyclase), development (lung connective tissue; nipple morphogenesis), coagulation, immune defense, viral processes, locomotion, neurotransmission, and mitochondrial electron transport. With no network edges or a coherent shared function across these terms, there isn\u2019t a single unifying theme to label the cluster beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050732","count":2},{"id":"GO:0060427","count":2},{"id":"GO:0060658","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0042742","count":2}]},{"hash":"333667110146511325","title":"Embryonic Development and Patterning","description":"The top GO terms are dominated by embryogenesis- and morphogenesis-related processes (pancreatic cell development, trophoblast differentiation, left/right pattern formation, cartilage morphogenesis, endocrine system development, placenta-related differentiation, EMT in endocardial cushion formation). While a couple of terms touch on metabolism/transport, the overall signal is developmental patterning rather than a single metabolic function, so this label is the most representative and concise.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0035270","count":2}]},{"hash":"924992751535532385","title":"Xenobiotic and lipid metabolism","description":"The top GO terms cluster around detoxification and lipid processing: multiple xenobiotic catabolic processes (carbazole, dibenzo-p-dioxin, camphor) along with lipid-related pathways (prostaglandin biosynthesis, triglyceride metabolism, cholesterol catabolic process). This suggests a coherent theme of processing foreign compounds and lipids. Some other terms appear peripheral, but the dominant signal is xenobiotic and lipid metabolism.","confidence":"High","size":16,"edges":32,"triangles":29,"max_degree":11,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0046232","count":10},{"id":"GO:0001516","count":8},{"id":"GO:0006641","count":7},{"id":"GO:0032259","count":7},{"id":"GO:0008585","count":7}]},{"hash":"1003356647246901851","title":"Proteoglycan Synthesis in Development and Reproduction","description":"The cluster is enriched for GO terms related to proteoglycan biosynthesis and metabolism (keratan sulfate proteoglycan biosynthetic process; proteoglycan metabolic process), suggesting a core role in building and remodeling extracellular matrix components. Additional development and reproductive terms (mammary gland development, angiogenesis in wound healing, epithelial proliferation in wound healing, acrosome reaction regulation, zona pellucida penetration, cerebellar Purkinje cell layer development) indicate broad involvement of proteoglycans in development, wound healing, and fertility-related processes. Together, these terms support a label focusing on proteoglycan biology in development and reproduction.","confidence":"Medium","size":16,"edges":30,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":3},{"id":"GO:0018146","count":3},{"id":"GO:0060055","count":3},{"id":"GO:0060058","count":3},{"id":"GO:0006029","count":3}]},{"hash":"1210807962022503039","title":"Innate immune signaling and apoptosis","description":"This cluster is strongly enriched for innate immune-related terms: innate immune response, defense against Gram-positive bacteria, chemotaxis, and interleukin-4 production, plus the execution phase of apoptosis, suggesting an immune-centric functional theme. Some terms (potassium ion transport, trans-synaptic signaling, and glucose response) are broader cellular processes that may reflect pleiotropy or context-specific roles, but do not override the dominant immune signals.","confidence":"Medium","size":16,"edges":6,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":12},{"id":"GO:0006935","count":10},{"id":"GO:0006351","count":10},{"id":"GO:0050830","count":9},{"id":"GO:0045087","count":9}]},{"hash":"1414087969672466144","title":"Neuronal development and spine morphogenesis","description":"This cluster\u2019s GO terms cluster around neuronal differentiation and synaptic structure: dendritic spine morphogenesis, striatal medium spiny neuron differentiation, and integrin-mediated signaling related to adhesion, along with cytoskeletal remodeling (ruffle assembly, actin cortical patch localization) that underpins spine formation and synaptic changes. While other terms touch on endocytosis, cytokine production, and TGF-beta response, the core theme centers on neuronal development and synaptic architecture.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0051044","count":3},{"id":"GO:0021773","count":2},{"id":"GO:0045806","count":2}]},{"hash":"1135606876978214204","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0035270","count":5}]},{"hash":"1442747053010675652","title":"GPCR-Neuronal Signaling and Second Messenger Synthesis","description":"This cluster is dominated by GPCR signaling terms (adenosine and adrenergic receptor pathways) and second messenger production (cAMP and cGMP biosynthesis), plus statements about intracellular signal transduction and neuronal excitability/phototaxis. Together, these indicate a coherent theme of GPCR-driven neuronal signaling and modulation of transcription and action potentials via cAMP/cGMP. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0032026","count":6},{"id":"GO:0071880","count":5},{"id":"GO:0006171","count":5},{"id":"GO:0046956","count":5},{"id":"GO:0001973","count":5}]},{"hash":"157557163133938984","title":"Plant phenylpropanoid, lignan, and anthocyanin biosynthesis","description":"The top GO terms point to biosynthesis of plant secondary metabolites, especially phenylpropanoids, lignans (secoisolariciresinol), and anthocyanin-containing compounds, suggesting a cohesive theme around plant pigment and lignan production. Some unrelated terms appear (e.g., fertilization), and the network has no edges, but the dominant signals support a biosynthetic cluster in plants. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006874","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0009699","count":2},{"id":"GO:1901006","count":2},{"id":"GO:0055114","count":2}]},{"hash":"2304205855600854131","title":"Brain Development and Sensory Signaling","description":"This cluster centers on neural development and sensory processing: cerebellum maturation, optic nerve structure, thermoception, pain response, and caffeine-related responses, complemented by ion transport (manganese and calcium) that underpins neuronal signaling. While a few terms are broader (chemokine production, diet-induced thermogenesis), the dominant GO terms point to brain development and sensory perception, suggesting a coherent neural module with modest cross-talk to metabolic/inflammatory processes.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006828","count":4},{"id":"GO:0098703","count":4},{"id":"GO:0021590","count":3},{"id":"GO:0048016","count":3},{"id":"GO:0050955","count":3}]},{"hash":"1685217096052847000","title":"Neuroimmune signaling and autonomic regulation","description":"The GO terms span both neural communication (dopaminergic synaptic transmission, adrenergic signaling, heat generation, vasoconstriction, gastric acid secretion) and immune/vascular processes (complement activation, T cell chemotaxis). This suggests a cluster of proteins involved in neuroimmune cross-talk and autonomic control of physiological responses. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0010818","count":2},{"id":"GO:0071881","count":2}]},{"hash":"1079031070842166654","title":"Brain and sensory nervous system development","description":"The cluster's top GO terms are dominated by brain and neural/sensory development (brain development; cerebellar Purkinje cell layer development; trigeminal ganglion development; otic placode development; synapse maturation), indicating proteins involved in neural formation and maturation. Some outlier terms like single fertilization and lectin pathway activation appear, but the overall signal supports neural/sensory developmental roles.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021680","count":4},{"id":"GO:0007338","count":4},{"id":"GO:0090036","count":3},{"id":"GO:0061551","count":3},{"id":"GO:0045880","count":3}]},{"hash":"1225771756329618588","title":"Insulin Signaling and Glucose Metabolism","description":"The strongest signals are insulin receptor signaling and glucose metabolism, including glucose import in response to insulin, which point to a metabolic regulatory theme linked to insulin. Developmental terms (placenta, forebrain) and other processes (apoptosis, polarity, chemotaxis) appear as less frequent or pleiotropic associations, suggesting the cluster centers on insulin-mediated metabolic regulation with additional, broader roles. The lack of edges supports a broad grouping rather than a single tight pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0001890","count":3},{"id":"GO:0009636","count":3},{"id":"GO:2001275","count":2},{"id":"GO:0030900","count":2}]},{"hash":"1963283107449435254","title":"Membrane Transporters","description":"This cluster is dominated by GO terms for transmembrane transport across membranes, including nitrate, arabinose, fucose, sialic acid, and xenobiotic substrates, as well as neurotransmitter loading into synaptic vesicles. This pattern suggests a shared function as transporter proteins moving diverse compounds across membranes. A few metabolic terms appear, but they often relate to substrate availability accompanying transport. Overall, the proteins appear to be membrane transporters and transport-associated proteins rather than a single enzymatic pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010572","count":2},{"id":"GO:2000391","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0015751","count":2},{"id":"GO:1900754","count":2}]},{"hash":"666271136860656912","title":"Skin/Hair Follicle Development and BMP/Wnt Signaling","description":"This cluster is dominated by GO terms tied to skin/hair morphogenesis (hair follicle development, body hair orientation) and key signaling pathways (BMP and Wnt) that regulate embryonic patterning and development, including axis specification and chondrocyte development. The combination of positive regulation of canonical Wnt signaling and regulation of BMP signaling points to a cohesive developmental module rather than unrelated processes.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045471","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0001942","count":2},{"id":"GO:1902043","count":2},{"id":"GO:0030514","count":2}]},{"hash":"1055466198224463371","title":"Ribosome biogenesis and translation initiation","description":"These terms cluster around ribosome biogenesis and protein synthesis: maturation of 5.8S and LSU rRNA, formation of translation preinitiation complex, translation and translation reinitiation, and related mRNA/snoRNA catabolic processes. A single outlier term for microtubule severing appears but is not central to the dominant theme, so the cluster is best described as ribosome assembly and translation\u2013related functions.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":3},{"id":"GO:0000466","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3}]},{"hash":"1962963484655071921","title":"Heart development and endothelial signaling","description":"The top GO terms center on cardiac morphogenesis (right atrium) and venous endothelial differentiation, with Wnt signaling and cell adhesion pointing to developmental heart and vascular formation. Additional terms related to vitamin D response and T-helper cell differentiation appear as secondary associations, but the core theme is cardiovascular development and endothelial signaling.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0048549","count":2},{"id":"GO:0048633","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0007155","count":2}]},{"hash":"1411854202252943871","title":"Membrane transporters for diverse substrates","description":"The top GO terms point to transmembrane transport of a wide range of substrates (nitrate, arabinose, fucose, sialic acid, 4-hydroxyphenylacetate, xenobiotics, and sodium ions), with an additional vesicle-associated transport term, indicating a cluster of membrane transport proteins with broad substrate specificity rather than a single pathway.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":2},{"id":"GO:0015751","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0015739","count":2}]},{"hash":"1443036932621992328","title":"Fatty acid and retinoid/vitamin metabolism","description":"The top GO terms cluster around lipid metabolism, including fatty acid elongation and very long-chain fatty acid biosynthesis, plus retinol/retinoic acid metabolism and phylloquinone catabolic/biosynthetic processes, indicating a lipid- and vitamin-related metabolic theme. There is also a note of regulation of transcription, suggesting regulatory factors linked to these pathways; some terms like response to antibiotic are less directly connected but may reflect broader stress responses. Confidence that this label captures the core theme: Medium","confidence":"Medium","size":15,"edges":26,"triangles":15,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0006355","count":10},{"id":"GO:0042208","count":8},{"id":"GO:0030497","count":7},{"id":"GO:0042761","count":7}]},{"hash":"1729654068914194004","title":"Neuronal signaling and synaptic remodeling","description":"The terms cluster around neural communication (chemical synaptic transmission, opioid signaling), receptor clustering, and dendritic spine morphogenesis, with behavioral terms like vocalization and grooming, indicating a neuronal signaling and synaptic plasticity theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071625","count":6},{"id":"GO:2000821","count":5},{"id":"GO:0043113","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0035023","count":5}]},{"hash":"245978827832413932","title":"Proteoglycan and GAG biosynthesis and sulfation","description":"The cluster is dominated by GO terms for biosynthesis of proteoglycans and glycosaminoglycans (keratan, chondroitin, dermatan, heparan/heparin) and related sulfation processes, pointing to a shared function in producing sulfated proteoglycans that form extracellular matrix. Additional terms like sulfate assimilation and protein sulfation reinforce this theme, while a few other terms may reflect broader roles but do not negate the core connection.","confidence":"High","size":15,"edges":7,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":14},{"id":"GO:0030206","count":14},{"id":"GO:0006068","count":10},{"id":"GO:0018146","count":10},{"id":"GO:0030205","count":10}]},{"hash":"1209718628479544732","title":"Glutamatergic synapse regulation and plasticity","description":"The top GO terms cluster around regulation of glutamatergic synaptic transmission, excitatory postsynaptic potentials, dendritic spine morphogenesis, and synapse structural plasticity, pointing to a cohesive theme of excitatory synapse control and its plastic changes. Some terms (interleukin-1 response, apoptotic process, complement activation) are less central but do not override the dominant synaptic focus.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051968","count":5},{"id":"GO:0071347","count":5},{"id":"GO:0006915","count":4},{"id":"GO:0071625","count":4},{"id":"GO:0007160","count":4}]},{"hash":"1342362409186432742","title":"Developmental Growth and Apoptosis Signaling","description":"The top GO terms indicate involvement in growth-control pathways (Hippo, Wnt), anti-proliferative signals, differentiation programs (neuron development, keratinocyte differentiation), apoptotic regulation, and mitotic components (kinetochore localization), suggesting a cohesive theme of developmental growth control and cell fate decisions.","confidence":"High","size":15,"edges":25,"triangles":8,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":7},{"id":"GO:0045736","count":7},{"id":"GO:0048666","count":7},{"id":"GO:0006915","count":6},{"id":"GO:0030216","count":6}]},{"hash":"1636233686953433247","title":"Developmental and Immune Signaling","description":"The top GO terms point to several signaling pathways (JNK cascade, Hedgehog/Smoothened, PI3K-related activity) alongside immune signaling (T cell receptor signaling, T-helper 1 response) and neural/developmental processes (nervous system and hippocampus development), plus cell proliferation (mitotic cell cycle, cell division). This mix suggests a broad signaling network coordinating development, immunity, and proliferation rather than a single narrow function, hence a label capturing developmental and immune signaling.","confidence":"Medium","size":15,"edges":72,"triangles":145,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0021766","count":5}]},{"hash":"883298373788783680","title":"Vertebrate organogenesis","description":"The cluster centers on broad developmental programs across multiple organs\u2014cartilage, osteoblasts, heart/outflow tract morphogenesis, pancreas, brain (midbrain, glial differentiation), and palate\u2014indicating a theme of vertebrate organogenesis. The presence of mitochondrial translation and TCA cycle terms suggests accompanying cellular energy needs during development, plus starvation response, rather than a single tissue-specific pathway. ","confidence":"Medium","size":15,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051216","count":3},{"id":"GO:0042594","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0031016","count":2}]},{"hash":"1445200311261713795","title":"GTPase-regulated endocytic trafficking","description":"The top terms cluster around small GTPase signaling (positive regulation of GTPase activity; small GTPase-mediated signal transduction) and endocytic processes (early to late endosome transport; endocytic recycling), suggesting proteins that control vesicle trafficking via GTPase regulators. While some terms relate to cell division or transcription, the strongest signal is GTPase-driven endocytosis and recycling, guiding vesicle traffic within cells.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0035264","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0045022","count":2},{"id":"GO:0031914","count":2}]},{"hash":"1903336869233367888","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":3},{"id":"GO:0006189","count":2},{"id":"GO:0006364","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0097049","count":2}]},{"hash":"989255633301772353","title":"Embryonic development and organ morphogenesis","description":"The cluster shows strong representation of embryonic patterning and organ morphogenesis terms (left/right pattern formation, eye, pituitary, pancreas, cartilage, lung morphogenesis, embryonic eye morphogenesis) and includes transcription by RNA polymerase II, pointing to coordinated gene regulation during development.","confidence":"High","size":15,"edges":12,"triangles":0,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":7},{"id":"GO:0060021","count":7},{"id":"GO:0021983","count":6},{"id":"GO:0043010","count":6},{"id":"GO:0060441","count":6}]},{"hash":"1052606457987965435","title":"Oocyte Meiosis and Ubiquitin-M Proteolysis","description":"This cluster is dominated by GO terms tied to oocyte maturation and meiosis (oocyte maturation, spindle assembly in female meiosis I) and ubiquitin-dependent proteolysis (SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, ubiquitin-dependent protein catabolic process). It also includes related cell-cycle controls (regulation of DNA-templated DNA replication initiation, glycoprotein catabolic and regulation of circadian rhythm), suggesting a coherent module governing meiotic progression and proteostasis, with some additional development-related terms that may reflect broader roles of these proteins. Overall, the core theme is meiosis/oocyte maturation coupled with targeted protein degradation to regulate cell-cycle events.","confidence":"High","size":15,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001556","count":5},{"id":"GO:0007057","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0030174","count":4},{"id":"GO:0006516","count":4}]},{"hash":"1992706407014482475","title":"Nuclear Splicing and RNA Processing","description":"The proteins show strong enrichment for spliceosome-related terms (spliceosomal complex assembly, mRNA splicing via spliceosome, snRNP assembly) and RNA maturation steps (tRNA processing, SSU-rRNA maturation), with additional signals for nuclear import and transcription termination, indicating a cohesive nuclear RNA processing/splicing module.","confidence":"High","size":15,"edges":67,"triangles":175,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006369","count":7},{"id":"GO:0000245","count":6},{"id":"GO:0051170","count":5},{"id":"GO:0030490","count":5},{"id":"GO:0008033","count":5}]},{"hash":"2166233996201880787","title":"Xenobiotic Detoxification and Lipid Catabolism","description":"The top GO terms are dominated by xenobiotic catabolic processes (e.g., xenobiotic, dibenzo-p-dioxin, camphor catabolic) and lipid metabolism (triglyceride and cholesterol catabolic processes), indicating a shared function in detoxification and breakdown of xenobiotic and lipid substrates. Some terms (e.g., methylation, reproductive development) appear less directly related, but the strongest signals point to detoxification and lipid catabolism as the cluster\u2019s core theme.","confidence":"High","size":15,"edges":20,"triangles":5,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042738","count":14},{"id":"GO:0035902","count":14},{"id":"GO:0006641","count":13},{"id":"GO:0032259","count":13},{"id":"GO:0008585","count":13}]},{"hash":"1747170418375591099","title":"Kidney development and morphogenesis","description":"This cluster is dominated by GO terms about metanephric and mesonephric development, proximal tubule formation, and related organ morphogenesis (kidney/renal structures, lymph vessel morphogenesis, cartilage condensation). Immune signaling terms appear but do not define the core theme. Confidence: Medium","confidence":"","size":15,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0060355","count":14},{"id":"GO:0072218","count":14},{"id":"GO:0090238","count":14},{"id":"GO:0038094","count":14},{"id":"GO:0051873","count":14}]},{"hash":"1684196727688386286","title":"Calcium-Dependent Signaling and Vesicle Regulation","description":"The top GO terms cluster around calcium signaling (calcium ion transport and cellular response to calcium) and vesicle-related processes (platelet degranulation, regulation of synaptic vesicle endocytosis, insulin secretion), plus muscle development where calcium signaling is key. This suggests a common theme of calcium-regulated signaling coupled to vesicle trafficking and exocytosis across different cell types. However, the lack of direct interactions among the proteins implies a broader, multi-context role rather than a single cohesive complex.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0043388","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0035774","count":3}]},{"hash":"408280281913803370","title":"Centromere Assembly and Mitosis","description":"The strongest signals are CENP-A containing chromatin assembly, mitotic cell cycle, cell division, and microtubule severing, pointing to centromere/kinetochore function and spindle dynamics; translation-related terms are present but do not define the main theme.","confidence":"Medium","size":15,"edges":74,"triangles":185,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001731","count":5},{"id":"GO:0002188","count":4},{"id":"GO:0006406","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1192043446671777316","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":36,"triangles":34,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":9},{"id":"GO:0000398","count":8},{"id":"GO:0071042","count":6},{"id":"GO:0000467","count":6}]},{"hash":"2021780665709928834","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":33,"triangles":56,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0010610","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0045716","count":4},{"id":"GO:1901254","count":4}]},{"hash":"801129920854726774","title":"Innate Immune Response and Development","description":"The top GO terms are dominated by innate immune response and defense against pathogens (virus and Gram-positive bacteria), indicating immune signaling as a core theme. Additional terms for integrin-mediated signaling, synapse assembly, angiogenesis, and multicellular development suggest these proteins also participate in developmental signaling and tissue remodeling. The absence of direct edges does not negate a shared functional theme across immune and developmental processes. Therefore, the label reflects a combined theme of innate immunity with developmental signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007229","count":4}]},{"hash":"1337473939634933185","title":"Ribosome Biogenesis and Translation","description":"Most top GO terms are translation-related (translation, translational initiation, cytoplasmic translation, ribosome biogenesis, ribosomal small subunit biogenesis, formation of cytoplasmic translation initiation complex, positive regulation of cytoplasmic translation). This indicates the cluster comprises ribosomal components and factors involved in protein synthesis and ribosome assembly. A couple of terms (cell division, response to antibiotic, conjugation with cellular fusion) may reflect broader cellular contexts but do not override the central translation theme.","confidence":"High","size":15,"edges":15,"triangles":2,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":3},{"id":"GO:0006413","count":3},{"id":"GO:0042274","count":2},{"id":"GO:0001732","count":2}]},{"hash":"1829284021013814437","title":"ECM organization and cell adhesion in development","description":"The cluster centers on extracellular matrix (ECM) processes: collagen fibril organization, integrin/basement membrane-related biosynthesis, cell-matrix and cell-cell adhesion, and related developmental outcomes (tendon and glomerular basement membrane development). While nervous system development appears among terms, it likely reflects ECM roles in neural development rather than a neural-specific function. Overall, the shared function is ECM assembly and adhesion during development.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0019800","count":3},{"id":"GO:0045112","count":2},{"id":"GO:0032836","count":2}]},{"hash":"2189321677028330269","title":"Gene Expression and Protein Turnover with Immune Signaling","description":"Several top GO terms cluster around RNA processing and translation (translation, spliceosome, ribosome biogenesis) and ubiquitin-dependent protein turnover (ERAD, proteolysis), indicating a role in gene expression homeostasis. The presence of innate immune response, defense against virus, and NF-kappaB signaling suggests these genes may also participate in immune signaling pathways that interface with cellular stress and protein quality control. Overall, the label reflects a broad theme of gene expression regulation and protein turnover with some immune signaling involvement, though the set is heterogeneous.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0045087","count":2}]},{"hash":"841481507488073073","title":"Ubiquitin-Proteasome Regulation of Mitosis and DNA Repair","description":"The top GO terms cluster around ubiquitin-mediated proteolysis (SCF, ubiquitination, neddylation) and key mitotic controls (G2/M transition, exit from mitosis, chromosome segregation), along with DNA repair pathways (HR, NER). This suggests a cohesive module where protein turnover via the ubiquitin-proteasome system tightly governs mitotic progression and genome maintenance, despite some ancillary terms like viral process or ABA response likely reflecting broader stress or non-specific associations.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0031146","count":15},{"id":"GO:0010458","count":15},{"id":"GO:0000086","count":15},{"id":"GO:0007059","count":15},{"id":"GO:0016032","count":15}]},{"hash":"1324324623371520719","title":"NOD1/NOD2 Innate Immune Signaling","description":"This cluster is best described by enrichment in NOD1 and NOD2 signaling pathways, indicating a core theme of NOD-like receptor\u2013mediated innate immune signaling and related inflammatory responses. Some other terms present (e.g., chemokine production, cell growth) are broader or ancillary and do not override the dominant NOD signaling signal.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070427","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0070431","count":7},{"id":"GO:0007568","count":5},{"id":"GO:0050955","count":5}]},{"hash":"131233132728120405","title":"Nuclear import and pore complex assembly","description":"This cluster is dominated by GO terms related to proteins being imported into the nucleus (NLS-bearing proteins, ribosomal protein import, splicing factor import) and nuclear pore complex assembly, which together define nucleocytoplasmic transport and NPC formation as the central theme. There are a few related but distinct terms (intraciliary transport, GTPase regulation, desumoylation) that touch on broader transport or regulatory processes, but the strongest signal is nuclear import and NPC assembly.","confidence":"Medium","size":15,"edges":56,"triangles":112,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":6},{"id":"GO:0006610","count":6},{"id":"GO:0035735","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0042176","count":5}]},{"hash":"230004263419443336","title":"Spliceosome-Mediated mRNA Processing and Regulation","description":"The top terms are dominated by spliceosome-driven processes: cis and alternative mRNA splicing, mRNA polyadenylation, modification, and stabilization, including regulation of mRNA stability under stress. While a couple of translation-related terms appear, the strongest signal is RNA processing and post-transcriptional regulation of mRNA, especially via splicing and stability controls.","confidence":"High","size":15,"edges":33,"triangles":30,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":8},{"id":"GO:0000381","count":7},{"id":"GO:0045292","count":7},{"id":"GO:0010610","count":7},{"id":"GO:1903586","count":6}]},{"hash":"1682184830771624396","title":"Developmental transcription and differentiation regulators","description":"This cluster centers on genes involved in DNA-templated transcription and broad developmental processes (multicellular development, neural tube closure, chondrocyte differentiation) plus signaling pathways that influence cell fate decisions (T cell receptor signaling, ER stress\u2013related apoptosis). The common theme is developmental gene regulation and differentiation rather than a single specific pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0002062","count":2},{"id":"GO:0097011","count":2}]},{"hash":"2046544749098912802","title":"Neural Development and Synaptic Signaling","description":"The top GO terms are dominated by neural-related processes: positive regulation of synapse assembly, retinal ganglion cell axon guidance, cerebellum development, and trans-synaptic signaling, indicating a focus on neural development and synaptic connectivity. Other terms (immune and organ development) are present but appear secondary, so the central theme is neural development and synaptic signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0050798","count":3},{"id":"GO:0031290","count":3},{"id":"GO:0099557","count":2},{"id":"GO:0032298","count":2}]},{"hash":"1154500957024631894","title":"Aromatic compound catabolism and detoxification","description":"The top GO terms cluster around the breakdown and metabolism of aromatic and xenobiotic compounds (stilbene, alkaloids, beta-ketoadipate pathway, triglyceride catabolic processes) as well as cellular defenses against toxins and oxidants. This suggests a functional theme of degrading and detoxifying diverse organic molecules, typical of aromatic compound catabolic pathways and related detox responses. Some terms (menaquinone biosynthesis, C-terminal demethylation) are ancillary to metabolism and do not contradict the main theme, so the label remains representative.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0009636","count":5},{"id":"GO:0046272","count":4},{"id":"GO:0009234","count":4}]},{"hash":"174970135932136429","title":"Innate Immune Response and Inflammatory Regulation","description":"This cluster centers on innate immunity and control of inflammation, with terms like innate immune response, negative regulation of acute inflammatory response, and regulation of macrophage-related processes, plus positive regulation of reactive oxygen species. While a few terms touch on unrelated areas (yeast response, chaperone assembly, development), the dominant pattern is immune signaling and inflammatory regulation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019933","count":6},{"id":"GO:0010745","count":6},{"id":"GO:0045087","count":5},{"id":"GO:0044871","count":5},{"id":"GO:0032930","count":5}]},{"hash":"2107065143563954829","title":"Cholinergic GPCR signaling with inflammation","description":"The top GO terms cluster around acetylcholine metabolism, GPCR signaling (including adenylate cyclase activation and IP3 biosynthesis), and inflammatory response. This points to a core module of cholinergic GPCR-driven signaling linked to inflammation, with a few developmental terms that may reflect GPCR roles in differentiation. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060408","count":8},{"id":"GO:0006954","count":8},{"id":"GO:0007190","count":8},{"id":"GO:0060427","count":8},{"id":"GO:0010579","count":8}]},{"hash":"1485980328147398469","title":"Unknown","description":"The top GO terms span reproductive development, lipid and xenobiotic metabolism, methylation, cell-cycle regulation, and metal/copper response, with no single unifying function evident among the proteins.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":13},{"id":"GO:0006641","count":12},{"id":"GO:0032259","count":12},{"id":"GO:0006707","count":12},{"id":"GO:0019341","count":12}]},{"hash":"570375886774719317","title":"Ubiquitin-Proteasome and Chromatin Regulation","description":"The cluster is dominated by ubiquitin-dependent protein catabolic processes (including K48-linked ubiquitination and ERAD) and histone catabolic/regulatory activities, with ties to epigenetic control (dosage compensation) and NF-kappaB signaling components. This suggests a core theme of ubiquitin-mediated protein turnover coupled to chromatin regulation, with some immune signaling context.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0033151","count":10},{"id":"GO:0036205","count":10},{"id":"GO:0030433","count":10},{"id":"GO:0007250","count":10}]},{"hash":"582448803314988715","title":"Membrane transporters for small molecules and ions","description":"The top GO terms show multiple transmembrane transport activities for nutrients (biotin, pantothenate, myo-inositol, glucose) and ions (sodium export), indicating a cluster of membrane transport proteins handling metabolite and ion flux. Additional terms related to acetylcholine biosynthesis and neural development suggest broader roles in neural tissues, but the core shared function is transport across membranes. This name captures the primary theme without overfitting to any single term.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0015878","count":3},{"id":"GO:0015887","count":3},{"id":"GO:0015798","count":3},{"id":"GO:0008292","count":3}]},{"hash":"1527927680120466486","title":"Meiotic Chromosome Cohesion and Condensation","description":"The dominant terms point to meiotic chromosome organization: centromeric sister chromatid cohesion, meiotic chromosome condensation, and chromatid separation, plus synaptonemal complex assembly. A few terms appear as noise (endosome transport, gravitropism), but the core signal is meiotic chromosome dynamics, so the label reflects the cluster\u2019s shared function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051754","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0035646","count":3},{"id":"GO:0010032","count":3},{"id":"GO:0007076","count":3}]},{"hash":"2243821265877559596","title":"Unknown","description":"The top terms span diverse cellular processes including cell division, mitophagy and mitochondrial inheritance, ribosome biogenesis and nuclear transcription, histone methylation, and even sensory perception of sound. The set does not reveal a single cohesive functional theme or module; annotations appear to reflect a broad mix of nuclear and mitochondrial processes rather than a unified cluster function. Consequently, 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:0051301","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0061734","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0007605","count":2}]},{"hash":"1683322925841919323","title":"Glomerular basement membrane development and immune adhesion","description":"The cluster centers on processes related to the glomerular basement membrane (glomerular development) and cell adhesion (heterophilic and integrin-mediated) with leukocyte tethering/rolling and complement signaling. The presence of classical/lectin complement activation and complement receptor\u2013mediated signaling alongside adhesion and angiogenesis-related migration suggests a set of proteins involved in forming the kidney filtration barrier and coordinating immune cell interactions during development or maintenance. ","confidence":"Medium","size":15,"edges":30,"triangles":26,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0006958","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0002430","count":3},{"id":"GO:0050901","count":3}]},{"hash":"1570066126975991535","title":"Cardiovascular development and signaling","description":"The cluster centers on heart development, blood coagulation, and vascular smooth muscle differentiation, with signaling pathways (ERK cascade and phosphatidylinositol biosynthesis) that support cardiovascular function. While there are immune and metabolic terms present, the strongest shared theme is cardiovascular development and signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010513","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0007507","count":3},{"id":"GO:1904659","count":3}]},{"hash":"271570606076383955","title":"Unknown","description":"The GO terms show a mix of sensory and neural-related processes (thermoception, temperature detection, pain response) alongside development and structure of visual/brain systems (cerebellum maturation, optic nerve organization) and even metabolic and behavioral responses (diet-induced thermogenesis, gravitaxis). There isn\u2019t a single cohesive function or pathway uniting these terms, so a concise, specific label isn\u2019t apparent. Confidence: None","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021590","count":3},{"id":"GO:0048016","count":3},{"id":"GO:0050955","count":3},{"id":"GO:0048266","count":3},{"id":"GO:2000340","count":3}]},{"hash":"1166216817939921774","title":"Unknown","description":"The top GO terms span plant-specific catabolic processes (chlorophyll, cellulose), detoxification, mammalian pigment cell growth, host-msymbiont interaction, various behavioral and nervous system processes, and general cell proliferation regulation, with no unifying biological theme. The cluster also shows no edges or connectivity, suggesting the proteins do not share a cohesive function in this dataset.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0098869","count":6},{"id":"GO:0015996","count":5},{"id":"GO:0097325","count":5},{"id":"GO:0046718","count":5},{"id":"GO:0001662","count":5}]},{"hash":"1433134418949673157","title":"PARP-Dependent Mitochondrial DNA Repair","description":"The dominant signals are poly-ADP-ribosylation and ATP generation from PAR, plus mitochondrial DNA repair and regulation of mtDNA replication and localization to double-strand break sites, all characteristic of a PARP-dependent mitochondrial DNA damage response.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001170","count":3},{"id":"GO:0051103","count":2},{"id":"GO:0070212","count":2},{"id":"GO:1990966","count":2},{"id":"GO:0043504","count":2}]},{"hash":"2022898629723515534","title":"Glutamatergic Synapse Assembly and Transmission","description":"The top GO terms point to excitatory synapses, including NMDA receptor clustering, AMPA receptor activity, and positive regulation of glutamatergic synaptic transmission and synapse assembly, indicating a cohesive theme of glutamatergic synapse organization and signaling (with a few developmental terms present as broad background). ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0097114","count":3},{"id":"GO:2000969","count":3},{"id":"GO:2000463","count":3}]},{"hash":"716766523176433991","title":"NF-kappaB\u2013driven inflammatory signaling","description":"The cluster\u2019s top GO terms cluster around inflammatory and immune responses, including response to lipopolysaccharide, inflammatory response, prostaglandin biosynthesis (lipid mediators), and regulation of canonical NF-kappaB signaling, along with transcriptional activation. Vitamin D response and calcium-related regulation of cardiac contraction hint at modulators of inflammation, while transmembrane transport and cell-shape regulation fit cellular inflammatory processes. Together, they point to NF-kappaB\u2013driven inflammatory signaling and lipid mediator production.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0001516","count":2},{"id":"GO:0055085","count":2},{"id":"GO:0010881","count":2},{"id":"GO:0032496","count":2}]},{"hash":"926256599064828562","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning thermoception, immune chemokine production, prostate and cerebellar development, telomere regulation, general cell growth, protein ubiquitination, and multicellular organismal processes, with no clear shared function or pathway. No network structure (edges/triangles) supports a cohesive theme, and re-added proteins without connections further suggests heterogeneity or misannotation. Therefore no single representative label can be assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050955","count":1},{"id":"GO:0071901","count":1},{"id":"GO:2000340","count":1},{"id":"GO:0060743","count":1},{"id":"GO:1904357","count":1}]},{"hash":"1394076065203616516","title":"Embryonic Development and Organogenesis","description":"The GO terms point to a broad set of embryonic development and tissue morphogenesis processes across multiple organs (endocrine development, left/right patterning, placental and pancreatic differentiation, EMT in heart cushions, cartilage, and eye morphogenesis), suggesting a cluster of genes involved in early developmental patterning and organ formation rather than a single tissue-specific function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060707","count":4}]},{"hash":"1911439454312703180","title":"Diverse Substrate Transmembrane Transporters","description":"The GO terms are dominated by various transmembrane transport processes\u2014nitrate, arabinose, fucose, sialic acid, xenobiotic, sodium, and related substrates\u2014plus a vesicular neurotransmitter loading term, indicating a cluster of membrane transporter proteins with broad substrate specificity and involvement in both nutrient uptake and vesicular transport.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":2},{"id":"GO:0015751","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0006004","count":2},{"id":"GO:0015739","count":2}]},{"hash":"960586897762753054","title":"Neural development and synaptic organization","description":"The dominant GO terms center on neuronal growth and synapse biology (axon guidance and extension, gephyrin clustering at postsynaptic densities, and regulation of glutamatergic transmission), with learning and Notch signaling modulation providing a developmental/regulatory context. Some terms appear unrelated or obsolete, but the core theme is neural development and synaptic function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0007612","count":6},{"id":"GO:0045746","count":6},{"id":"GO:0048846","count":6},{"id":"GO:0060982","count":6}]},{"hash":"234679107511829869","title":"Redox Metabolism Core","description":"The terms are dominated by oxidation-reduction and metabolic processes (redox balance, NAD+ biosynthesis, 2-oxoglutarate and methanol/ethanol metabolism). A few terms touch on development or replication, but the strongest signal is metabolic/redox, suggesting a core metabolic cluster with broader, less cohesive developmental annotations. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0045471","count":4},{"id":"GO:0045793","count":4},{"id":"GO:0021987","count":4},{"id":"GO:0048240","count":4}]},{"hash":"712648447418509360","title":"Central metabolism and vitamin K biosynthesis","description":"This cluster is dominated by core energy metabolism terms: glycolysis, TCA cycle, beta-oxidation, and gluconeogenesis, indicating strong central carbon metabolism. It also includes biosynthesis of vitamin K cofactors (phylloquinone and menaquinone), pointing to respiration-related cofactor production. Additional terms for amino-acid and phenylacetate catabolism and antibiotic biosynthesis are present, but the unifying theme appears to be energy generation coupled with vitamin K biosynthesis.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":6},{"id":"GO:0006099","count":6},{"id":"GO:0006635","count":5},{"id":"GO:0009234","count":5},{"id":"GO:0017000","count":5}]},{"hash":"679902361729527393","title":"Macrophage inflammatory lipid signaling","description":"The cluster centers on arachidonic acid\u2013derived mediators (arachidonate secretion, leukotriene biosynthesis) and related inflammatory outputs (IL-8 production, foam cell differentiation) in macrophages, with supporting lipid remodeling and cholesterol handling terms that tie lipid metabolism to immune activation. This combination suggests a coherent program of macrophage-driven inflammatory lipid signaling and lipid-mediated immune responses.","confidence":"High","size":14,"edges":59,"triangles":98,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":5},{"id":"GO:0090370","count":5},{"id":"GO:0036151","count":5},{"id":"GO:0010744","count":5},{"id":"GO:0019370","count":5}]},{"hash":"655974620139338365","title":"Detoxification and Metabolic Stress Response","description":"This cluster shows enrichment in prostaglandin biosynthesis (lipid signaling), redox detoxification (glutathione metabolism, cellular oxidant detoxification), and various metabolic and stress-related processes (starvation response, aromatic amino acid metabolism, nitrogen utilization), along with calcium-regulated muscle signaling and DNA repair. The common thread appears to be cellular stress response and metabolic regulation, particularly redox balance and detoxification activities, rather than a single specific pathway.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":13},{"id":"GO:0098869","count":8},{"id":"GO:0014810","count":8},{"id":"GO:0009407","count":8},{"id":"GO:0042594","count":8}]},{"hash":"1554091286259782680","title":"Mitotic Chromosome Assembly and Spindle Dynamics","description":"Dominant themes are mitosis and chromosome handling: mitotic cell cycle, metaphase chromosome alignment, CENP-A centromeric chromatin assembly, and microtubule severing point to spindle-mediated chromosome segregation. Additional terms like DNA replication and transcription regulation are adjacent cellular processes but support a cell-cycle\u2013centred cluster. Overall, the label captures the core function.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0007080","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0006260","count":3}]},{"hash":"1776791147768499083","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning redox, transcription, vocalization, and various biosynthetic pathways across plants, bacteria, and viruses, with no clear shared function tying the proteins together. Edges are absent, so a cohesive label cannot be assigned.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0071625","count":2},{"id":"GO:0019310","count":2},{"id":"GO:0019853","count":2}]},{"hash":"100821887091332504","title":"Vitamin, cofactor, and pigment biosynthesis","description":"The cluster is dominated by GO terms describing biosynthetic processes for vitamins (biotin, cobalamin), cofactors (menaquinone), and pigments (chlorophyll), with an additional term for antibiotic biosynthesis and related modifications. This points to a cohesive theme of metabolic biosynthesis rather than a single specialized function, even though a few terms (like nodulation and aging) are less connected. Confidence: Medium","confidence":"","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0001300","count":4},{"id":"GO:0009236","count":4},{"id":"GO:0009234","count":4}]},{"hash":"255371908258771008","title":"Proteoglycan sulfation and GAG biosynthesis","description":"The cluster shows enrichment in sulfation-related terms (peptidyl-tyrosine sulfation, protein sulfation, sulfate assimilation) and in proteoglycan/glycosaminoglycan biosynthesis terms (keratan sulfate proteoglycan biosynthetic process, heparin proteoglycan biosynthetic process, dermatan sulfate metabolic process). This combination points to a shared function in the synthesis and modification of sulfated proteoglycans, key components of the extracellular matrix. Peripheral terms such as regulation of angiotensin levels in blood and fat cell differentiation are less central to the core theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006478","count":2},{"id":"GO:0006068","count":2},{"id":"GO:0018146","count":2},{"id":"GO:0030205","count":2},{"id":"GO:0030210","count":2}]},{"hash":"1335426699185886393","title":"Neuronal signaling, ion transport, and circadian behavior","description":"This cluster is characterized by ion transport and neurotransmission terms (potassium, sodium, calcium transport; GABA signaling; EPSP) along with behavioral and circadian terms (locomotory behavior, startle and righting reflex, conditioned taste aversion, sleep/wake cycle regulation). The combination points to proteins involved in neural signaling that modulate movement, reflexes, learning, and circadian rhythms, forming a coherent neural-behavior axis cluster.","confidence":"High","size":14,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":13},{"id":"GO:0007214","count":12},{"id":"GO:0001661","count":12},{"id":"GO:0060079","count":12},{"id":"GO:0007626","count":12}]},{"hash":"1465032915954331755","title":"Unknown","description":"The top GO terms span development, multiple metabolic pathways, redox homeostasis, sperm capacitation, and membrane potential regulation, with no single cohesive function dominating; thus there is no clear thematic label for this cluster beyond Unknown.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":7},{"id":"GO:0001701","count":6},{"id":"GO:0006103","count":5},{"id":"GO:0019383","count":5},{"id":"GO:0045454","count":5}]},{"hash":"837864551385340185","title":"Ubiquitin-Proteasome Regulation of NF-\u03baB Signaling","description":"These proteins cluster around ubiquitin-dependent protein catabolism and NF-\u03baB pathway regulation (I\u03baB phosphorylation, activation of NF-\u03baB signaling), with related histone ubiquitination and chromatin-related terms. The inclusion of V(D)J recombination suggests an immune-cell context, but the dominant themes are ubiquitin-mediated proteolysis and NF-\u03baB regulation, possibly linking proteolysis to transcriptional control and chromatin remodeling in immune signaling.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0033151","count":5},{"id":"GO:0036205","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0007250","count":5}]},{"hash":"1280944202151149423","title":"Peptide Hormone Maturation and Growth Factor Production","description":"This cluster centers on processing and maturation of peptide hormones and growth factors (insulin processing, enkephalin processing, nerve growth factor production, peptide pheromone maturation), suggesting a shared role in peptide hormone maturation and growth factor\u2013related signaling. The additional terms about lipoprotein receptor catabolic processes and angiogenesis/embryonic axis development likely reflect related regulatory or downstream pathways, reinforcing a theme around peptide maturation and growth factor\u2013driven signaling rather than a single narrowly defined function.","confidence":"Medium","size":14,"edges":29,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:1905596","count":3},{"id":"GO:0032805","count":3},{"id":"GO:0007354","count":3},{"id":"GO:0032802","count":3}]},{"hash":"864508902787813857","title":"Immune Signaling and Ubiquitination","description":"The cluster\u2019s top GO terms cluster around innate and adaptive immune signaling (innate immune response, IL-1 signaling, LPS response, T cell receptor signaling) and ubiquitination pathways (K63-linked ubiquitination, protein ubiquitination, ERAD-related terms). This suggests proteins engaged in immune signal transduction and regulation via ubiquitin modifications, with some broader terms likely reflecting annotation noise. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0070498","count":4},{"id":"GO:0071732","count":4},{"id":"GO:0071222","count":4}]},{"hash":"998258708150570171","title":"Calcium signaling in neural and developmental processes","description":"This cluster centers on calcium-dependent signaling that links synaptic vesicle trafficking and neural functions (regulation of endocytosis, short-term memory, retina development) with broader calcium-responsive pathways (calcium transport, NFAT signaling, PI signaling) and calcium\u2011dependent exocytosis in platelets and growth factor signaling. The recurring theme is calcium as a key mediator across neural activity, development, and vesicle trafficking, making this label representative and specific.","confidence":"High","size":14,"edges":41,"triangles":36,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900242","count":11},{"id":"GO:0010842","count":11},{"id":"GO:0070588","count":8},{"id":"GO:0071277","count":8},{"id":"GO:0072286","count":8}]},{"hash":"1265927715926098748","title":"Neural development and signaling pathways","description":"This cluster is enriched for neural development terms (cerebellar cortex formation, Bergmann glial differentiation, regulation of axon regeneration, visual perception) and multiple signaling pathways (insulin receptor, T cell receptor), plus related growth and cell cycle processes. The common theme appears to be signal transduction linked to neural development and sensory function, though some terms (e.g., ABA signaling, immune signaling) suggest broader or cross-domain annotations.","confidence":"Medium","size":14,"edges":34,"triangles":38,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009738","count":9},{"id":"GO:0008285","count":9},{"id":"GO:0048679","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0008286","count":9}]},{"hash":"455242535828062371","title":"MAPK-Mediated Immune and Vascular Signaling","description":"The top GO terms highlight key MAPK cascades (p38 and ERK1/ERK2) together with immune signaling pathways (T cell receptor signaling, IL-1 signaling, GM-CSF response) and vascular/angiogenic processes (angiogenesis, labyrinthine layer blood vessel development, fat cell differentiation). This suggests a cohesive module where MAPK signaling governs inflammatory/immune responses and concurrently regulates vascular development and differentiation, with some stress-responsive terms (amino acid starvation, phorbol ester response) reinforcing MAPK/PKC cross-talk. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":4},{"id":"GO:0038066","count":3},{"id":"GO:0070371","count":3},{"id":"GO:1904628","count":3},{"id":"GO:0097011","count":3}]},{"hash":"2045931824467178006","title":"Embryonic development and tissue differentiation","description":"This cluster appears enriched for developmental and differentiation processes, including multicellular organism development, neural and oligodendrocyte differentiation, endodermal and cranial skeleton morphogenesis, as well as tissue responses to mechanical cues, hypoxia, and pain.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0097156","count":3},{"id":"GO:0050900","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0006508","count":3}]},{"hash":"1062896313596854010","title":"Unknown","description":"The top GO terms span vastly different biological contexts: mitotic processes (kinetochore localization, CDK regulation), cell proliferation control, neural development (Bergmann glial differentiation, cerebellar cortex formation) and signaling pathways (T cell receptor signaling, insulin signaling), with some terms obsolete or cross-species. There isn\u2019t a clear, single function tying these proteins together, so the cluster appears heterogeneous rather than functionally cohesive.","confidence":"","size":14,"edges":42,"triangles":54,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034501","count":13},{"id":"GO:0045736","count":12},{"id":"GO:0008285","count":9},{"id":"GO:0048679","count":9},{"id":"GO:0050852","count":9}]},{"hash":"1585814843730256598","title":"Transcriptional Regulation of Differentiation","description":"This cluster features GO terms centered on transcription (DNA-templated transcription and RNA polymerase II) and negative regulation of differentiation across tissues (osteoblast, myotube, neural crest, pancreatic A cell fate, skeletal muscle, etc.), suggesting proteins that control development by regulating gene expression.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060766","count":13},{"id":"GO:0045668","count":13},{"id":"GO:0006351","count":11},{"id":"GO:0010832","count":10},{"id":"GO:0006366","count":10}]},{"hash":"1996280374291856448","title":"Golgi-ER vesicle trafficking and mitotic regulation","description":"The top GO terms cluster around Golgi-to-plasma membrane transport, ER-to-Golgi vesicle transport, protein localization to the Golgi, and endocytic recycling, indicating vesicle trafficking at the Golgi/ER. Additional terms on mitosis (cell cycle and chromatid segregation) and regulation of GTPase activity (often governing trafficking and TORC1 signaling) suggest a coordinated module linking Golgi/ER trafficking with cell division and growth signaling.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0032456","count":3},{"id":"GO:0006893","count":3}]},{"hash":"1322896738298398005","title":"Metabolism and Redox Homeostasis","description":"Most top terms point to central metabolic processes (2-oxoglutarate metabolism, dihydrolipoamide metabolism) and thiamine biosynthesis, alongside cell redox homeostasis. This suggests the proteins are tied to energy production and redox balance, with some unrelated annotations (aging, brain development, camphor catabolism) likely adding noise. Overall, the label captures the dominant theme of metabolism and redox regulation.","confidence":"Medium","size":14,"edges":43,"triangles":55,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008283","count":10},{"id":"GO:0009228","count":10},{"id":"GO:0021762","count":9},{"id":"GO:0006103","count":9},{"id":"GO:0019383","count":9}]},{"hash":"1966277148250908429","title":"Tissue remodeling and morphogenesis","description":"These proteins group around remodeling and morphogenesis, driven by proteolysis of extracellular matrix and peptides (collagen, bradykinin, neuropeptides) and by regulated catalytic activity. The presence of decidualization, lung morphogenesis, bone resorption, and intramembranous ossification points to ECM remodeling and developmental tissue differentiation as a common theme, with related hormone and regulatory signals coordinating these processes.","confidence":"High","size":14,"edges":84,"triangles":292,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0046697","count":14},{"id":"GO:0060441","count":14},{"id":"GO:0051603","count":14},{"id":"GO:0010813","count":14},{"id":"GO:0050790","count":14}]},{"hash":"1323215345385645149","title":"Embryonic vascular and neural development signaling","description":"This cluster pools proteins tied to developmental processes, especially vascular and neural morphogenesis: angiogenesis, heart and spinal cord development, and regulation of vasoconstriction, plus signaling pathways (ERK cascade, Rho/GTPase activity) and cytoskeletal dynamics (microtubule-based movement). The mix points to coordinated signaling and remodeling during embryonic vascular and neural development rather than a single pathway or function. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0045907","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0043547","count":2}]},{"hash":"643131752531958152","title":"Neuroimmune-autonomic signaling","description":"Based on the top GO terms, the proteins appear involved in nervous system signaling (dopaminergic synaptic transmission, morphine response, adrenergic signaling), immune modulation (negative regulation of inflammatory response, T cell chemotaxis), and autonomic/vascular regulation (vasoconstriction, histamine-induced gastric acid secretion). These patterns suggest a cohesive theme of cross-talk among neural, immune, and vascular/hormonal pathways, rather than a single narrow function.","confidence":"Medium","size":14,"edges":13,"triangles":3,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":12},{"id":"GO:0043278","count":12},{"id":"GO:0010818","count":11},{"id":"GO:0071881","count":11},{"id":"GO:0031649","count":11}]},{"hash":"2082087114421583896","title":"Spliceosome-Regulated RNA Processing and Translation","description":"This cluster centers on spliceosome-mediated regulation of mRNA splicing (positive and negative), plus mRNA stabilization, translation, and ribosome biogenesis, with a touch of centrosome-related terms. Together these suggest a cohesive module linking RNA processing with protein synthesis, potentially coordinating splicing outcomes with ribosome assembly.","confidence":"Medium","size":14,"edges":88,"triangles":330,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0048025","count":4},{"id":"GO:0006412","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0000381","count":3},{"id":"GO:0048026","count":3}]},{"hash":"238396217894003274","title":"Vertebrate eye and brain morphogenesis","description":"The top GO terms cluster around neural/eye development\u2014brain segmentation, rhombomere development, camera-type eye development, embryonic eye morphogenesis, and retina development\u2014suggesting these proteins collectively participate in vertebrate neural and visual system morphogenesis. Supporting terms include pituitary gland and osteoblast development, indicating broader embryonic organ formation, but the strongest signal is eye/brain morphogenesis.","confidence":"High","size":14,"edges":55,"triangles":84,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035284","count":6},{"id":"GO:0021571","count":6},{"id":"GO:0006366","count":6},{"id":"GO:0021983","count":5},{"id":"GO:0002076","count":5}]},{"hash":"474040197799979895","title":"Neuronal calcium signaling and synaptic plasticity","description":"This cluster centers on calcium-dependent neuronal signaling, with themes of neurotransmitter secretion, calcium-responsive regulation, and modulation of synaptic plasticity via dephosphorylation and calcineurin-NFAT signaling. The inclusion of negative regulation of protein kinase activity and protein dephosphorylation reinforces a control of phosphorylation states at synapses, while calcium transport and cellular responses to calcium tie these processes together. Some glycoprotein processing and ER-associated degradation terms may relate to neuronal protein trafficking, but the overarching pattern is Ca2+-driven synaptic signaling and plasticity.","confidence":"High","size":14,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0007269","count":3},{"id":"GO:0006470","count":3},{"id":"GO:0048168","count":3},{"id":"GO:0007605","count":3}]},{"hash":"1120708586787466391","title":"Wnt/Hippo-driven growth and apoptosis signaling","description":"This cluster is enriched for canonical Wnt signaling and Hippo pathway terms, along with apoptotic processes and regulation of cell proliferation, pointing to a module that coordinates growth, survival, and cell fate. Additional terms like keratinocyte differentiation and trans-synaptic signaling suggest broader developmental roles, but the dominant theme is growth control and programmed cell death.","confidence":"High","size":14,"edges":57,"triangles":95,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":14},{"id":"GO:0006915","count":14},{"id":"GO:0060044","count":14},{"id":"GO:0030216","count":14},{"id":"GO:0035329","count":14}]},{"hash":"665175634006183340","title":"Innate Immune NF-kB Signaling","description":"This cluster is enriched for innate immune response and antiviral defense terms, with several GO terms pointing to NF-kB activation pathways (NF-kB-inducing kinase, I-kB phosphorylation), JNK cascade regulation, TNF-mediated signaling, and ubiquitination. Together these terms suggest a cohesive function in antiviral innate immunity via NF-kB/JNK signaling.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0090073","count":7},{"id":"GO:0045087","count":6},{"id":"GO:0051607","count":6},{"id":"GO:0043123","count":6},{"id":"GO:0046328","count":5}]},{"hash":"1397878423064039076","title":"Mitochondrial energy production","description":"The top GO terms are dominated by mitochondrial electron transport (NADH to ubiquinone) and ATP synthesis coupled to electron transport, indicating a core set of proteins involved in oxidative phosphorylation and energy generation. While there are additional terms related to translation, ribosome maturation, and some biosynthetic processes, these are likely ancillary or reflect broader cellular metabolism. Overall, the cluster appears to represent mitochondrial energy metabolism and respiration.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":4},{"id":"GO:0019684","count":2},{"id":"GO:0042773","count":2},{"id":"GO:0030004","count":2},{"id":"GO:0006810","count":2}]},{"hash":"2161817785029267514","title":"Cell adhesion and Fc receptor\u2013mediated phagocytosis","description":"These proteins cluster around cell\u2013cell adhesion molecules (homophilic/heterophilic adhesion, adhesion molecule production) and immune signaling pathways (phagocytosis, Fc-gamma receptor signaling), suggesting a theme of adhesion-mediated interactions combined with Fc receptor\u2013driven phagocytosis, with some tissue morphogenesis context (kidney/lymphatic development). ","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0072218","count":3},{"id":"GO:0006910","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0060355","count":2}]},{"hash":"200296937965945395","title":"Unknown","description":"The top GO terms span very different biological processes (kinase activity regulation, GPCR signaling, heart action potential, thermoception, chemokine production, epithelial development, telomere maintenance, ubiquitination, and general cell growth), with no clear single theme tying the proteins together. The lack of a cohesive function or pathway suggests the cluster is not functionally unified.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071901","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0050955","count":4},{"id":"GO:2000340","count":4}]},{"hash":"1385194512412912785","title":"Cell cycle and growth regulation","description":"The cluster\u2019s top GO terms are dominated by cell cycle, cell growth, and telomere maintenance regulation, with supporting kinase activity regulation and apoptosis-related terms, suggesting a shared theme of cellular proliferation and survival control. Some terms related to temperature sensing and vitamin D response may reflect broader stress or developmental roles, but the dominant signal points to cell-cycle and growth regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":9},{"id":"GO:0033280","count":8},{"id":"GO:0097284","count":8},{"id":"GO:0050955","count":7},{"id":"GO:0071901","count":7}]},{"hash":"108698026991002579","title":"Amino Acid Transport and Neural Signaling","description":"GO terms indicate import of L-arginine and L-lysine across membranes, arginine catabolism, and nitric oxide production, together with chemical synaptic transmission and dendritic spine development. This points to a group of proteins linking membrane amino acid transport with neuronal signaling; the other terms (transepithelial chloride transport, swim bladder inflation, thermosensory behavior) may reflect related sensory/epithelial roles but are less central to the core theme.","confidence":"Medium","size":14,"edges":15,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0040040","count":1},{"id":"GO:0097638","count":1},{"id":"GO:0007268","count":1},{"id":"GO:0097639","count":1},{"id":"GO:0002537","count":1}]},{"hash":"779953713872065945","title":"Neurodevelopment and cardiovascular organogenesis signaling","description":"This cluster shows enrichment for neural development (axonogenesis, visual perception) alongside cardiovascular development (heart development, angiogenesis) and broad developmental signaling (GPCR signaling pathways, NF-kappaB, apoptosis) plus cell cycle processes. The common thread appears to be developmental signaling that governs nervous system and heart/vasculature organogenesis, with ancillary cell cycle and survival pathways.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":4},{"id":"GO:0007205","count":3},{"id":"GO:0035994","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0043065","count":3}]},{"hash":"2244536246203023817","title":"Autophagy-linked innate antiviral defense","description":"This cluster is driven by GO terms for innate immune response, defense response to virus, and autophagy, pointing toward proteins involved in antiviral defense pathways that use autophagy. Other terms like cell division and placental morphogenesis are less central to the core signal, so the label focuses on the antiviral autophagy theme. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0006914","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3}]},{"hash":"2064143370491857398","title":"Ribosome Biogenesis and Innate Defense","description":"This cluster is dominated by ribosome-related terms (ribosome biogenesis, ribosomal subunit export, tRNA modification, protein homooligomerization), pointing to a core role in ribosome assembly and protein synthesis. The presence of innate immune and defense terms (innate immune response, defense response to protozoan and Gram-negative bacteria) suggests either dual functions or annotation overlap, indicating a secondary immune-defense signal accompanying the primary ribosome-related function.","confidence":"Medium","size":14,"edges":5,"triangles":2,"max_degree":3,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0042832","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0050829","count":3},{"id":"GO:0000055","count":3}]},{"hash":"1998416578076607445","title":"Plant cell wall glycosylation and seed coat mucilage","description":"The top GO terms cluster around plant-specific glycosylation (e.g., hydroxyproline O-linked glycosylation, poly-N-acetyllactosamine biosynthesis) and secretion-related processes involved in plant mucilage and root hair development (seed coat mucilage, root hair). Although there are a few non-plant terms as outliers, the dominant signal points to plant cell wall polysaccharide biosynthesis and mucilage deposition. ","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":3},{"id":"GO:0006486","count":3},{"id":"GO:0048240","count":2},{"id":"GO:1902476","count":2},{"id":"GO:0051454","count":2}]},{"hash":"1757579190311495452","title":"Myeloid Differentiation and Osteoclastogenesis","description":"The top GO terms point to differentiation processes in the myeloid lineage (monocytes, macrophages, dendritic cells) and specifically osteoclast differentiation and macrophage fusion, along with inflammatory signaling (TNF) and estrogen stimulus responses. This suggests a cohesive theme of immune cell differentiation with a focus on osteoclastogenesis and related macrophage activity, with one unrelated term likely noise. Therefore, the cluster best maps to myeloid lineage differentiation culminating in osteoclast formation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071356","count":3},{"id":"GO:0021794","count":2},{"id":"GO:0071391","count":2},{"id":"GO:0072674","count":2},{"id":"GO:0045657","count":2}]},{"hash":"940639889906834038","title":"Unknown","description":"The GO terms cover a wide range of unrelated processes (growth, transcription, immune signaling, actin dynamics, ubiquitin-proteasome degradation, DNA repair, methylation, development, and RNA splicing), so there is no single cohesive theme to name the cluster.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":2},{"id":"GO:0042797","count":1},{"id":"GO:0032728","count":1},{"id":"GO:0030042","count":1},{"id":"GO:0031146","count":1}]},{"hash":"1288694845707215470","title":"Inflammation, coagulation, and vascular activation","description":"Top GO terms include inflammatory response, blood coagulation, platelet activation, vasoconstriction, LPS response, and T cell chemotaxis, indicating a coordinated inflammatory\u2013hemostatic\u2013vasoreactive program. The terms also touch on adrenergic signaling and heat generation, suggesting broader stress-related vascular/immune responses. Although there are no direct edges, the shared themes point to a functional cluster of immune and vascular activation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0007596","count":7},{"id":"GO:0045907","count":7},{"id":"GO:0032496","count":7},{"id":"GO:0045986","count":7}]},{"hash":"1630983739347311255","title":"Neural development and synapse assembly","description":"The proteins are enriched for brain development and synaptic organization terms (corpus callosum development, axonal fasciculation, positive regulation of synapse assembly, excitatory postsynaptic potential), indicating a neural development/synaptic function cluster. Some terms also reflect innate immune signaling (MyD88-dependent TLR pathway, IL-6 production), suggesting potential neuroimmune modulation within neural wiring. ","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0007050","count":2},{"id":"GO:0022038","count":2},{"id":"GO:0045410","count":2}]},{"hash":"1854533829677478473","title":"Signaling regulation and thermoception","description":"The terms point to a broad theme of signaling control (ubiquitination, kinase activity regulation, NF-kappaB modulation) intertwined with stress/immune signaling (CXCL1 production), vitamin D response, and temperature sensing, suggesting a cluster of diverse signaling and thermoception-related functions rather than a single pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0032088","count":6},{"id":"GO:0050955","count":5},{"id":"GO:0071901","count":5}]},{"hash":"414032669741614369","title":"Unknown","description":"The GO terms span immune regulation, neural signaling, and various metabolic and cell-cycle processes; no single unifying function emerges for all proteins. Because of this broad, mixed set of terms and low connectivity, I cannot assign a specific functional label beyond Unknown.","confidence":"","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0001946","count":1},{"id":"GO:1900490","count":1},{"id":"GO:0051315","count":1}]},{"hash":"185466353040878125","title":"Unknown","description":"The terms span immune signaling (TLR pathways), stress responses (cortisol response, mitochondrial depolarization), cell cycle and chromatin processes, extracellular matrix organization, and neural development, with no single cohesive function dominating. Therefore there isn\u2019t a clear, unified theme to label this cluster beyond Unknown.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0045842","count":3},{"id":"GO:0034162","count":2},{"id":"GO:0019800","count":2}]},{"hash":"874592195387432450","title":"Unknown","description":"The GO terms span diverse biological processes (inner ear development, sperm binding regulation, wound healing, digestion, stress response, acrosomal vesicle exocytosis, humoral immune response, muscle cell homeostasis, transcription regulation, and complement activation), with no clear single function or interaction network linking all 14 proteins. Edges are zero, supporting lack of a cohesive module.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0048839","count":4},{"id":"GO:2000360","count":3},{"id":"GO:0042060","count":3},{"id":"GO:0007586","count":3},{"id":"GO:0035902","count":3}]},{"hash":"857595466581079059","title":"Unknown","description":"The top GO terms span development (cochlea morphogenesis, axon extension/guide), immune signaling (TLR9 and MyD88-dependent pathways), broader signaling regulation (Wnt, CAMKK-AMPK), cellular stress responses (mitochondrial depolarization), and hormonal response (cortisol), with several obsolete terms. There is no clear, single biological theme connecting these functions, suggesting the cluster does not represent a cohesive shared function. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090103","count":2},{"id":"GO:0019933","count":2},{"id":"GO:0030111","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0019800","count":2}]},{"hash":"619503300656368925","title":"Muscle fiber development and NFAT-calcium signaling","description":"The top terms point to skeletal muscle fiber development, fiber-type switching (fast/slow), and regulation of the calcineurin-NFAT signaling cascade with calcium dynamics, suggesting a core theme of muscle differentiation and calcium-driven NFAT signaling. Angiogenesis and other terms may be related contextually to tissue remodeling, while a few annotations (e.g., lipid A biosynthesis, cell budding) appear less central. Overall, the cluster seems centered on muscle growth and calcium/NFAT\u2013mediated signaling.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0051533","count":2},{"id":"GO:0009245","count":2},{"id":"GO:0014883","count":2}]},{"hash":"2202905978405637009","title":"Vertebrate Development and Immune Regulation","description":"These proteins show enrichment for developmental processes (axonogenesis, eye morphogenesis, podocyte development) alongside immune/inflammatory signaling (cytokine production, granulocyte differentiation, classical complement activation). The combination suggests a cluster of factors involved in coordinating development with immune modulation, 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:0048936","count":3},{"id":"GO:1900017","count":3},{"id":"GO:0030853","count":2},{"id":"GO:0033034","count":2},{"id":"GO:0048593","count":2}]},{"hash":"1922037391438403006","title":"Unknown","description":"The top GO terms are highly heterogeneous, including sensory perception of sound, acrosome reaction, heart development, root cap development, and several ion or amino acid transmembrane transport/import terms. There is no single cohesive function linking these terms, and the mix of animal/plant developmental terms with transport terms plus possible annotation noise suggests unclear functional coherence for this cluster.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0007340","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0035725","count":2},{"id":"GO:0071805","count":2}]},{"hash":"2266970994772472237","title":"Vertebrate Eye and Vessel Morphogenesis","description":"This cluster is enriched with vertebrate developmental terms, especially eye development (camera-type eye development) and branching blood vessel morphogenesis, along with positive regulation of Hedgehog (Smoothened) signaling, suggesting a role in morphogenetic signaling during organ development. Some other terms hint at broader cellular stress or neuronal plasticity, but the dominant pattern supports developmental morphogenesis.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0045880","count":2},{"id":"GO:0043010","count":2},{"id":"GO:0090370","count":2},{"id":"GO:0001569","count":2}]},{"hash":"1268884321893667072","title":"Neural crest cell migration and heart morphogenesis","description":"The top GO terms cluster around neural crest cell migration, heart/outflow tract morphogenesis, pharyngeal arch artery morphogenesis, and hedgehog signaling regulation, suggesting a cohesive neural crest\u2013driven developmental program contributing to cardiac formation. Some terms (like taste perception regulation) may reflect broader or noisy annotations, but the core theme is neural crest\u2013mediated heart development.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904657","count":3},{"id":"GO:0061626","count":3},{"id":"GO:0048705","count":3},{"id":"GO:0003253","count":3},{"id":"GO:0035036","count":3}]},{"hash":"350746414024267622","title":"Ubiquitin-dependent proteostasis and aggresome formation","description":"The proteins cluster around deubiquitination and ubiquitin-dependent protein catabolic processes, including monoubiquitination and K48/K11 linkages, plus cellular responses to misfolded proteins and aggresome assembly. This points to a cohesive role in protein quality control and degradation via the ubiquitin-proteasome system, with possible links to NF-kappaB signaling and transcriptional regulation; unrelated terms like placenta development appear as broader regulatory associations but do not define the core theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035520","count":2},{"id":"GO:0071108","count":2},{"id":"GO:0035871","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0071218","count":2}]},{"hash":"1328610778089873451","title":"Unknown","description":"Top terms span several distinct metabolic processes (retinol/retinal, fructose/sorbitol, cholesterol) and signaling/homeostasis terms (calcium response, JAK-STAT signaling, renal water homeostasis, male gonad development). No single cohesive function links them, so a specific label cannot be assigned.","confidence":"","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":11},{"id":"GO:0042574","count":10},{"id":"GO:0046370","count":9},{"id":"GO:0006707","count":8},{"id":"GO:0071277","count":8}]},{"hash":"912822704507744252","title":"Inflammation-Driven Development and Neural Guidance","description":"The cluster centers on inflammatory responses (response to lipopolysaccharide, inflammatory response) coupled with developmental and neural-patterning signals (multicellular development, synapse assembly, cell adhesion, planar cell polarity pathways, dopaminergic/axon guidance). The inclusion of angiogenesis-related terms (endothelial proliferation in sprouting angiogenesis) reinforces tissue remodeling during inflammation. Together, these terms point to a network coordinating immune response, vascular remodeling, and neural development cues, justifying a label that captures inflammation linked to developmental and neural guidance processes.","confidence":"Medium","size":13,"edges":46,"triangles":71,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032496","count":8},{"id":"GO:0071260","count":8},{"id":"GO:1903588","count":8},{"id":"GO:0006954","count":8},{"id":"GO:0007275","count":7}]},{"hash":"1832992852824037750","title":"Diverse Biosynthetic Pathways","description":"The top GO terms reflect a mix of biosynthetic processes across different molecule classes (antibiotic biosynthesis, fatty acid elongation, very long-chain fatty acid biosynthesis, phenylpropanoid biosynthesis, phylloquinone catabolism, retinoic acid biosynthesis, steroid catabolism, O antigen biosynthesis). There isn\u2019t a single cohesive pathway governing the cluster; instead, it appears to capture a general tendency toward diverse biosynthetic activities. This justifies a label of diverse biosynthetic pathways rather than a more specific function.","confidence":"Medium","size":13,"edges":4,"triangles":1,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0017000","count":6},{"id":"GO:0030497","count":5},{"id":"GO:0042761","count":5},{"id":"GO:0009699","count":5}]},{"hash":"1768934064476978044","title":"Immune and neuronal signaling with apoptosis","description":"This cluster is dominated by GO terms related to immune responses (cellular response to lipopolysaccharide, T cell receptor signaling, GM-CSF stimulus) and neuronal communication (glutamatergic synaptic transmission), along with apoptosis regulation and plasticity. The combination suggests proteins involved in stress-related signaling that bridges immune and neural communication, with regulation of cell fate. The presence of ribosomal transcription and cardiac proliferation terms indicates broader stress-response pathways rather than a single specific function, supporting a broad \u201cimmune plus neuronal signaling with apoptosis\u201d theme.","confidence":"Medium","size":13,"edges":32,"triangles":28,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071222","count":12},{"id":"GO:0050852","count":12},{"id":"GO:0097011","count":12},{"id":"GO:0035249","count":12},{"id":"GO:0043065","count":12}]},{"hash":"1877616381419993805","title":"Ribosome Biogenesis and LSU rRNA Maturation","description":"The top GO terms cluster around maturation of the large subunit rRNA and overall ribosome biogenesis, including large-subunit biogenesis, preribosome assembly, and ribosome assembly, indicating the proteins mainly participate in ribosome production and rRNA processing. Some other terms (viral process, spliceosome-related) appear less central and may reflect broader RNA-processing roles, but the dominant signal is ribosome-related.","confidence":"High","size":13,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":2},{"id":"GO:0042273","count":2},{"id":"GO:1902626","count":2},{"id":"GO:0042255","count":2},{"id":"GO:0016032","count":2}]},{"hash":"63530921345419948","title":"Lipid and xenobiotic metabolism","description":"This cluster is dominated by lipid-related processes (prostaglandin biosynthesis; triglyceride and cholesterol catabolism) and xenobiotic catabolic activities (camphor, carbazole, dibenzo-p-dioxin). Together, these terms suggest a functional group of enzymes involved in lipid signaling and detoxification of environmental compounds, with a few unrelated GO terms likely reflecting annotation noise.","confidence":"Medium","size":13,"edges":49,"triangles":92,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":7},{"id":"GO:0006641","count":6},{"id":"GO:0019383","count":6},{"id":"GO:0046232","count":6},{"id":"GO:0032259","count":5}]},{"hash":"626507670299921021","title":"Xenobiotic and Vitamin Transmembrane Transporters","description":"Based on the top GO terms, the cluster is enriched for xenobiotic transmembrane transport and vitamin transmembrane transport, suggesting these proteins function as membrane transporters for small molecules. Several other terms (antibiotic transport, cochlea morphogenesis, cartilage development, neural crest migration, forebrain proliferation, nodulation, pancreatic differentiation) are more diverse and may reflect secondary roles, species-specific annotations, or multi-function members within a transporter gene family. Overall, the dominant theme is membrane transport of xenobiotics and vitamins, so the label captures the core functional theme with moderate confidence.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0017000","count":2},{"id":"GO:0090103","count":2}]},{"hash":"101102752807439065","title":"Bacterial cell wall biosynthesis and biofilm formation","description":"The GO terms cluster around components and processes of the bacterial cell envelope, including lipid A and lipopolysaccharide biosynthesis, undecaprenyl phosphate\u2013linked biosynthetic steps, and spore wall assembly, complemented by biofilm formation and antibiotic response. While some terms touch on unrelated metabolisms (xylan catabolism, allantoin biosynthesis) and a growth process like lymphangiogenesis, the dominant pattern ties envelope construction/remodeling to surface-associated community behavior, justifying a label centered on cell wall biosynthesis and biofilm. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009245","count":5},{"id":"GO:0045493","count":3},{"id":"GO:0036108","count":3},{"id":"GO:0042244","count":3},{"id":"GO:0034232","count":3}]},{"hash":"1069152190507082023","title":"Membrane Ion Transport (K+, Na+, Ca2+, H+)","description":"This cluster is best labeled Membrane Ion Transport because its top GO terms converge on transmembrane transport of multiple ions (potassium, sodium, calcium, protons) and related phospholipid translocation, suggesting a set of membrane transport proteins. Some terms (translation, stilbene catabolic process, cardiac hypertrophy regulation) may reflect annotation noise or multifunctionality, but the dominant signal is ion transport across membranes.","confidence":"Medium","size":13,"edges":13,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0030007","count":3},{"id":"GO:0097623","count":3},{"id":"GO:0036376","count":3},{"id":"GO:0046272","count":2}]},{"hash":"2036633148076844353","title":"Atherosclerosis-related inflammation and vascular remodeling","description":"These proteins cluster around innate immune and acute inflammatory responses (innate immunity, acute inflammatory response), alongside ECM remodeling and endothelial/mesenchymal dynamics (collagen fibril organization, endothelial cell migration and proliferation, epithelial-to-mesenchymal transition). The presence of foam cell differentiation regulation and zymogen activation ties the group to protease-driven remodeling and coagulation processes typical of vascular inflammation and atherogenesis. Confidence: High","confidence":"","size":13,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0055114","count":8},{"id":"GO:0010744","count":8},{"id":"GO:0002438","count":8},{"id":"GO:0030199","count":8}]},{"hash":"1070617633586615226","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009243","count":2},{"id":"GO:0009718","count":2},{"id":"GO:0042351","count":2},{"id":"GO:0006012","count":2},{"id":"GO:0009242","count":2}]},{"hash":"1455985387667496172","title":"Vesicle trafficking and actin remodeling","description":"They show strong signals for vesicle docking, endosome transport, raft distribution, and actin filament regulation, indicating a shared role in vesicle trafficking and cytoskeletal remodeling that underpins development and cell movement.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000011","count":6},{"id":"GO:0007605","count":5},{"id":"GO:0044855","count":4},{"id":"GO:0006904","count":4},{"id":"GO:0038089","count":4}]},{"hash":"1757871823500829171","title":"GPCR-Mediated Physiological Signaling","description":"These proteins cluster around G-protein coupled receptor (GPCR) signaling and downstream cAMP regulation, as shown by terms like adenylate cyclase-inhibiting adrenergic receptor signaling and negative regulation of adenylate cyclase. Dopaminergic synaptic transmission, norepinephrine/epinephrine\u2013mediated vasoconstriction, and heat generation all reflect GPCR-driven physiological outputs. Although one term touches T cell chemotaxis, the dominant theme is GPCR signaling across nervous, cardiovascular, and metabolic processes, supporting the label GPCR-Mediated Physiological Signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010818","count":12},{"id":"GO:0071881","count":12},{"id":"GO:0031649","count":12},{"id":"GO:0001963","count":12},{"id":"GO:0001697","count":12}]},{"hash":"249178611409871433","title":"Immune and developmental signaling regulators","description":"The cluster prominently features immune-related signaling (T cell receptor signaling, innate immune response) alongside developmental and regulatory cues (Wnt pathway regulation, multicellular development, cell migration, transcriptional and DNA replication activity). This suggests proteins that coordinate immune signaling with developmental processes and proliferation control. ","confidence":"High","size":13,"edges":15,"triangles":7,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0090090","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0043065","count":4}]},{"hash":"286116012281378560","title":"Integrin signaling and ECM remodeling","description":"The dominant GO terms point to integrin-mediated signaling, extracellular matrix modulation (hyaluronan metabolism, metallopeptidase activity), and processes like angiogenesis and fibroblast migration, indicating a cluster centered on cell-ECM adhesion and tissue remodeling. Additional terms for transcription and development reflect broader regulatory roles but do not override the main theme.","confidence":"High","size":13,"edges":8,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007229","count":9},{"id":"GO:1905050","count":9},{"id":"GO:0030212","count":9},{"id":"GO:0006351","count":7},{"id":"GO:0042535","count":7}]},{"hash":"425793565953008111","title":"RNA splicing regulation and gene silencing","description":"Cluster enrichment centers on post-transcriptional RNA processing and gene expression control, with multiple terms for spliceosome-mediated and alternative mRNA splicing, ncRNA- and miRNA-mediated gene silencing, mRNA stabilization, and RNA modification. While some terms are obsolete, the core themes point to coordinated regulation of RNA processing and translation at the RNA level.","confidence":"Medium","size":13,"edges":24,"triangles":17,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0006378","count":6},{"id":"GO:0000381","count":5},{"id":"GO:1903586","count":5}]},{"hash":"1607574502407559152","title":"Vesicle trafficking and membrane organization","description":"This cluster centers on vesicle formation and movement, including exocytosis regulation, ER-to-Golgi transport, synaptic vesicle budding, and endosome-to-lysosome transport, plus lysosomal membrane organization and epithelial polarity. Small GTPase signaling likely drives these trafficking processes; apoptosis terms are present but less central to the core theme.","confidence":"Medium","size":13,"edges":8,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":3},{"id":"GO:0045956","count":3},{"id":"GO:1902824","count":3},{"id":"GO:0070142","count":3},{"id":"GO:1990386","count":3}]},{"hash":"1944805692719517392","title":"Collagen-rich ECM and signaling","description":"Top terms center on collagen fibril organization and cuticle-based molting, implying an extracellular matrix core. Receptor tyrosine kinase activation and regulation of angiogenesis suggest associated developmental signaling. Immune or neural terms (complement activation, bacterial agglutination, fertilization, synapse maintenance) appear as broader or incidental annotations. Together this points to collagen-rich extracellular matrix remodeling linked with growth signaling.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001867","count":10},{"id":"GO:0018996","count":9},{"id":"GO:0030199","count":7},{"id":"GO:0016525","count":7},{"id":"GO:0043152","count":7}]},{"hash":"2228525306331975055","title":"Neuronal synaptic signaling and membrane trafficking","description":"The proteins show enrichment for synapse assembly, long-term potentiation, calcium response, and brain development, alongside endocytic and lipid signaling processes (ubiquitin-dependent endocytosis, phosphatidylinositol signaling, sphingolipid and phosphatidylcholine metabolism), indicating a cohesive theme of neuronal communication and membrane dynamics at synapses.","confidence":"High","size":13,"edges":74,"triangles":243,"max_degree":12,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007416","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0071277","count":3},{"id":"GO:0061736","count":3},{"id":"GO:0090153","count":3}]},{"hash":"1541525303350261311","title":"Cell Cycle and DNA Replication","description":"This cluster's top GO terms are dominated by cell division, DNA replication, and mitotic cell cycle, indicating a core role in cell cycle progression. Other terms reference stress responses and signaling, which appear peripheral to the main theme.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0010288","count":3},{"id":"GO:2000324","count":3}]},{"hash":"138338521965535213","title":"Ribosome biogenesis and translation regulation","description":"The strongest signals are in ribosome assembly and control of translation: rRNA maturation (LSU and 5.8S), formation of the translation preinitiation complex, and GCN2-mediated signaling. While other terms touch on broader cellular processes, the core cluster theme centers on ribosome biogenesis and translation regulation.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060733","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1809327579397282821","title":"Developmental processes and chromatin assembly","description":"The top GO terms span diverse developmental contexts\u2014spermatid nucleus differentiation, negative regulation of neuron projection development, endothelial morphogenesis, immunoglobulin production, and embryonic cranial skeleton morphogenesis\u2014along with chromatin-related activities (nucleosome assembly, histone exchange, regulation of chromatin assembly). This pattern suggests proteins that participate in broad developmental processes and chromatin remodeling rather than a single, cohesive pathway, justifying a label focused on both developmental roles and chromatin assembly.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007289","count":2},{"id":"GO:0061000","count":2},{"id":"GO:0001886","count":2},{"id":"GO:0002377","count":2},{"id":"GO:0010977","count":2}]},{"hash":"843230366389898272","title":"Embryonic organ development","description":"The top GO terms cover diverse organ systems (gonads, heart, eye, placenta, hindlimb, habenula, prostate) and morphogenesis, plus related processes like myoblast proliferation and estrogen signaling, pointing to a broad theme of embryonic organogenesis rather than a single pathway.","confidence":"High","size":13,"edges":4,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":12},{"id":"GO:0035116","count":12},{"id":"GO:0060527","count":12},{"id":"GO:2000288","count":12},{"id":"GO:0003148","count":12}]},{"hash":"1427395175782083559","title":"Neural development and synaptic maintenance with ECM signaling","description":"The top GO terms point to neural connectivity and synapse stability (anterior/posterior axon guidance, motor learning, maintenance of synapse structure) and to cell\u2013ECM interactions (integrin-mediated signaling, collagen biosynthesis, ECM remodeling via fibrinolysis regulation). Modulatory signaling pathways (negative regulation of IGF and HGF receptor signaling, NO-mediated signaling) further support a theme of fine-tuned neural development and synaptic function influenced by the extracellular matrix. Taken together, the cluster seems to represent neural development and synaptic maintenance in the context of ECM signaling.","confidence":"Medium","size":13,"edges":72,"triangles":227,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043569","count":4},{"id":"GO:0042535","count":3},{"id":"GO:0099558","count":3},{"id":"GO:0032964","count":3},{"id":"GO:1902203","count":3}]},{"hash":"537976830207804848","title":"Actin polymerization and cytoskeleton assembly","description":"Most of the enriched GO terms describe regulation and assembly of the actin cytoskeleton (e.g., positive regulation of actin filament polymerization, formin-nucleated actin cable assembly, and stress fiber assembly). A few terms touch on immune defense and signaling, but the dominant signal is actin remodeling and cytoskeletal dynamics, suggesting the cluster centers on actin polymerization processes.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090338","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0051496","count":2},{"id":"GO:0030838","count":2},{"id":"GO:0043652","count":2}]},{"hash":"3554682031363713","title":"Neural and Inner Ear Development","description":"Based on the prominent GO terms, the cluster centers on neural and sensory development, including brain development, inner ear development, sensory perception of sound, and synapse assembly, pointing to neural connectivity and auditory system formation. Some terms appear outliers, but the core pattern supports a neural-auditory development theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":3},{"id":"GO:0075015","count":2},{"id":"GO:0098911","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0045317","count":2}]},{"hash":"81639321746605621","title":"Oogenesis maternal mRNA localization and translation","description":"The cluster is dominated by terms tied to post-transcriptional regulation of maternal mRNAs in oocytes, including translation initiation and preinitiation complex formation, mRNA export, splicing regulation, mRNA stabilization, and notably oskar mRNA localization to the pole plasm. These together point to coordinated control of mRNA localization and translation during oogenesis, with some supporting terms for broader RNA silencing and regulation.","confidence":"High","size":13,"edges":18,"triangles":12,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0071456","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0000381","count":6},{"id":"GO:0045451","count":6}]},{"hash":"1191774502657865075","title":"Ribosome Biogenesis and ER-Golgi Trafficking","description":"This cluster centers on ribosome biogenesis (including large subunit biogenesis) and associated growth-related processes, with supporting vesicle trafficking between the ER and Golgi, mRNA transport, and TORC1 signaling. The mix of ribosome assembly terms with vesicle transport and growth signaling suggests a coordinated program of ribosome production and intracellular trafficking that supports cell growth and division.","confidence":"High","size":13,"edges":37,"triangles":45,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0006888","count":4},{"id":"GO:0070262","count":4},{"id":"GO:0042273","count":4}]},{"hash":"60946367743004589","title":"Angiogenesis and osteoblast regulation","description":"The top terms cluster around blood vessel formation and endothelial migration (angiogenesis, Tie signaling) and regulation of osteoblast activity, suggesting proteins involved in coordinated vascular development with bone remodeling. Peripheral terms like complement activation and exocytosis appear less central to the main theme.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":11},{"id":"GO:0033689","count":10},{"id":"GO:0045921","count":10},{"id":"GO:1905240","count":10},{"id":"GO:0001525","count":10}]},{"hash":"963488908596898934","title":"Calcium-Dependent Signaling","description":"Based on the top GO terms, the shared theme is calcium ion dynamics and calcium-dependent processes (calcium transport, cellular response to calcium, calcineurin-NFAT signaling), plus calcium\u2011dependent functions like synaptic vesicle endocytosis, opsin signaling regulation, platelet degranulation, and memory. A couple of terms (kidney development, glycogen catabolism) are less direct but can intersect with Ca2+-regulated pathways. This suggests a coherent cluster of proteins involved in calcium signaling across tissues.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070588","count":8},{"id":"GO:0071277","count":8},{"id":"GO:0072286","count":8},{"id":"GO:0002576","count":8},{"id":"GO:1900242","count":8}]},{"hash":"1973732588020175322","title":"Plasma membrane transporters","description":"The top GO terms are dominated by membrane transport activities\u2014sodium-dependent organic anion transport, arsenite transport, antimonite transmembrane transport, and plasma membrane pyruvate transport\u2014suggesting a shared role in moving substrates across the plasma membrane. A few additional, low-frequency epigenetic regulation terms are present but not coherent with transport, and the network has no edges, indicating possible annotation noise or functional diversity. Overall, transport across the plasma membrane is the most representative theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043251","count":2},{"id":"GO:0015700","count":2},{"id":"GO:0006849","count":2},{"id":"GO:0015699","count":2},{"id":"GO:0090308","count":1}]},{"hash":"869372913645953649","title":"Diverse Transmembrane Transporters","description":"This cluster is driven by multiple transmembrane transport GO terms for a range of substrates (chloride, fructose, bicarbonate, aspartate, oxalate, sulfate) and related pH regulation, indicating a group of membrane transport proteins with varied substrate specificities. A few outlier terms (sperm capacitation, sensory perception of sound, sporulation) appear but do not define the core transport-focused theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":3},{"id":"GO:1902476","count":3},{"id":"GO:0051454","count":3},{"id":"GO:0015755","count":2},{"id":"GO:0089712","count":2}]},{"hash":"2157513832629668781","title":"Plasma membrane solute transporters","description":"This cluster is dominated by GO terms for transmembrane transport of diverse solutes (biotin, pantothenate, myo-inositol, glucose) and ions across the plasma membrane, indicating a cohesive role in nutrient/ion transport. A few regulatory terms (negative regulation of signaling and cytoskeletal processes) appear but are less central. Overall, the pattern supports labeling the cluster as plasma membrane solute transporters.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015878","count":3},{"id":"GO:0015887","count":3},{"id":"GO:0015798","count":3},{"id":"GO:0008292","count":3},{"id":"GO:0071436","count":3}]},{"hash":"1230665040752229733","title":"Calcium-Dependent NF-kB/NFAT Signaling and Hypoxic Response","description":"This cluster centers on signaling pathways driven by calcium, including calcium ion transport and cellular calcium response, and converges on NF-kB and calcineurin-NFAT signaling with broader links to phosphatidylinositol signaling, hypoxic response, and proliferation-related processes. The presence of terms like positive regulation of canonical NF-kappaB signaling and NFAT signaling supports a cohesive theme of calcium-mediated transcriptional regulation and growth control.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043123","count":7},{"id":"GO:0051028","count":7},{"id":"GO:0071456","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0008284","count":7}]},{"hash":"2039483929165298962","title":"Immune signaling and development processes","description":"The top GO terms show a strong emphasis on immune signaling (interleukin-8 production, IL-1/IL-6 responses, NF-kappaB activation, apoptosis) along with developmental/remodeling processes (chitin cuticle formation, ecdysis, chitin catabolic processes, lung development). This suggests a cluster whose proteins are mainly involved in inflammatory signaling, with secondary roles in development or structural remodeling. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072606","count":3},{"id":"GO:0071347","count":3},{"id":"GO:0000272","count":3},{"id":"GO:0018990","count":3},{"id":"GO:0070741","count":3}]},{"hash":"1335884827114459444","title":"Epithelial Morphogenesis and Wound Healing","description":"Proteins in this cluster are dominated by GO terms tied to epithelial development, keratinocyte biology, cell adhesion, and wound repair (epithelial morphogenesis, keratinocyte development, apical junction assembly, wound healing). Additional signals for integrin-mediated signaling and endosome transport support cell adhesion and trafficking necessary for tissue remodeling. While other terms like angiogenesis and bradykinin catabolism appear, the core theme centers on epithelial morphogenesis and wound healing.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000272","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0003382","count":2},{"id":"GO:0044319","count":2},{"id":"GO:2001046","count":2}]},{"hash":"1261696749987378808","title":"Thermogenesis and Adrenergic GPCR Signaling","description":"The cluster is dominated by terms related to thermogenesis and temperature response (diet-induced thermogenesis, heat generation), plus GPCR signaling pathways that involve adenylate cyclase activation/inhibition typical of adrenergic signaling, and energy metabolism elements (electron transport chain, membrane potential) that support metabolic regulation. Blood pressure regulation ties into sympathetic control, suggesting a cohesive theme of thermogenic metabolism governed by adrenergic signaling. Some terms like T cell chemotaxis and sensory pain perception may reflect ancillary roles or noise. ","confidence":"High","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":9},{"id":"GO:0071502","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0010579","count":6},{"id":"GO:0045777","count":6}]},{"hash":"1475091347973810505","title":"Unknown","description":"The GO terms span immune signaling (interferon-\u03b1/\u03b2, biotic stimulus), bone development (morphogenesis, mineralization), metabolism (glucose import in insulin response), and intracellular trafficking (receptor recycling, endosome-to-plasma membrane transport). The functions are diverse with no clear common theme or interaction, and the cluster shows no edges, so a coherent, high-level label cannot be assigned.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001921","count":2},{"id":"GO:0060349","count":2},{"id":"GO:0035456","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0044381","count":2}]},{"hash":"510345546510149011","title":"Multilevel gene expression regulation","description":"The cluster shows GO terms across transcription (DNA-templated transcription, elongation), chromatin localization, mRNA regulation (stability, polyadenylation, cap-independent translation), and protein ubiquitination, suggesting regulation of gene expression at multiple levels\u2014from transcription to mRNA and protein turnover\u2014despite some defense-related terms that may reflect context-specific roles.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0044829","count":2},{"id":"GO:0034052","count":2},{"id":"GO:1900363","count":2},{"id":"GO:1903679","count":2}]},{"hash":"1153023904940732363","title":"Mitochondrial energy production and copper homeostasis","description":"The GO terms cluster around mitochondrial respiration (proton motive force-driven ATP synthesis, Complex IV assembly), redox balance (hydrogen peroxide catabolic process, redox homeostasis), and copper ion homeostasis, all pointing to mitochondrial energy metabolism and copper-dependent enzymes; a few development-related terms seem incidental noise. ","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":3},{"id":"GO:0015986","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0045454","count":2}]},{"hash":"1069859091021559843","title":"Solute Transporters and Osmotic Stress Response","description":"The GO terms point to membrane transport of multiple solutes (glucose, phosphate, organic cations/anions, urate, and xenobiotics) and a cellular response to osmotic stress, indicating a cluster of transporter proteins that modulate nutrient uptake and osmotic balance; glucose starvation and insulin-stimulated glucose import further support a glucose-responsive transporter set.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":12},{"id":"GO:0044381","count":12},{"id":"GO:0070715","count":12},{"id":"GO:0006817","count":12},{"id":"GO:0052106","count":12}]},{"hash":"2032377281163760065","title":"Developmental Regulation and Cytoskeletal Remodeling","description":"These terms converge on developmental processes and cellular remodeling: retina development and skeletal morphogenesis, plus male gonad development indicate tissue differentiation; positive regulation of GTPase activity and actin filament depolymerization point to cytoskeletal dynamics essential for morphogenesis; SCF-dependent ubiquitin-proteasome turnover and signaling-related terms reflect regulatory control during development. While there are also general processes like splicing, arginine methylation, and DNA repair represented, the strongest signal is development-related regulation and cytoskeletal remodeling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0030042","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0000724","count":2}]},{"hash":"426143798729744942","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0000055","count":2}]},{"hash":"1657377570143540340","title":"Unknown","description":"The GO terms are highly diverse (mitochondrial energy metabolism, lipid biosynthesis, development, immune signaling, and an obsolete glycosylation term) with no clear shared process or network structure linking these proteins. Given the lack of a cohesive functional theme and no edges to define a common pathway, the cluster cannot be confidently assigned a specific biology beyond Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0042775","count":1},{"id":"GO:0010143","count":1},{"id":"GO:0060217","count":1},{"id":"GO:0021587","count":1}]},{"hash":"416580598363483414","title":"Neural, sensory, and reproductive tissue development","description":"This cluster shows several GO terms tied to development in specific tissues: neural retina development, substantia nigra development, odontogenesis, and spermatogenesis, suggesting a theme of tissue development across neural, sensory, and reproductive systems. Other terms like cellular response to hypoxia, oxygen transport, and DNA/RNA turnover appear less cohesive with the main theme and may reflect background processes. Overall, the set points toward development-related functions across diverse tissues.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0090503","count":1},{"id":"GO:0006308","count":1},{"id":"GO:0014823","count":1}]},{"hash":"93175282060907127","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000447","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0000472","count":3}]},{"hash":"117655478184161350","title":"RNA-based translational control and mRNA processing","description":"The top GO terms cluster around post-transcriptional regulation of gene expression, including translation initiation/reinitiation, IRES-driven translation, miRNA- and ncRNA-mediated silencing, as well as splicing regulation and mRNA modification/stabilization. This points to a coherent theme of RNA-level control of translation and RNA processing rather than a single structural function.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0000381","count":3},{"id":"GO:1903586","count":3}]},{"hash":"1802404480235505813","title":"Heart and Retina Development","description":"This cluster is enriched for heart development terms (heart development, cardiac right ventricle formation, secondary heart field specification) and neural retina development, with supporting signals of developmental regulation and cytoskeletal remodeling (e.g., actin crosslinking, GTPase activity). The common theme appears to be developmental programs specific to cardiovascular and ocular tissues, hence a shared label focusing on heart and retina development.","confidence":"Medium","size":13,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051764","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0007507","count":3}]},{"hash":"823208357591737412","title":"Membrane Transporters","description":"The top GO terms point to transmembrane transport of diverse substrates and ions (sodium, potassium, nitrate, arabinose, fucose, sialic acid, xenobiotics, hydroxyphenylacetate), suggesting the proteins primarily function as membrane transporters. A few non-transport terms (hepatocyte apoptotic process, cellular response to mechanical stimulus) may reflect broader cellular contexts or annotations but do not outweigh the transport-centric pattern.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0042128","count":2}]},{"hash":"1137766062800162459","title":"Neural axon guidance and brain connectivity","description":"The terms cluster around neural wiring: axonal fasciculation, retinal ganglion cell axon guidance, and corpus callosum development point to neuronal connectivity and development, with sensory perception of sound reinforcing a neural pathway theme. Some terms (sterol biosynthetic process, protein tetramerization) are general cellular processes, but do not override the neural development signal; overall the cluster seems enriched for neuronal wiring and connectivity functions.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":3},{"id":"GO:2000009","count":2},{"id":"GO:0016126","count":2},{"id":"GO:0010572","count":2},{"id":"GO:0007205","count":2}]},{"hash":"1153013825650812125","title":"Cilium assembly and centrosome in neural development","description":"The top GO terms cluster around ciliogenesis (non-motile cilium assembly, intraciliary transport) and centrosome-related processes (protein localization to centrosome, microtubule organization/anchoring), plus neural development activities (neuron migration, neurogenesis regulation, neuronal stem cell maintenance). This suggests a cohesive theme of ciliogenesis and centrosome-associated neuronal development.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001403","count":2},{"id":"GO:0031122","count":1},{"id":"GO:1905515","count":1},{"id":"GO:0050768","count":1},{"id":"GO:0001764","count":1}]},{"hash":"439897926222603326","title":"Unknown","description":"The top GO terms cover eye development and vision but also span pollen recognition, growth factor response, apoptosis, immune signaling, glucose response, cholesterol biosynthesis, and neural transmission, with no clear unifying function and no edges connecting proteins. This suggests there is no cohesive theme tying the cluster together. ","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0061298","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0035729","count":4},{"id":"GO:0048544","count":4},{"id":"GO:0097194","count":3}]},{"hash":"1120574523926027220","title":"Innate Antiviral Defense and Autophagy","description":"This cluster centers on innate immune responses to viruses, including defense against viral infection, MHC class I biosynthesis, ubiquitination signaling, and autophagy, suggesting a cohesive antiviral immune program with links to antigen processing and gene regulation. The stem cell proliferation and epigenetic terms may reflect ancillary regulatory processes connected to immune cell function, but the core theme remains antiviral defense and autophagic/ubiquitin-mediated signaling.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0045345","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0045869","count":3},{"id":"GO:0072089","count":3}]},{"hash":"2217826684965479309","title":"Muscle and Heart Development Signaling","description":"Top GO terms point to differentiation processes (myoblast, heart, trophoblast giant cell) and numerous signaling pathways (small GTPase, GPCR), with regulatory activity such as proteolysis and NF-kappaB modulation. This suggests the cluster comprises proteins involved in developmental signaling guiding muscle and cardiac lineage specification rather than a single enzymatic function. Therefore, the label captures the core theme of developmental signaling in muscle/heart contexts.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0045445","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0032088","count":2}]},{"hash":"1166112605396707666","title":"Complement and Coagulation Proteolysis","description":"The cluster shows strong signals for proteolysis and activation/regulation of immune and coagulation pathways: classical and alternative complement activation, membrane attack complex regulation, and intrinsic coagulation, along with negative regulation of fibrinolysis. Some terms related to development and vocalization may reflect broader roles of proteases across biology, but the dominant theme ties to proteolytic control of immunity and hemostasis.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071625","count":4},{"id":"GO:0006508","count":3},{"id":"GO:0051918","count":3},{"id":"GO:0006957","count":3},{"id":"GO:0006958","count":3}]},{"hash":"16178562933153511","title":"Developmental processes and tissue morphogenesis","description":"The top GO terms cluster around organ and tissue development (kidney, CNS, olfactory bulb, myoblast fusion) and processes tied to tissue organization and movement (planar polarity, cell migration, Rho signaling, angiogenesis), suggesting a unifying theme of developmental morphogenesis across tissues. Some terms (adaptive immune response) are less aligned but do not override the overall pattern.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":3},{"id":"GO:0007417","count":2},{"id":"GO:0007520","count":2},{"id":"GO:0021772","count":2},{"id":"GO:0001736","count":2}]},{"hash":"1277744965023994024","title":"Unknown","description":"Top GO terms are highly heterogeneous, including neural processes (short-term memory, visual perception, neuronal stem cell maintenance, cortical migration), development (heart and metanephric collecting duct), immune processes (regulatory T cell differentiation, leukocyte migration), plus unrelated terms such as ascospore formation and Lewis antigens. The lack of a single coherent biological theme and no network connections (edges 0) suggest these proteins do not share a clear, common function, so Unknown.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007614","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0072205","count":2},{"id":"GO:0030437","count":2}]},{"hash":"520827382198120652","title":"Membrane Ion and Vitamin Transporters in Development","description":"The top GO terms are dominated by membrane transport of ions and vitamins (calcium, phosphate, biotin, pantothenate, myo-inositol), with additional development-related terms (multicellular organism development, neural tube closure, gonad development, single fertilization). This suggests a cluster of proteins that function as transporters across membranes and may play roles in developmental processes, hence the label. Confidence: Medium","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0007338","count":2}]},{"hash":"106362108265847886","title":"Far-red light signaling and circadian transcription regulation","description":"This cluster's top GO terms strongly emphasize far-red light phototransduction and signaling, along with regulation of DNA-templated transcription and positive regulation of circadian rhythm, plus mentions of transcriptional regulation by RNA polymerase II and redox-related processes. The recurring theme appears to be light-responsive signaling that modulates transcription and circadian timing, with some redox regulation context. Confidence: Medium","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046944","count":1},{"id":"GO:0009585","count":1},{"id":"GO:0010018","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0042753","count":1}]},{"hash":"1196344214234867979","title":"Endocrine Hormone Response and Kidney Development","description":"The cluster is enriched for GO terms related to thyroid hormone metabolism and glucocorticoid response, plus metanephric development terms (ureteric bud and collecting duct development). This suggests a common theme of endocrine signaling influencing kidney development and function, with supplementary signaling processes (cAMP/kinase pathways, calcium handling) that commonly operate in hormone-responsive tissues.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042403","count":4},{"id":"GO:0051384","count":4},{"id":"GO:0097274","count":4},{"id":"GO:0035502","count":4},{"id":"GO:0072205","count":4}]},{"hash":"944458950410426290","title":"Temperature-Responsive Proteostasis","description":"The top GO terms point to temperature sensing (thermoception and detection of temperature stimulus) alongside protein homeostasis mechanisms (ubiquitin-dependent proteolysis and protein ubiquitination) and regulation of signaling (serine/threonine kinase activity). This suggests a cluster of proteins that respond to temperature changes by coordinating protein turnover and signaling, with a few terms related to cell growth and development that may reflect broader roles in signaling and tissue biology. Confidence: Medium.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0050955","count":2},{"id":"GO:0071901","count":2},{"id":"GO:2000340","count":2}]},{"hash":"237021026438472112","title":"Lipid, retinoid, and steroid biosynthesis","description":"The cluster's top GO terms cluster around fatty acid elongation and very long-chain fatty acid biosynthesis, retinol and retinoic acid metabolism, phylloquinone catabolic processes, and glucocorticoid biosynthesis, suggesting a core emphasis on lipid- and vitamin/steroid-related metabolic pathways. A few terms like regulation of transcription or antibiotic response appear peripheral or represent broader annotations, but the dominant theme supports lipid/vitamin/steroid metabolism as the cluster's function.","confidence":"Medium","size":12,"edges":16,"triangles":5,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0042619","count":11},{"id":"GO:0030497","count":10},{"id":"GO:0042761","count":10},{"id":"GO:0042376","count":10}]},{"hash":"951809186402697366","title":"Diverse Metabolic and Signaling Pathways","description":"The top terms mix various metabolic processes (L-alanine and L-tryptophan/kynurenine catabolism, cobalamin biosynthesis, fatty acid and oxaloacetate metabolism) with signaling pathways (Notch signaling, salicylic acid\u2013mediated systemic acquired resistance, and insulin response). This suggests a heterogeneous cluster lacking a single cohesive function, though it broadly centers on metabolism intertwined with signaling. ","confidence":"Low","size":12,"edges":32,"triangles":57,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007219","count":4},{"id":"GO:0042853","count":4},{"id":"GO:0097053","count":4},{"id":"GO:0009236","count":3},{"id":"GO:0055089","count":3}]},{"hash":"415010275917641424","title":"Diverse biosynthesis and metabolism","description":"The cluster is enriched for multiple biosynthetic and catabolic processes (retinol, sterol, anthocyanin biosynthesis; antibiotic biosynthesis; propylene catabolic process) suggesting a core theme around metabolism. There are also related environmental/developmental responses (response to lipopolysaccharide, sporulation), indicating broader stress or growth-related roles, not a single narrow function. Some GO terms are obsolete, but the metabolic emphasis remains the most coherent pattern across the terms. ","confidence":"Medium","size":12,"edges":18,"triangles":10,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0042572","count":5},{"id":"GO:0017000","count":4},{"id":"GO:0030435","count":4},{"id":"GO:0032496","count":4}]},{"hash":"234452952019381018","title":"Steroid hormone and lipid metabolism","description":"The terms center on testosterone biosynthesis, androgen metabolism, cholesterol catabolism, and triglyceride metabolism, pointing to a core function in steroid hormone and lipid processing. Outliers like xenobiotic catabolic processes and methylation are less central but fit within broader metabolic/regulatory contexts. Overall, the cluster appears to represent steroid and lipid metabolic pathways.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":5},{"id":"GO:0008209","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0006641","count":4},{"id":"GO:0032259","count":4}]},{"hash":"2158795892024221543","title":"Transcriptional Regulation and Chromatin Modification","description":"This cluster is dominated by GO terms related to gene expression control at the transcription level and chromatin state. Terms include DNA-templated transcription, circadian regulation of gene expression, and negative regulation of miRNA transcription, along with histone deacetylation and peptidyl-lysine deacetylation, indicating involvement of HDACs and chromatin remodeling. Additional terms touch on regulation of signaling pathways and differentiation, suggesting broad transcriptional control over diverse processes such as androgen receptor signaling, osteoblast differentiation, and glycolytic flux. Overall, proteins here likely function as transcriptional regulators and chromatin modifiers.","confidence":"High","size":12,"edges":57,"triangles":146,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0060766","count":4},{"id":"GO:0070932","count":4},{"id":"GO:0045668","count":4},{"id":"GO:0032922","count":4}]},{"hash":"1857607781377668867","title":"Inflammation, wound healing, and vascular remodeling","description":"Most terms point to immune activation (acute inflammatory response, Fc-gamma receptor signaling) and tissue remodeling during wound healing (epithelial proliferation, cell adhesion molecule production, lymph vessel morphogenesis). A few kidney development terms and an infection-structure term appear incidental. This cluster is best described by inflammation-related wound healing and vascular remodeling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":2},{"id":"GO:0060054","count":2},{"id":"GO:0060355","count":1},{"id":"GO:0072218","count":1},{"id":"GO:0090238","count":1}]},{"hash":"1874126643365619620","title":"Plant secondary metabolite and lipid biosynthesis","description":"The terms cluster around biosynthesis of diverse compounds and lipids, with signals for secondary metabolite pathways (antibiotic and anthocyanin biosynthesis) and lipid synthesis (fatty acid elongation, very long-chain fatty acids). Phylloquinone catabolic and retinoid biosynthesis terms add a vitamin-related layer, and a transcription regulation term suggests coordinated control of these biosynthetic programs. Some annotations may reflect cross-annotation, so this label is a best-fit rather than a perfect, unified theme.","confidence":"Medium","size":12,"edges":4,"triangles":1,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0009718","count":4},{"id":"GO:0030497","count":4},{"id":"GO:0042761","count":4},{"id":"GO:0042376","count":4}]},{"hash":"1324153396906484168","title":"Glycolysis and Carbohydrate Metabolism","description":"The cluster is dominated by GO terms related to glycolysis and broader carbohydrate metabolism (glycolytic process, canonical glycolysis, glycogen catabolic process, fructose-6-phosphate metabolism, carbohydrate phosphorylation), suggesting a core theme of sugar metabolism. There are also terms linking to xenobiotic response (cellular response to xenobiotic stimulus, response to cocaine), which may reflect a detox-related or stress-response aspect accompanying metabolic activity. A few outlier terms (cobalamin biosynthesis, metanephric tubule development) may indicate annotation noise or multi-functional proteins. Overall, the label Glycolysis and Carbohydrate Metabolism best captures the main shared function.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0009236","count":3},{"id":"GO:0046835","count":3},{"id":"GO:0005980","count":3},{"id":"GO:0042220","count":3}]},{"hash":"1232502103551811812","title":"Cardiac Development and Hormone Metabolism with Proteoglycans","description":"The set highlights heart development and angiotensin regulation, plus thyroid hormone metabolism and proteoglycan biosynthesis (keratan sulfate and heparin), suggesting a link between cardiovascular development and endocrine signaling with extracellular matrix remodeling. While other terms reflect general metabolism, the core pattern points to cardiac/endocrine functions and proteoglycan biosynthesis, justifying this label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042403","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0006068","count":2},{"id":"GO:0018146","count":2}]},{"hash":"499488663285792838","title":"Calcium-Dependent Signaling in Astrocytes","description":"The terms cluster around calcium signaling (calcium transport and response, negative regulation of calcium import), with linked pathways (phosphatidylinositol signaling, calcineurin-NFAT) and astrocyte activation, suggesting a cohesive module of calcium-mediated astrocytic signaling in the CNS, with memory-related processes as a downstream association.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070588","count":4},{"id":"GO:0071277","count":4},{"id":"GO:0051091","count":4},{"id":"GO:0006491","count":4},{"id":"GO:0051533","count":4}]},{"hash":"1594761934870954291","title":"Xenobiotic and Cocaine Response","description":"The dominant GO terms describe cellular responses to xenobiotic stimuli and to cocaine, indicating a focus on drug/xenobiotic handling. Additional terms touch on redox balance and hormone-related signaling, with a few obsolete entries, but the main theme remains xenobiotic/drug response rather than a single other pathway. Confidence reflects this clear but not perfect coherence.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0042220","count":3},{"id":"GO:0071375","count":3},{"id":"GO:1900087","count":3},{"id":"GO:0045454","count":3}]},{"hash":"2017952159138577534","title":"Cell division and transcriptional regulation","description":"The top GO terms point to core cell-cycle activities (cell division, microtubule severing), cytoskeletal dynamics, and gene expression control (DNA-templated transcription and its regulation), complemented by ribosome biogenesis. Plant-specific terms like pollen development and callose deposition hint additional roles in growth and reproduction, but the common theme centers on proliferation with transcriptional regulation and protein synthesis.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000747","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0051013","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1832853657828578163","title":"Hypoxia-driven apoptosis and innate immune signaling","description":"The cluster centers on stress-induced cell death, especially apoptosis in neurons and glia, under hypoxic conditions, with simultaneous involvement of innate immune signaling and inflammatory mediators like IL-6. Ubiquitination suggests regulation of protein turnover during these stress responses, while the mitotic spindle term hints at broader cell-cycle stress effects. Overall, the common theme is hypoxia-related apoptosis coupled with innate immune/inflammatory responses.","confidence":"Medium","size":12,"edges":16,"triangles":3,"max_degree":7,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0001666","count":7},{"id":"GO:0097194","count":5},{"id":"GO:0032755","count":5},{"id":"GO:0034349","count":5},{"id":"GO:0045087","count":5}]},{"hash":"1574211290161814250","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":51,"triangles":100,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071630","count":3},{"id":"GO:0006458","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0070389","count":3}]},{"hash":"1932375727930944681","title":"Embryonic Organ and Tissue Development","description":"GO terms cluster around developmental and tissue-formation processes across multiple tissues (embryonic organ development, multicellular organism growth, spinal cord and skin development, seminiferous tubule development), with regulatory aspects such as cell proliferation, mitotic cohesion, mRNA splicing, and ubiquitination that support development. This combination suggests a cohesive theme of developmental growth and tissue formation.","confidence":"High","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048568","count":5},{"id":"GO:0035264","count":4},{"id":"GO:0021510","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0007064","count":4}]},{"hash":"1305608189927848735","title":"Neuro-sensory signaling and immune chemotaxis","description":"This cluster centers on neural/sensory functions (dopaminergic synaptic transmission, visual perception and learning, cocaine response) while also highlighting immune cell chemotaxis (macrophage and T cell) and associated signaling (prostaglandin response, ERK cascade). The combination suggests proteins involved in neural signaling that also participate in immune signaling pathways, with heart development appearing as a more peripheral term.","confidence":"Medium","size":12,"edges":34,"triangles":60,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001963","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0008542","count":5},{"id":"GO:0048148","count":5},{"id":"GO:0071380","count":5}]},{"hash":"685250563549751787","title":"TLR4/LPS-Driven Innate Immunity","description":"This cluster is dominated by innate immune terms, including detection of lipopolysaccharide, TLR4 signaling, inflammatory and defense responses, and general innate immune activation, indicating a shared role in pathogen recognition and inflammatory signaling. A few terms about synapse assembly and mechanical stimulus are present but appear less central.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0006954","count":4}]},{"hash":"211095748374436535","title":"Heart Morphogenesis and Developmental Signaling","description":"The GO terms are dominated by developmental processes with a clear emphasis on cardiac development and morphogenesis, including right ventricle formation, ventricular trabecula morphogenesis, and neural crest contributions to outflow tract morphogenesis, along with SHH pathway regulation and cell-matrix adhesion. These collectively point to a theme of heart development guided by developmental signaling. Some terms also reflect broader organismal development, but the cardiac-focused terms are strong indicators of the cluster\u2019s core function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0045880","count":3},{"id":"GO:0071372","count":3},{"id":"GO:0032495","count":3},{"id":"GO:0030900","count":3}]},{"hash":"1210496035428699576","title":"Cerebellar development and neural signaling","description":"The top GO terms cluster around cerebellar development (cerebellar cortex formation, Bergmann glial cell differentiation) and neural repair (regulation of axon regeneration), suggesting a focus on cerebellar neural development and regeneration. While insulin and T cell signaling terms appear, they are less cohesive with the primary neural-development theme, so the dominant signal is cerebellar neural development and signaling.","confidence":"Medium","size":12,"edges":15,"triangles":11,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":9},{"id":"GO:0048679","count":9},{"id":"GO:0060020","count":9},{"id":"GO:0021697","count":9},{"id":"GO:0050852","count":9}]},{"hash":"85183869465843198","title":"Neural development and synaptic signaling","description":"The GO terms cluster around neural growth and connectivity: axon extension, cerebellar Purkinje cell layer development, synapse maturation, and sensory perception of sound, with BMP and PKC signaling supporting neural development. A few terms reference immune processes (complement activation, leukocyte tethering) that can be involved in neural tissue remodeling, but the dominant pattern points to neuronal development and synaptic signaling overall.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001867","count":5},{"id":"GO:0010572","count":3},{"id":"GO:0050901","count":3},{"id":"GO:0048846","count":3},{"id":"GO:0090036","count":3}]},{"hash":"1901616897507660183","title":"Embryonic and female reproductive development","description":"Most of the top GO terms cluster around developmental processes specific to embryos and female reproductive tissues, including in utero embryonic development, female gonad development, mammary gland development, and sex differentiation. A few terms pertain to detoxification and transcription regulation, but the dominant signal is embryonic/female reproductive development, suggesting the proteins in this cluster function in development of female reproductive organs and related embryogenesis pathways.","confidence":"High","size":12,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":4},{"id":"GO:0035902","count":3},{"id":"GO:0042738","count":3},{"id":"GO:0019383","count":3},{"id":"GO:0000122","count":3}]},{"hash":"436749234200692051","title":"Rho GTPase\u2013driven Actin Remodeling and Cell Polarity","description":"This cluster centers on small GTPase signaling (Rho family) and actin cytoskeleton dynamics, including actin polymerization, filopodium formation, cell spreading, and maintenance of cell shape and polarity, as well as junction assembly. The presence of terms tied to cytoskeletal remodeling and cell adhesion/polarity (e.g., tight junctions, filopodia, cell polarity) alongside related signaling pathways (T cell receptor, Wnt) supports a cohesive theme of coordinated cytoskeletal regulation and cell polarity.","confidence":"High","size":12,"edges":36,"triangles":53,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0007264","count":7},{"id":"GO:1900026","count":7},{"id":"GO:0046847","count":7},{"id":"GO:0071963","count":6}]},{"hash":"668536081173123252","title":"TLR\u2013NF-\u03baB Cytokine Signaling","description":"The cluster is dominated by GO terms for Toll-like receptor signaling (TLR2, TLR9), MyD88-dependent pathways, I-kappaB phosphorylation, and downstream cytokine production (IL-12, IL-1, IL-4, CXCL1). This points to a coherent module of innate immune sensing and cytokine regulation, with one outlier term (male gonad development) likely incidental. Therefore the name reflects the core function of TLR\u2013NF-\u03baB\u2013driven cytokine responses.","confidence":"High","size":12,"edges":13,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070671","count":6},{"id":"GO:0034162","count":6},{"id":"GO:2000340","count":6},{"id":"GO:0008584","count":6},{"id":"GO:2000661","count":6}]},{"hash":"1682198601351222528","title":"Unknown","description":"The GO terms span diverse themes (synaptic vesicle endocytosis regulation, protein folding, tubulin assembly, epithelial morphogenesis, vesicle transport, ruffle formation, TORC2 signaling, forebrain radial glial differentiation, complement-dependent cytotoxicity, and exit from mitosis), with no single function tying all proteins together.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900242","count":3},{"id":"GO:0006457","count":2},{"id":"GO:0007021","count":2},{"id":"GO:0003382","count":2},{"id":"GO:0032402","count":2}]},{"hash":"1578936233399446131","title":"Visual perception and dopaminergic signaling","description":"This cluster is dominated by GO terms tied to vision (visual learning, visual perception) and dopaminergic synaptic transmission, with cocaine response and ERK-related signaling supporting neural signaling pathways. While there are outliers like heart development and macrophage chemotaxis, the strongest signal links visual processing with dopamine-mediated neural signaling and related phosphorylation cascades.","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":9},{"id":"GO:0001963","count":8},{"id":"GO:0007601","count":8},{"id":"GO:0048148","count":8},{"id":"GO:0071380","count":8}]},{"hash":"682552417360131057","title":"Post-transcriptional mRNA regulation","description":"The top GO terms cluster around mRNA stability, processing, and translation control (including regulation of splicing via the spliceosome, mRNA stabilization/modification, and regulation of translational initiation, plus miRNA-mediated silencing and IRES-dependent translation). This pattern points to a cohesive function in post-transcriptional gene expression regulation rather than a single transcriptional or metabolic pathway.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":8},{"id":"GO:0000381","count":6},{"id":"GO:1903586","count":6},{"id":"GO:0048255","count":6},{"id":"GO:0035278","count":6}]},{"hash":"716151042872244424","title":"Ubiquitin-Dependent TNF/NF-\u03baB Signaling","description":"This cluster is characterized by multiple GO terms tied to ubiquitin-dependent protein degradation (ERAD, ubiquitin-mediated proteolysis, K6-linked ubiquitination) and inflammatory signaling pathways (TNF signaling, NF-\u03baB activation, I\u03baB phosphorylation, JNK regulation). Together these suggest a cohesive role in regulated protein turnover linked to TNF/NF-\u03baB signaling, with one outlier term related to synaptic vesicle transport that may reflect broader annotation or multifunctionality. Overall, the dominant theme is ubiquitin-mediated control of inflammatory signaling.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":10},{"id":"GO:0042787","count":9},{"id":"GO:1903265","count":9},{"id":"GO:0048490","count":8},{"id":"GO:0046328","count":8}]},{"hash":"675464486416421332","title":"Touch, Pain, and Temperature Sensing","description":"The cluster is driven by GO terms for mechanosensation (touch), nociception (pain), and thermoception, including responses to temperature changes, suggesting a cohesive sensory signaling theme. An outlier term related to cardiac electrophysiology is present but does not override the overall sensory-centric pattern.","confidence":"Medium","size":12,"edges":17,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0098914","count":7},{"id":"GO:0050976","count":7},{"id":"GO:0002024","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0019233","count":6}]},{"hash":"1660544318940172612","title":"Developmental Signaling and Neuronal Differentiation","description":"The GO terms span development (cloacal septation, striatal neuron differentiation) and learning, along with cellular regulation (apoptosis, cell cycle) and stress signaling (JNK activity). This suggests a theme of developmental signaling linked to neuronal differentiation and cellular stress responses, rather than a single, cohesive metabolic function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0050955","count":1},{"id":"GO:0007612","count":1}]},{"hash":"1161916728756075956","title":"Calcium signaling in neurons and nephron development","description":"This cluster centers on calcium-mediated signaling: multiple terms point to calcium ion transport and cellular calcium responses, along with calcineurin-NFAT signaling. The presence of metanephric nephron development terms (distal convoluted tubule and connecting tubule development) suggests a nephron development context, while terms like neurotransmitter secretion and memory indicate neuronal signaling roles. Together, the cluster appears to group proteins involved in calcium-dependent signaling with relevance to both neuronal function and kidney development, with some general stress/apoptotic regulation linked via calcium signaling pathways.","confidence":"Medium","size":12,"edges":10,"triangles":2,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072221","count":9},{"id":"GO:0007613","count":8},{"id":"GO:0007269","count":8},{"id":"GO:0097274","count":8},{"id":"GO:0071456","count":8}]},{"hash":"1634157153188024985","title":"Plant signaling and photosynthesis with innate immunity","description":"This cluster is dominated by plant-relevant terms: photosynthesis, cytokinin-activated signaling, and innate immune response, plus supporting terms about protein complex assembly (heterooligomerization) and protein regulation (ubiquitination, isomerization). While there are a few miscellaneous terms, the strongest signal points to plant development/metabolism and immunity, suggesting a plant-focused protein group rather than a single narrow pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0015979","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0045087","count":3},{"id":"GO:2000531","count":3},{"id":"GO:0009736","count":3}]},{"hash":"761866497610384841","title":"Ubiquitin-mediated regulation of cell cycle and DNA repair","description":"This cluster centers on ubiquitination and proteasomal degradation (protein ubiquitination; SCF-dependent proteasomal ubiquitin-dependent protein catabolic process) linked to core cell cycle processes (cell division; mitotic cell cycle) and genome maintenance (double-strand break repair via homologous recombination). Additional terms like actin dynamics and neuronal projection development appear but are less central. Together they suggest a coordinated role of protein turnover in controlling cell cycle progression and DNA repair. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0036265","count":2}]},{"hash":"304275111920911402","title":"Lipid and retinoid metabolism","description":"The top GO terms point to lipid transport and multiple lipid metabolic processes (including ether lipids and diacylglycerol-based lipids), plus retinol and vitamin A metabolism and regulation of adipose tissue development. Together they suggest a coherent theme around lipid handling and retinoid pathways, potentially linked to adipose tissue context, even though there are no observed edges among the proteins. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904177","count":1},{"id":"GO:0032370","count":1},{"id":"GO:0070292","count":1},{"id":"GO:0006776","count":1},{"id":"GO:0042572","count":1}]},{"hash":"2144652092768992803","title":"Steroid and cholesterol metabolism","description":"The top GO terms center on steroid biosynthesis (testosterone, progesterone), cholesterol/bile acid metabolism, and prostaglandin biosynthesis, with additional vitamin D response. These collectively indicate lipid- and steroid-related metabolism as the core theme of the cluster, while ubiquitin-dependent catabolic processes and NF-kappaB regulation appear as less dominant regulatory associates. Overall, the cluster is best described as lipid and steroid hormone metabolism.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0006707","count":2},{"id":"GO:0043066","count":2}]},{"hash":"2159503775711689359","title":"Proteostasis and cell cycle regulation","description":"This cluster centers on ubiquitin-mediated proteolysis and proteasome-assisted degradation (SCF, K11-linked ubiquitination, APC/C-dependent catabolic processes, ERAD), indicating tight protein quality control that links to cell cycle progression. It also includes chromatin-related processes (chromatin organization, histone acetylation) and DNA damage repair (homologous recombination), suggesting coordination between proteostasis, genome maintenance, and transcription. Additional terms related to ER stress-induced apoptosis and cadmium response point to cellular stress adaptation affecting the nuclear/chromatin landscape. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0031146","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0031145","count":2}]},{"hash":"2090436505417766821","title":"Unknown","description":"The top terms are a mix of inflammatory signaling (NF-kappaB pathway and TNF production), metabolic regulation (insulin response, gluconeogenesis, mannose metabolism), and some transcription/development terms, with no evident cohesive pathway or strong protein\u2013protein connections. This makes it difficult to assign a single, representative function to the cluster. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034244","count":3},{"id":"GO:0032869","count":2},{"id":"GO:0006013","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0006977","count":2}]},{"hash":"20010521862789483","title":"Retroviral integration and latency","description":"The terms point to viral genome integration and proviral latency (DNA integration, RNA-templated DNA synthesis, establishment of integrated proviral latency) along with viral entry into the host nucleus and related host responses (e.g., RNAi pathway modulation). This suggests a retroviral-like lifecycle and host interaction rather than purely cellular DNA repair or transposition alone.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0006313","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0075732","count":1},{"id":"GO:0046718","count":1}]},{"hash":"1395164578188919492","title":"Aromatic xenobiotic degradation","description":"This cluster centers on catabolic and detoxification processes for aromatic compounds, including pathways like the beta-ketoadipate route, stilbene and 3-phenylpropionate catabolism, and 1,2-dichloroethane degradation, plus cellular oxidant detoxification. The recurring theme across top GO terms is breakdown and detoxification of aromatic xenobiotics, with biotin biosynthesis occasionally supporting such metabolism, suggesting a cohesive function in aromatic compound degradation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0098869","count":10},{"id":"GO:0055114","count":9},{"id":"GO:0046272","count":8},{"id":"GO:0097755","count":8},{"id":"GO:0042952","count":8}]},{"hash":"2017568720408113950","title":"Calcium-Driven Vesicle Trafficking and Secretion","description":"The dominant GO terms point to calcium ion transport and calcium-responsive signaling (including calcineurin-NFAT) together with vesicle-related processes such as endocytosis and secretory degranulation, suggesting a cluster centered on calcium-dependent vesicle trafficking and secretion. N-glycan processing and nephrogenesis terms may reflect broader secretory pathway involvement or annotations, but the calcium- and vesicle-focused terms provide the clearest common theme and functional link.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0072205","count":8},{"id":"GO:0042994","count":8},{"id":"GO:0070588","count":7},{"id":"GO:0071277","count":7},{"id":"GO:0072286","count":7}]},{"hash":"499824348037769042","title":"Calcium-Dependent Signaling and Vesicle Regulation","description":"The top terms cohere around calcium signaling: calcium ion transport, cellular responses to calcium, regulation of voltage-gated calcium channels, and calcineurin-NFAT signaling, plus phosphatidylinositol-mediated signaling. The presence of synaptic vesicle endocytosis regulation and short-term memory points to neuronal vesicle dynamics and Ca2+-dependent plasticity, while platelet degranulation adds a calcium-driven vesicle trafficking aspect. A kidney development term is present but less central, likely reflecting broader Ca2+-regulated developmental processes. Overall, the cluster centers on calcium-dependent signaling and vesicle regulation.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":8},{"id":"GO:1901387","count":6},{"id":"GO:0070588","count":5},{"id":"GO:0071277","count":5},{"id":"GO:0072286","count":5}]},{"hash":"1479126444441178816","title":"Membrane Transporters","description":"This cluster centers on transmembrane transport across diverse substrates (nitrate, sugars like arabinose and fucose, sialic acid, xenobiotics, sodium ions) and vesicular loading of neurotransmitters, pointing to a cohesive set of transporter proteins mediating substrate movement and ion transport across membranes.","confidence":"High","size":12,"edges":21,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":4},{"id":"GO:0015751","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0006004","count":4},{"id":"GO:0015739","count":4}]},{"hash":"562631660421276356","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045444","count":5},{"id":"GO:1904355","count":5},{"id":"GO:2001275","count":5},{"id":"GO:0035994","count":5},{"id":"GO:0032212","count":5}]},{"hash":"1001131661804939891","title":"N-terminal and polyamine acetylation","description":"This cluster is dominated by acetylation-related GO terms, including N-terminal protein amino acid acetylation and various N-terminal peptidyl acetylations, as well as spermidine, spermine, and putrescine acetylation, pointing to a shared function in acetylation of proteins and polyamines. Other terms like melatonin biosynthesis and glucosamine metabolism appear less central but may be related to broader metabolic context. Overall, the acetylation theme best explains the cluster's functional signal.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006041","count":12},{"id":"GO:0032919","count":12},{"id":"GO:0001525","count":12},{"id":"GO:0061606","count":12},{"id":"GO:0017198","count":12}]},{"hash":"1585434378860023654","title":"Temperature sensing and neural development","description":"The top GO terms include thermoception and detection of temperature stimulus involved in thermoception, plus cerebellar granule cell differentiation, which together suggest a theme of temperature sensing related to neural development. Other terms are more general (cell growth, ubiquitination, multicellular processes), so the strongest pattern is temperature sensation in a neural context, though the connection to differentiation is not uniformly strong across all members. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050955","count":2},{"id":"GO:0071901","count":2},{"id":"GO:2000340","count":2},{"id":"GO:0060743","count":2},{"id":"GO:1904357","count":2}]},{"hash":"575844238083360445","title":"Neural development and signaling regulation","description":"The top GO terms cluster around neural signaling and development, including regulation of NMDA receptor activity, positive/negative regulation of key pathways (Wnt and Notch), radial glia/Purkinje cell migration, and transcriptional machinery. This suggests a cohesive theme of proteins involved in neural development and signaling control, despite some general growth or transcription terms. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000310","count":2},{"id":"GO:0060546","count":2},{"id":"GO:0032147","count":1},{"id":"GO:0045498","count":1},{"id":"GO:0006351","count":1}]},{"hash":"552647981555597350","title":"Unknown","description":"The top GO terms span immune complement activation, neural development, fertilization, cell adhesion, and signaling, with no single cohesive pathway or function tying them together. This scattered mix makes a clear, representative label impossible.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001867","count":5},{"id":"GO:0060074","count":5},{"id":"GO:0007338","count":5},{"id":"GO:0051918","count":5},{"id":"GO:0021680","count":5}]},{"hash":"513601469981156154","title":"Cardiac development and heart muscle proliferation","description":"The top GO terms cluster around heart morphogenesis: endocardial cushion EMT, ventricular cardiac muscle cell development, and positive regulation of cardiac muscle cell proliferation, suggesting a core theme of cardiac development. There are also terms related to vascular development in the heart region and DNA replication regulation linked to developmental growth. Some terms pertain to immune or neural processes (thymus development, B cell signaling, dendrite morphogenesis), which are less central to the main signal, so the label focusing on heart development best represents the cluster's primary function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0007258","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0060716","count":2}]},{"hash":"1818662469331518160","title":"Bacterial metabolism and bioluminescence pathways","description":"The terms cluster around microbial energy and secondary metabolite processes: menaquinone biosynthesis, long/medium-chain fatty acid metabolism and transport, malonate catabolism, siderophore biosynthesis, and acetyl-CoA\u2013related pathways, with bioluminescence as a distinctive trait. An outlier plant term (seed coat development) is likely annotation noise. This supports a theme of bacterial metabolism and light-emitting capability. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":2},{"id":"GO:0044539","count":2},{"id":"GO:0008218","count":2},{"id":"GO:0010214","count":2},{"id":"GO:0001676","count":2}]},{"hash":"629428064515165307","title":"Unknown","description":"The Top Terms span diverse processes (BMP signaling, synapse organization, chemokine production, Rho signaling, hypersensitivity, sensory perception of sound, macrophage chemotaxis, myeloid differentiation, paranode localization, wound healing) with no clear common function or pathway, making it hard to assign a coherent, specific label. Therefore, this cluster is Unknown with no confidence. ","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030513","count":2},{"id":"GO:0050808","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0001798","count":2}]},{"hash":"1104076443194178517","title":"Cell cycle and autophagy regulators","description":"The terms cluster around negative regulation of cell proliferation and mitotic processes, plus macroautophagy and kinetochore localization, suggesting a theme of controlling cell growth/division with autophagy involvement; some differentiation and collagen-related terms are present but are secondary to the core growth-control signals.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016236","count":2},{"id":"GO:0007089","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0045839","count":1},{"id":"GO:0034501","count":1}]},{"hash":"2297864879728283770","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":36,"triangles":55,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0055114","count":4},{"id":"GO:0009718","count":2},{"id":"GO:0006541","count":2},{"id":"GO:0019835","count":2}]},{"hash":"7103845008125930","title":"Diverse small-molecule biosynthesis","description":"The set of GO terms centers on biosynthetic and catabolic processes for a variety of small molecules, from antibiotics and biotin to heme precursors (protoporphyrinogen IX) and several amino acids, along with lipoteichoic acid biosynthesis and GABA catabolism. This suggests the cluster reflects enzymes involved in broad metabolic biosynthesis and turnover of diverse small-molecule metabolites rather than a single, cohesive pathway.","confidence":"Medium","size":11,"edges":17,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0009102","count":4},{"id":"GO:0019878","count":4},{"id":"GO:0006782","count":4},{"id":"GO:0070395","count":3}]},{"hash":"640050219053734262","title":"Membrane metal ion transport","description":"The cluster is dominated by GO terms for transmembrane transport of various metal ions (calcium, cadmium, potassium, zinc) and related ion homeostasis, pointing to a cohesive function of metal ion transport across membranes. A few terms like olfactory perception and microvillus assembly appear less central and may be incidental.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":2},{"id":"GO:0070588","count":2},{"id":"GO:0061092","count":2},{"id":"GO:0070574","count":2},{"id":"GO:0050911","count":2}]},{"hash":"216664021082899813","title":"Ribosome Biogenesis and rRNA Maturation","description":"The top GO terms cluster around maturation and processing of ribosomal RNA (SSU/LSU/5.8S from tricistronic transcripts), indicating a primary role in ribosome assembly and ribosomal RNA maturation. Other terms (cell division, innate immune response, defense against virus, DNA repair, toxin response) suggest additional stress- and signaling-related roles, but the central theme appears to be ribosome biogenesis.","confidence":"Medium","size":11,"edges":9,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0006268","count":2},{"id":"GO:0000463","count":2}]},{"hash":"456300394820898890","title":"Protein Translation","description":"The top GO term is translation (GO:0006412) with 6 proteins, indicating the cluster\u2019s core function is protein synthesis. Other terms include tRNA wobble uridine modification and related translation-associated activities, with a few miscellaneous processes that may reflect multifunctional proteins or annotation noise. Overall, the dominant theme is translation-related functions, so this label is representative of the cluster\u2019s main role.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0009236","count":1},{"id":"GO:0006859","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0002098","count":1}]},{"hash":"1971947934615268797","title":"Steroid, lipid, and retinoid metabolism","description":"The cluster's proteins are enriched for biosynthetic and metabolic GO terms including testosterone biosynthesis, androgen metabolism, fatty acid elongation, very long-chain fatty acid biosynthesis, retinoic acid biosynthesis, and retinol metabolism. This points to a coherent theme of steroid and lipid metabolism, with retinoid pathways as related lipid-like processes, supporting a label of Steroid, lipid, and retinoid metabolism. Some minor terms (e.g., transcription regulation, antibiotic response) may reflect additional roles but do not override the main metabolic theme.","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":4},{"id":"GO:0008209","count":4},{"id":"GO:0030497","count":3},{"id":"GO:0042761","count":3},{"id":"GO:0042376","count":3}]},{"hash":"1090686264064444868","title":"Detoxification and Xenobiotic Stress Response","description":"The top GO terms show strong enrichment for cellular oxidant detoxification and response to xenobiotic stimulus, with supporting signals from glucocorticoid and folic acid responses, indicating a shared role in chemical stress management. Some terms related to neural signaling and learning appear as less cohesive outliers, but the dominant theme across the cluster is detoxification and xenobiotic response.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0098869","count":5},{"id":"GO:0042493","count":5},{"id":"GO:0051384","count":4},{"id":"GO:0007612","count":4},{"id":"GO:0090122","count":4}]},{"hash":"1686884749818872696","title":"RNA Processing and Chromatin Methylation","description":"This cluster is dominated by GO terms on RNA modification (tRNA wobble uridine, rRNA methylation) and methylation of histones/proteins (peptidyl-lysine, H3/H4 methylation) along with negative regulation of transcription by RNA Pol II, pointing to a cohesive role in RNA maturation and chromatin-based regulation. Some terms about ribosomal export and cell growth, plus an outlier cobalamin biosynthesis term, appear less specific but do not override the main theme.","confidence":"Medium","size":11,"edges":28,"triangles":30,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001300","count":6},{"id":"GO:0043985","count":3},{"id":"GO:0009236","count":3},{"id":"GO:0034970","count":3},{"id":"GO:0018026","count":3}]},{"hash":"2002014940600138929","title":"Unknown","description":"The top GO terms are very diverse, including oxidative stress response, immune/antibiotic responses, fatty acid response, and developmental processes (embryo implantation, heart development, prostate epithelial differentiation). There is no clear single function tying these proteins together, so a unified label isn\u2019t apparent.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0045746","count":4},{"id":"GO:0060528","count":4},{"id":"GO:0007566","count":4},{"id":"GO:0070542","count":4}]},{"hash":"711658814009648588","title":"Central metabolism and redox homeostasis","description":"The top GO terms cluster around core metabolism (tricarboxylic acid cycle, amino acid catabolic/biosynthetic processes) and redox homeostasis, suggesting a metabolic, energy-producing role. Some terms like liver development, midbrain dopaminergic neuron differentiation, actin filament depolymerization, and positive regulation of eclosion appear as minor or organism-specific outliers, but the dominant themes point to central metabolism and redox balance.","confidence":"Medium","size":11,"edges":10,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0001889","count":2}]},{"hash":"458852787555686012","title":"Glycolysis and gluconeogenesis","description":"This cluster is dominated by GO terms for canonical glycolysis, fructose metabolism, and gluconeogenesis, indicating a set of proteins involved in carbohydrate energy metabolism. While a couple of terms (e.g., vacuolar ATPase assembly, symbiont entry) appear peripheral or outdated, the core signal points to glycolytic and gluconeogenic processes.","confidence":"Medium","size":11,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070072","count":1},{"id":"GO:0051289","count":1},{"id":"GO:0061621","count":1},{"id":"GO:0030388","count":1},{"id":"GO:0032781","count":1}]},{"hash":"602238121954094668","title":"Glycosaminoglycan sulfation and proteoglycan biosynthesis","description":"The top GO terms cluster around sulfation (peptidyl-tyrosine sulfation, protein sulfation, sulfate assimilation) and biosynthesis of proteoglycans/glycosaminoglycans (keratan sulfate, dermatan sulfate, heparin/HS proteoglycans). This points to a functional group focused on modifying and assembling sulfated proteoglycans, components of the extracellular matrix and signaling modulating pathways. Some terms about angiotensin regulation and fat cell differentiation appear less directly connected and may be incidental. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006478","count":6},{"id":"GO:0006068","count":6},{"id":"GO:0018146","count":6},{"id":"GO:0030205","count":6},{"id":"GO:0030210","count":6}]},{"hash":"383760515549644711","title":"Developmental signaling and cell growth","description":"This cluster centers on intracellular signal transduction, cell growth/division (mitotic cell cycle, ribosome biogenesis), and developmental processes (brain, multicellular, skeletal development). While there is some variability (e.g., ER-stress\u2013related apoptosis and blue light signaling), the common theme appears to be signaling networks that regulate development and growth, with ancillary stress and repair aspects. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0009785","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0043433","count":3},{"id":"GO:0042254","count":2}]},{"hash":"857897055641948562","title":"Unknown","description":"The top GO terms span very different biological contexts (light perception, plant and animal development, immune activation, proteasome assembly, and protein complex formation) with no single unifying function or pathway. There are no observed edges within the cluster, suggesting a compositionally mixed set rather than a cohesive functional module. Therefore, no clear theme ties these proteins together.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050908","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0006929","count":3},{"id":"GO:0007229","count":3},{"id":"GO:1905050","count":3}]},{"hash":"1244589734269117439","title":"Actin Cytoskeleton Assembly and Dynamics","description":"The cluster is dominated by GO terms related to actin filament nucleation, polymerization, and bundle assembly (e.g., Arp2/3-mediated actin nucleation; actin filament polymerization; actin filament bundle assembly), with additional terms pointing to actin-dependent processes in cell division and muscle filament assembly (mitotic cytokinesis; meiotic chromosome movement; skeletal muscle thin filament assembly). A few histone acetylation terms appear obsolete and do not define the main function. Together, these points strongly support a cohesive theme around actin cytoskeleton assembly and remodeling.","confidence":"High","size":11,"edges":27,"triangles":19,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":3},{"id":"GO:0034314","count":3},{"id":"GO:0051017","count":3},{"id":"GO:0043982","count":3},{"id":"GO:0035264","count":3}]},{"hash":"1869158768926759511","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":8,"triangles":4,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000463","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0000472","count":4},{"id":"GO:0000480","count":4},{"id":"GO:0006260","count":4}]},{"hash":"1659267882896607670","title":"ECM remodeling and immune-vascular signaling","description":"Top GO terms indicate extracellular matrix modification (metallopeptidase activity, hyaluronan metabolism, integrin signaling, cell migration) alongside immune and vascular processes (T cell activation, complement, coagulation, extravasation). This suggests a cohesive theme of ECM remodeling with immune cell trafficking and vascular inflammation.","confidence":"Medium","size":11,"edges":11,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006929","count":6},{"id":"GO:0007229","count":6},{"id":"GO:1905050","count":6},{"id":"GO:0003429","count":6},{"id":"GO:0070208","count":6}]},{"hash":"830329146276781074","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":29,"triangles":34,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0048701","count":6},{"id":"GO:0000398","count":5},{"id":"GO:1904570","count":5},{"id":"GO:0071038","count":5}]},{"hash":"395550969090951536","title":"Unknown","description":"The terms span many distinct biological domains (sporulation; cell migration; integrin signaling; metallopeptidase regulation; chondrocyte morphogenesis; protein heterotrimerization; stamen formation; proteasome assembly; T cell activation; extravasation), with no clear unifying function. This diversity suggests there is no single cohesive theme to label the cluster, so a specific functional name cannot be assigned.","confidence":"","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030435","count":2},{"id":"GO:0006929","count":1},{"id":"GO:0007229","count":1},{"id":"GO:1905050","count":1},{"id":"GO:0003429","count":1}]},{"hash":"738046046373279605","title":"Ubiquitin-Driven ERAD and Immune Signaling","description":"The terms point to ubiquitin-dependent ERAD and its regulation, plus components that modulate innate immune signaling (e.g., NF-\u03baB-related processes and PGRP signaling), deubiquitination, and related cellular processes such as nuclear membrane reassembly and cell death. This suggests a cohesive theme where ubiquitin-mediated protein quality control intersects with immune pathway regulation and cell fate, even though some terms are obsolete. ","confidence":"Medium","size":11,"edges":43,"triangles":105,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0061060","count":2},{"id":"GO:0031134","count":2},{"id":"GO:0034389","count":2},{"id":"GO:0008219","count":2}]},{"hash":"3445401644299117","title":"Neural development and synaptic signaling","description":"The cluster shows enrichment in nervous system development, synapse assembly, and neuronal signaling terms (ERK/MAPK pathway regulation, acetylcholine metabolism, and sodium channel clustering), pointing to roles in neuron differentiation and synaptic connectivity. Some terms relate to broad stress or inflammatory responses, but the core theme centers on neural development and synaptic function.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0051901","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1805222895189333108","title":"DNA Replication and Cell Cycle Machinery","description":"This cluster is dominated by GO terms linking to DNA replication (DNA replication initiation, pre-replicative complex assembly) and cell division, with additional support from related replication and repair processes (e.g., homologous recombination). While some terms (like cilium movement or vesicle transport) are less directly connected and may reflect multi-function proteins or annotation noise, the core theme centers on DNA replication and cell cycle machinery.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0051260","count":4},{"id":"GO:0003341","count":4},{"id":"GO:0000027","count":4},{"id":"GO:1990048","count":4}]},{"hash":"906543646771311469","title":"GTPase-regulated vesicle trafficking","description":"These proteins show a clear focus on intracellular transport, especially ER\u2013Golgi vesicle trafficking and retrograde transport, combined with regulation of GTPase activity and heterotrimerization. Additional terms related to TORC1 signaling, mitotic spindle assembly, and development suggest broader roles in growth and cell division, but the core theme remains vesicle trafficking governed by GTPase activity.","confidence":"Medium","size":11,"edges":4,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0070208","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0035987","count":4},{"id":"GO:0007161","count":4}]},{"hash":"999244262886489762","title":"RNA processing and translation regulation","description":"The GO terms cluster around RNA processing steps (mRNA splicing regulation, ncRNA-mediated silencing, rRNA maturation) and control of translation initiation/ reinitiation (preinitiation complex formation, IRES-dependent viral translation, viral termination-reinitiation), suggesting a cohesive theme of RNA processing coupled with regulation of translation, including viral contexts.","confidence":"High","size":11,"edges":11,"triangles":2,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":5},{"id":"GO:0006446","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0000464","count":4}]},{"hash":"1843632511462927921","title":"Neuronal Temperature Response and Ion Transport","description":"The cluster is enriched in terms related to temperature response (diet-induced thermogenesis, cellular response to temperature stimulus) and ion transport/homeostasis (potassium and sodium import/export across the plasma membrane), with neural-behavioral terms (sensory perception of pain, locomotory behavior, amphetamine response) suggesting a link to neuronal excitability and thermoregulation via ion gradients.","confidence":"Medium","size":11,"edges":18,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0002024","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0030007","count":5},{"id":"GO:0097623","count":5},{"id":"GO:0019233","count":5}]},{"hash":"1705676380108227033","title":"Heat stress and telomere regulation","description":"The term set centers on heat/temperature response and telomere/chromosome maintenance, with supporting signals from protein modifications (ubiquitination, ADP-ribosylation) that commonly modulate stress responses and chromatin regulation; a few unrelated terms appear but do not dominate the cluster.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0050955","count":2},{"id":"GO:2000340","count":2},{"id":"GO:1904357","count":2}]},{"hash":"1442196353819387949","title":"Complement and Fc receptor\u2013driven immune signaling","description":"The cluster is enriched for immune-related GO terms: complement activation via the lectin pathway, Fc-gamma receptor signaling, and basophil activation, indicating immune signaling activity. Several other terms reference developmental processes (metanephric kidney development, lymph vessel morphogenesis, cartilage condensation), which may be less coherent with the main theme but do not contradict the immune signal dominance.","confidence":"Medium","size":11,"edges":14,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":9},{"id":"GO:0060355","count":7},{"id":"GO:0072218","count":7},{"id":"GO:0090238","count":7},{"id":"GO:0038094","count":7}]},{"hash":"55113351813144092","title":"Dopaminergic signaling and sensory perception","description":"These terms cluster around neuronal signaling and sensory processing: dopaminergic synaptic transmission, visual perception and learning, pain perception, and cocaine-related behavior, with modulation of ERK signaling. This pattern points to neural reward/sensory pathways rather than other cellular processes. Some terms (kinetochore localization, heart development) are less directly tied to this theme but may reflect broader annotation or multifunctionality.","confidence":"Medium","size":11,"edges":22,"triangles":18,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071380","count":9},{"id":"GO:0034501","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0007601","count":9}]},{"hash":"1495297323637298097","title":"Unknown","description":"The GO terms are highly diverse, including acrosome assembly and meiosis-related processes, eye development, transport, lipid homeostasis, inflammatory and xenobiotic responses, and ion sensitivity, with no dominant shared function or pathway linking the proteins. There are zero edges, reinforcing the lack of a coherent functional theme to name this cluster.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007112","count":2},{"id":"GO:0055091","count":1},{"id":"GO:0031649","count":1},{"id":"GO:0001675","count":1},{"id":"GO:0015758","count":1}]},{"hash":"2194540840448895004","title":"Immune signaling and endocytic regulation","description":"Based on the top GO terms, the proteins are enriched in immune signaling (negative regulation of IL-23 production; T-helper 1 response; GPCR signaling) and membrane trafficking/endocytosis (endocytosis; regulation of synaptic vesicle endocytosis; phospholipid homeostasis), with downstream kinase pathways (JNK cascade; TORC2 signaling). This combination suggests a coherent cluster centered on membrane-associated signaling that interfaces immune responses with vesicle trafficking and lipid regulation.","confidence":"Medium","size":11,"edges":6,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032707","count":6},{"id":"GO:0042088","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0046330","count":6},{"id":"GO:0006897","count":5}]},{"hash":"146810535452224009","title":"Mammalian development and tissue differentiation","description":"This set of terms centers on developmental and differentiation processes across tissues: blastocyst development, cell fate determination/commitment, morphogenesis of mammary ducts, goblet cell differentiation, macrophage differentiation, and related apoptosis. The presence of mechanosensory behavior and blood circulation suggests broader developmental contexts beyond a single tissue, but the common theme is lineage specification and tissue morphogenesis.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001824","count":9},{"id":"GO:0097152","count":5},{"id":"GO:0007464","count":5},{"id":"GO:0033600","count":5},{"id":"GO:0060480","count":5}]},{"hash":"1116725498224482362","title":"Unknown","description":"The top GO terms span plant development (root hair) and animal differentiation, sensory perception, immune signaling, and general signal transduction, showing no single cohesive function across the cluster. This makes it hard to assign a specific, representative label.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080147","count":2},{"id":"GO:0045445","count":2},{"id":"GO:0050966","count":2},{"id":"GO:0050968","count":2},{"id":"GO:0070241","count":1}]},{"hash":"22246695738555299","title":"Unknown","description":"The GO terms span ubiquitination, vitamin D response, calcium transport, auditory mechanosensation, nodal flow detection, nephron development, synaptic plasticity regulation, and melanosome organization, with no single cohesive function linking all proteins. Hence, there is no clear, shared theme to assign a specific label.","confidence":"","size":11,"edges":9,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0098703","count":2},{"id":"GO:0050910","count":2},{"id":"GO:0042994","count":1}]},{"hash":"580017020856466931","title":"Secretory vesicle trafficking and exocytosis","description":"The top GO terms point to vesicle formation, docking, and secretion (neurotransmitter release, exocytosis, calcium-dependent exocytosis) plus transport between Golgi, endosomes, and lysosomes, and contexts like brain development and platelet degranulation. This suggests a cohesive theme of secretory and vesicle-trafficking pathways, including autophagy-related regulation, rather than a single specific tissue function. Therefore, a concise label is \u201cSecretory vesicle trafficking and exocytosis.\u201d","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0032418","count":2},{"id":"GO:0006904","count":2},{"id":"GO:0002576","count":2}]},{"hash":"596206486734466943","title":"Developmental Transcriptional Regulation","description":"Top GO terms show a focus on DNA-templated transcription and transcriptional regulation, alongside developmental processes such as Wnt signaling, meiosis-related chromosome pairing, and embryonic mitotic cycles, plus development-related processes like mammary gland development. This combination suggests a cohesive theme of gene expression control during development and associated signaling pathways, rather than a single metabolic function.","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0060070","count":4},{"id":"GO:0007129","count":4},{"id":"GO:0035186","count":4}]},{"hash":"1057577253679463083","title":"P-body Assembly and mRNA Decapping","description":"The cluster is dominated by terms tied to cytoplasmic mRNA processing and decay, including P-body assembly, regulation of cytoplasmic mRNA processing body assembly, and deadenylation-independent decapping of nuclear-transcribed mRNA, pointing to a post-transcriptional regulation theme. Some unrelated terms (neural development and antiviral signaling) appear but do not define the core function.","confidence":"Medium","size":11,"edges":16,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051823","count":2},{"id":"GO:0002091","count":2},{"id":"GO:0042051","count":2},{"id":"GO:1904780","count":2},{"id":"GO:0060340","count":2}]},{"hash":"150697210794616406","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006307","count":1},{"id":"GO:0002107","count":1}]},{"hash":"2066457479208417214","title":"RNA Pol II Transcription Regulation and Chromatin Remodeling","description":"The top GO terms are dominated by regulation of transcription by RNA polymerase II and chromatin-related processes (histone acetylation, nucleosome mobilization, preinitiation complex assembly), indicating a cohesive function in controlling gene expression through chromatin state, with context in stress and development signals like photomorphogenesis.","confidence":"Medium","size":11,"edges":51,"triangles":131,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0000436","count":3},{"id":"GO:0061408","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0042766","count":3}]},{"hash":"662690617832735946","title":"Neuroendocrine Signaling","description":"The top GO terms point to signaling pathways across nervous and hormonal systems (dopaminergic and norepinephrine/epinephrine signaling, histamine effects, gastric acid secretion, heat generation, vascular regulation, and GPCR-mediated control of adenylate cyclase). Despite one term touching immune cell movement, the common thread is neuromodulatory and autonomic signaling networks rather than a single specific process, suggesting a Neuroendocrine signaling theme for this cluster.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010818","count":11},{"id":"GO:0071881","count":11},{"id":"GO:0031649","count":11},{"id":"GO:0001963","count":11},{"id":"GO:0001697","count":11}]},{"hash":"836003896439577157","title":"Cardiac and skeletal muscle contraction regulation","description":"GO terms emphasize contraction in slow-twitch skeletal fibers, fiber-type transitions, cardiac muscle contraction and ventricular morphogenesis, muscle filament sliding and its regulation, smooth muscle contraction, and regulation of arterial blood pressure, signaling a unified theme of muscle contraction and its regulation across muscle types.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031444","count":8},{"id":"GO:0014883","count":8},{"id":"GO:0043057","count":8},{"id":"GO:0055010","count":8},{"id":"GO:0032780","count":8}]},{"hash":"1168638238971395092","title":"Calcium-dependent neural signaling and astrocyte activation","description":"The top GO terms cluster around calcium transport and response, phosphatidylinositol signaling, and calcineurin-NFAT signaling, all of which point to calcium-driven signaling in neural cells. Axonogenesis and short-term memory terms further support a neuronal context, while astrocyte activation aligns with glial calcium signaling. The kidney development term is an outlier but does not dominate the overall theme.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":8},{"id":"GO:0007409","count":6},{"id":"GO:0070588","count":5},{"id":"GO:0071277","count":5},{"id":"GO:0072286","count":5}]},{"hash":"1023965427597261285","title":"Glutamatergic Synaptic Signaling and Receptor Regulation","description":"The cluster is dominated by GO terms related to glutamatergic synaptic transmission (NMDA receptor clustering, AMPA receptor activity, and regulation of synaptic transmission), indicating a neuronal signaling theme. Some terms reference telomere biology and endothelial processes, which are less coherent with the main function, but the synaptic terms predominate.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002043","count":3},{"id":"GO:0097114","count":3},{"id":"GO:0035024","count":3},{"id":"GO:0007605","count":3},{"id":"GO:2000969","count":3}]},{"hash":"332541922379652283","title":"Embryonic kidney and lymphatic development with immune signaling","description":"The top GO terms include embryonic nephrogenesis processes (metanephric ascending thin limb development, metanephric proximal tubule development, mesonephric duct development), lymphatic vessel morphogenesis, cartilage condensation, and immune-related signaling (basophil activation, Fc-gamma receptor signaling) along with arachidonate secretion. This mix suggests a developmental program coordinating organ formation (kidney/lymphatic) with vascular and immune signaling, justifying this label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060355","count":5},{"id":"GO:0072218","count":5},{"id":"GO:0090238","count":5},{"id":"GO:0038094","count":5},{"id":"GO:0051873","count":5}]},{"hash":"845280815193981108","title":"Ubiquitin-Proteasome Growth and Cell-Cycle Regulation","description":"The cluster centers on protein turnover and growth control: ubiquitination (K48-linked), proteolysis, ERAD, and Wnt receptor catabolic process signal regulated protein degradation, which feeds into controlling transcription, cell cycle, and stem cell proliferation. Together with negative regulation of organ growth and transcription, this suggests a theme of proteostasis coordinating growth and division. A couple terms about X chromosome inactivation and dosage compensation appear ancillary to the core theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0072089","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0070936","count":2}]},{"hash":"553360129554384939","title":"Immune signaling and apoptosis regulation","description":"This cluster is dominated by terms that indicate immune activation (defense response to virus, cellular response to dsRNA, T cell chemotaxis) and mitochondrial pathways involved in apoptosis (mitochondrial fission and outer membrane permeabilization). While a few terms touch on development, the strongest shared themes are immune signaling and regulation of programmed cell death, suggesting a coherent functional cluster around immune response and apoptosis control.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002230","count":1},{"id":"GO:0032464","count":1},{"id":"GO:0043010","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0090141","count":1}]},{"hash":"930474534089338225","title":"Ribosome biogenesis and RNA processing","description":"The terms show strong ties to translation and rRNA processing (translation, rRNA processing, maturation of LSU-rRNA), pointing to ribosome assembly and RNA metabolism as the cluster\u2019s core function. Some chromatin-related terms (nucleosome assembly, rDNA/subtelomeric heterochromatin formation) and brain development terms appear but are likely peripheral, suggesting the main theme is ribosome biogenesis and RNA processing rather than a single chromatin or developmental program.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070555","count":2},{"id":"GO:0046784","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0006348","count":2}]},{"hash":"709522756649711637","title":"Ribosome Biogenesis and Translation","description":"The cluster\u2019s top GO terms are dominated by ribosome-related processes: ribosome biogenesis, ribosomal subunit export from nucleus, cytoplasmic translation, and tRNA modification, which together point to assembly and function of the protein-synthesis machinery. Other terms about cell division and septum assembly appear less central, likely reflecting broader cellular coupling but don\u2019t override the ribosome-focused theme. Overall, a concise label is \u201cRibosome Biogenesis and Translation.\u201d","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0006400","count":1},{"id":"GO:0000747","count":1},{"id":"GO:0042274","count":1}]},{"hash":"2277629290062659141","title":"Nervous system sensory perception and behavior","description":"The top GO terms cluster around nervous system functions such as thermoception (thermosensation, detection of temperature), behavioral responses to pain, and neural structure/development (optic nerve organization, cerebellum maturation). While a few terms like caffeine response and chemokine production are more peripheral, the overall theme points to sensory processing and related neural behavior, justifying a nervous-system\u2013focused label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021590","count":4},{"id":"GO:0048016","count":4},{"id":"GO:0050955","count":4},{"id":"GO:0048266","count":4},{"id":"GO:2000340","count":4}]},{"hash":"1767097555571352633","title":"Regulatory signaling and neural processes","description":"These proteins carry diverse regulatory GO terms spanning neural functions (learning, memory) and broad physiological regulation (blood pressure, TGF-beta production, calcium ion transport, cell proliferation) as well as responses to xenobiotics and ATP. The common thread is a generalized role in regulating signaling and cellular processes rather than a single cohesive pathway, suggesting a broad regulatory cluster rather than a specific functional module.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0051926","count":1},{"id":"GO:0010226","count":1},{"id":"GO:0046697","count":1}]},{"hash":"227665789212853090","title":"Unknown","description":"The top GO terms span DNA replication, repair, and transposition, plus apoptosis, muscle development, B cell signaling, and stress responses, showing no single cohesive function or pathway linking the proteins. This diversity suggests the cluster cannot be cleanly named by a common biological theme.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071375","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0006260","count":2}]},{"hash":"2056379766650721862","title":"Tissue development and lipid metabolism","description":"Top GO terms cluster around organ development (liver, brain, kidney) alongside lipid metabolism processes (cholesterol transport and metabolism, fatty acid beta-oxidation) and propionyl-CoA biosynthesis. While there is no single dominant pathway, the co-occurrence of developmental terms with lipid metabolic processes suggests a shared theme of tissue development coupled with metabolic regulation.","confidence":"Medium","size":10,"edges":25,"triangles":38,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":5},{"id":"GO:1902109","count":4},{"id":"GO:1902860","count":4},{"id":"GO:0014070","count":4},{"id":"GO:0051260","count":4}]},{"hash":"902975073179246079","title":"Central carbon metabolism and cofactor biosynthesis","description":"The top GO terms point to core carbon metabolism (oxaloacetate, TCA cycle, glyoxylate cycle, glycolytic process) and biosynthesis of vitamins/cofactors (biotin, cobalamin, protoporphyrinogen IX). This suggests a cohesive theme around energy/carbon flow and the production of essential cofactors, with a possible regulatory link to cAMP signaling. High","confidence":"","size":10,"edges":38,"triangles":85,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006107","count":5},{"id":"GO:0019878","count":5},{"id":"GO:0009236","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0033512","count":4}]},{"hash":"238468730089817507","title":"RNA and chromatin methylation enzymes","description":"Top GO terms are dominated by methylation processes, including peptidyl-lysine, arginine, rRNA, and tRNA methylation, plus histone methylation and transcription regulation. This points to a group of methyltransferases involved in RNA processing and chromatin modification, with a possible secondary link to transcriptional control; an outlier term related to cobalamin biosynthesis is less consistent with the core pattern.","confidence":"Medium","size":10,"edges":24,"triangles":30,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0018027","count":7},{"id":"GO:0031167","count":7},{"id":"GO:0009236","count":5},{"id":"GO:0018013","count":5},{"id":"GO:0030488","count":4}]},{"hash":"726124025857262495","title":"Lipid biosynthesis and retinoid/steroid metabolism","description":"The cluster shows multiple GO terms centered on lipid metabolism: fatty acid elongation, very long-chain fatty acid biosynthetic process, sphingolipid biosynthetic process, and phylloquinone catabolic process, plus retinoid and steroid pathways (retinol/retinoic acid and glucocorticoid biosynthesis). This points to a shared theme of lipid and steroid-related metabolite production, with a secondary transcription regulation term likely reflecting broader regulation. Overall, lipid metabolism is the dominant connection.","confidence":"Medium","size":10,"edges":4,"triangles":1,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030497","count":4},{"id":"GO:0042761","count":4},{"id":"GO:0042376","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0002138","count":4}]},{"hash":"1672985563741394640","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":30,"triangles":39,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0034474","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0006397","count":2}]},{"hash":"1280245827915299964","title":"Ciliary/Flagellar Axoneme Assembly and Motility","description":"The top terms cluster around cilium/axoneme biology: axoneme assembly, cilium movement, and sperm flagellum motility, plus post-translational tubulin modifications (polyglutamylation, polyglycylation) and microtubule severing. These together point to proteins governing ciliary/flagellar structure and movement, with a specific emphasis on sperm-related motility. Some outliers (DNA repair, inositol catabolic processes) are minor and do not redefine the main theme.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030516","count":2},{"id":"GO:1905419","count":2},{"id":"GO:0018095","count":2},{"id":"GO:0003353","count":2},{"id":"GO:0003351","count":2}]},{"hash":"2132794978960916390","title":"Cardiac neural crest and muscle development signaling","description":"This cluster shows a coherent set of GO terms tied to embryonic development and signaling, notably cardiac development (cardiac right ventricle formation; cardiac neural crest cell development involved in outflow tract morphogenesis), left/right axis specification, and integrin signaling, along with Notch pathway regulation. Also includes skeletal muscle growth and some neural plasticity terms, suggesting a broader developmental signaling module that spans heart, muscle, and neural-related processes. The cohesion around development and signaling supports a specific label focused on cardiac neural crest\u2013driven development and muscle signaling.","confidence":"High","size":10,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1900273","count":2},{"id":"GO:0048630","count":2},{"id":"GO:0007612","count":1},{"id":"GO:0042691","count":1},{"id":"GO:0019800","count":1}]},{"hash":"90605750261496324","title":"Sensory and skeletal organogenesis","description":"The top GO terms cluster around development of sensory organs (retina, cochlea) and skeletal tissue (osteoblast development) with additional neural regulation terms, suggesting a theme of organogenesis across sensory and bone tissues. Some general processes like translation and cell cycle are present but do not override the tissue-specific developmental signals. ","confidence":"Medium","size":10,"edges":11,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0002076","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0002087","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0006400","count":2}]},{"hash":"1782793446393026198","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":22,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0000028","count":2},{"id":"GO:0006407","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0034474","count":2}]},{"hash":"1549931319179087108","title":"Metabolism and cell fate regulation","description":"The top GO terms span glycogen biosynthesis (energy storage), apoptotic processes, cellular response to peptide hormones, cell cycle progression (G1/S transition), and redox homeostasis, suggesting the cluster coordinates cellular energy status with growth, survival, and stress responses. Although some older/obsolete terms are present, the overall pattern points to metabolism-linked regulation of cell fate rather than a single pathway.","confidence":"Medium","size":10,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0071375","count":2},{"id":"GO:1900087","count":2},{"id":"GO:0045454","count":2}]},{"hash":"1336114777166630535","title":"Redox stress and inflammatory signaling regulation","description":"The GO terms cluster around oxidative detoxification and DNA repair, with strong emphasis on downregulating inflammatory and growth signaling pathways (NF-kappaB, ERK). There is also involvement in redox balance and regeneration signals, suggesting proteins that modulate cellular stress responses, genome maintenance, and signaling crosstalk during adaptation. The common theme is regulation of redox and inflammatory signaling in the context of stress and repair.","confidence":"High","size":10,"edges":27,"triangles":39,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":7},{"id":"GO:0006289","count":7},{"id":"GO:0006808","count":6},{"id":"GO:0009734","count":6},{"id":"GO:0031100","count":6}]},{"hash":"1411126255414526305","title":"Prostaglandin Biosynthesis and Developmental Signaling","description":"The top term prostaglandin biosynthetic process, together with CNS development, organ regeneration, and regulation of MAPK pathways (ERK/JNK) plus cell cycle control, suggests a cluster of proteins involved in lipid-mediated signaling that modulates development and proliferation. Some peripheral terms (vacuolar acidification, nitrogen utilization regulation) seem ancillary or noisy, but the dominant pattern centers on prostaglandin signaling linked to developmental processes.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":7},{"id":"GO:0006808","count":4},{"id":"GO:0031100","count":4},{"id":"GO:2000469","count":4},{"id":"GO:0070373","count":4}]},{"hash":"888905581755589352","title":"Synaptic vesicle cycling and excitatory signaling","description":"The top GO terms converge on synaptic vesicle docking, endocytosis, and exocytosis, as well as excitatory postsynaptic potentials, suggesting the proteins cluster around neuronal synaptic vesicle trafficking and glutamatergic signaling. Some development-related terms (substantia nigra, heart) may reflect broader roles or pleiotropy but do not outweigh the synaptic trafficking signal.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006904","count":3},{"id":"GO:0007507","count":2},{"id":"GO:0043123","count":2},{"id":"GO:1900242","count":2},{"id":"GO:2000300","count":2}]},{"hash":"1541683213651143776","title":"Neurodevelopment and nociception","description":"The top GO terms cluster around nervous system development (multicellular development, cerebellum maturation, cell migration) and sensory/pain functions (sensory perception of pain, thermoception, behavioral response to pain). Additional terms suggest signaling and neuroimmune aspects (caffeine response, chemokine production), supporting a theme of neural development paired with sensory/pain pathways.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":6},{"id":"GO:0019233","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0016477","count":4},{"id":"GO:0021590","count":4}]},{"hash":"879443727918625683","title":"RNA Processing and Cell Cycle Functions","description":"The cluster is driven by RNA-processing terms (maturation of LSU-rRNA and 5.8S rRNA; spliceosomal complex assembly; mRNA splicing) and core cell-cycle processes (mitotic cell cycle, cell division), suggesting a theme centered on RNA maturation and division control. The retinal terms (retinal cone cell development, visual perception) are present but likely reflect tissue-specific expression rather than a unifying function of the cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0046549","count":2}]},{"hash":"158046977296244795","title":"Cytoskeleton-Driven Mitosis and Morphogenesis","description":"The top terms are dominated by mitosis- and cytoskeleton-related processes (mitotic centrosome separation, metaphase chromosome alignment, nuclear migration along microtubules, plus-end-directed vesicle transport along microtubules, actomyosin ring assembly), with additional development-related terms (root development, ureteric bud invasion, neuron projection maintenance, chloroplast movement) that all hinge on cytoskeletal dynamics. This suggests a cohesive theme of microtubule- and cytoskeleton-mediated cell division and morphogenesis across contexts.","confidence":"High","size":10,"edges":18,"triangles":18,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007100","count":6},{"id":"GO:0000742","count":6},{"id":"GO:0072092","count":4},{"id":"GO:0007080","count":4},{"id":"GO:0072383","count":4}]},{"hash":"1651954358937629964","title":"Microtubule-driven mitosis and intracellular transport","description":"This cluster centers on microtubule-dependent processes: mitotic centrosome separation and chromosome alignment, nuclear migration along microtubules, karyogamy, and plus-end\u2013directed vesicle transport along microtubules, plus actomyosin ring assembly for cytokinesis. Additional terms like neuron projection maintenance, chloroplast movement, and root development reflect broader cytoskeletal functions across cell types, reinforcing a theme of microtubule-based organization and transport during cell division and morphology. ","confidence":"High","size":10,"edges":22,"triangles":18,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":10},{"id":"GO:0007100","count":9},{"id":"GO:0072092","count":9},{"id":"GO:0007080","count":9},{"id":"GO:0072383","count":9}]},{"hash":"107692471669070634","title":"Proteostasis and post-translational modification","description":"Top terms include SCF-dependent proteasomal ubiquitin\u2013dependent protein degradation and K11-linked ubiquitination, as well as peptidyl-arginine methylation, pointing to a set of proteins involved in protein turnover and PTMs. The presence of actin dynamics, splicing, and developmental processes suggests a broader regulatory module that touches on gene expression and cellular architecture rather than a single cohesive pathway. Confidence in the label reflecting a core theme is Moderate.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0030042","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0035246","count":2}]},{"hash":"640533353812585653","title":"Coagulation and ECM Signaling","description":"The dominant GO terms cluster around blood coagulation, regulation of fibrinolysis, and integrin-mediated signaling, with supporting signals for metallopeptidase activity and hepatocyte growth factor receptor signaling, pointing to a module involved in coagulation-associated extracellular matrix remodeling and cell\u2013matrix communication. Some terms (T cell activation, chondrocyte morphogenesis) are peripheral but reflect broader roles in immune signaling and development. Overall, the cluster seems to center on coagulation-linked signaling and matrix interactions with accompanying growth-factor pathways.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0090201","count":2},{"id":"GO:0048012","count":2},{"id":"GO:0051918","count":2},{"id":"GO:0006929","count":2}]},{"hash":"1499114153350882869","title":"Unknown","description":"The listed GO terms cover developmental, signaling, immune defense, cytoskeletal remodeling, protein turnover, DNA repair, RNA processing, and methylation, with no single dominant function tying them together, so a coherent specific label cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008584","count":5},{"id":"GO:0070208","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0030042","count":4}]},{"hash":"1623727001269714091","title":"Leukocyte activation and cytoskeletal remodeling","description":"The cluster combines immune signaling and cytokine production (IL-2, IL-4, type II IFN) with pathways governing cell adhesion and actin dynamics (integrin signaling, Rho regulation, lamellipodium assembly), consistent with activation and migration of immune cells in response to fungal-origin stimuli.","confidence":"High","size":10,"edges":15,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":6},{"id":"GO:0035023","count":5},{"id":"GO:0010572","count":5},{"id":"GO:0007229","count":4},{"id":"GO:0032633","count":4}]},{"hash":"1753330669150137661","title":"Ubiquitin-Dependent Degradation and ERAD","description":"The cluster is dominated by GO terms related to ubiquitination, ubiquitin-dependent protein catabolic processes, and the ER-associated degradation (ERAD) pathway, including multivesicular body sorting. This points to a shared role in proteostasis and host antiviral responses, with some transport terms appearing as incidental annotations. Despite no edges linking members, the common theme is ubiquitin-mediated protein turnover and ERAD-associated degradation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043162","count":2},{"id":"GO:1902187","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0015700","count":1}]},{"hash":"539640300384647556","title":"Tissue morphogenesis with immune signaling","description":"This cluster shows GO terms spanning development across multiple tissues (kidney structures such as metanephric asc. limb and proximal tubule, mesonephric duct, lymph vessel morphogenesis, cartilage condensation) along with immune-associated pathways (Fc-gamma receptor signaling, basophil activation) and related regulatory processes (cell adhesion molecule production, arachidonate secretion). The common theme appears to be tissue morphogenesis with concomitant modulation of immune signaling, rather than a single isolated function.","confidence":"Medium","size":10,"edges":39,"triangles":83,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060355","count":7},{"id":"GO:0072218","count":7},{"id":"GO:0090238","count":7},{"id":"GO:0038094","count":7},{"id":"GO:0051873","count":7}]},{"hash":"491600476147269000","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0016973","count":5},{"id":"GO:0031047","count":4},{"id":"GO:0000398","count":4},{"id":"GO:1904570","count":4},{"id":"GO:0071038","count":4}]},{"hash":"1220051754413905422","title":"Lipid Metabolism and Xenobiotic Detox","description":"The top GO terms cluster around lipid processing (prostaglandin biosynthesis, triglyceride metabolism, cholesterol catabolic process) and xenobiotic detoxification (dibenzo-p-dioxin and camphor catabolic processes), suggesting a core theme of lipid metabolism with detox pathways. Additional terms like copper ion response and methylation may reflect ancillary regulatory or stress-related roles, but do not override the central lipid/detox signal. Confidence in this labeling is Medium.","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":3},{"id":"GO:0006641","count":2},{"id":"GO:0032259","count":2},{"id":"GO:0008585","count":2},{"id":"GO:0006707","count":2}]},{"hash":"594664121847062720","title":"Regulation of GTPase signaling and cell proliferation","description":"The top GO terms point to regulatory processes rather than a single enzymatic function, notably both positive and negative regulation of GTPase activity, along with negative regulation of protein kinase activity. Additional terms relate to gene expression control (miRNA-mediated silencing), epithelial and stem cell proliferation, and cytoskeletal regulation (actin ubiquitination). There is some noise from peptide amidation/obsolete terms, but the core theme is coordination of signaling and growth regulation rather than a specific catalytic activity.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0006469","count":5},{"id":"GO:0035278","count":4},{"id":"GO:0050680","count":4},{"id":"GO:0018032","count":4}]},{"hash":"544760771088348108","title":"Actin Cytoskeleton Remodeling and Endocytosis Regulation","description":"The top GO terms cluster around actin cytoskeleton dynamics (ruffle assembly; localization to actin cortical patches), membrane trafficking, and signaling pathways (integrin signaling), suggesting a theme of cytoskeletal remodeling and endocytosis regulation. Some meiosis and cytokine-related terms appear but are less representative of the core function. Overall, the cluster seems best characterized by cytoskeletal-driven signaling and membrane trafficking rather than a single precise pathway.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007129","count":1},{"id":"GO:0010569","count":1},{"id":"GO:0007140","count":1},{"id":"GO:0045806","count":1},{"id":"GO:0097178","count":1}]},{"hash":"902768374385442778","title":"Translation initiation and RNA processing","description":"This cluster is enriched for translation initiation and ribosome biogenesis terms (e.g., translation reinitiation, preinitiation complex formation, IRES-dependent initiation) along with spliceosome-mediated mRNA splicing, suggesting a cohesive theme around protein synthesis control and RNA processing. The mix of initiation/biogenesis and splicing terms indicates related roles in preparing and expressing transcripts at the translational level.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0042254","count":4}]},{"hash":"81074419883120828","title":"Neural signaling and retina development","description":"Top GO terms are dominated by nervous system functions (learning, retrograde trans-synaptic signaling) and retina development, pointing to a neural/visual role for this cluster. While other terms touch on hormonal responses and metabolism, the recurring neural-related themes support a label focused on neural signaling with eye development. Some annotations are obsolete or non-neural (e.g., plant carbohydrate biosynthesis), suggesting noise but not overriding the primary neural signal.","confidence":"Medium","size":10,"edges":42,"triangles":98,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051384","count":6},{"id":"GO:0007612","count":6},{"id":"GO:0090122","count":6},{"id":"GO:0098942","count":6},{"id":"GO:0051593","count":6}]},{"hash":"1869460919526758562","title":"Neuronal Development and Actin Remodeling","description":"The top terms cluster around brain development (in utero embryonic development, substantia nigra development) and neuronal morphology (dendritic spine development), with strong signals for actin cytoskeleton dynamics (ruffle and lamellipodium assembly, Rac signaling) and Wnt pathway involvement, suggesting proteins shared in neural morphogenesis and actin-driven remodeling.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":3},{"id":"GO:0060999","count":2},{"id":"GO:1902953","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0050852","count":2}]},{"hash":"1610197216503621855","title":"Chromatin Remodeling and Transcription-Splicing Regulation","description":"This cluster is dominated by GO terms linking chromatin remodeling, transcriptional control (both positive and negative regulation by RNA polymerase II), and mRNA splicing via the spliceosome, plus associated epigenetic regulation and ncRNA-mediated gene silencing. The co-occurrence of chromatin-level regulation with RNA processing and transcriptional control suggests a cohesive module governing gene expression through epigenetic and post-transcriptional mechanisms, with some developmental terms as context.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0035019","count":3},{"id":"GO:0045944","count":3}]},{"hash":"1519374785443544102","title":"Brain development and synaptic signaling","description":"These proteins are heavily annotated with nervous-system terms, including nervous system development, brain development, synapse assembly, and glutamatergic synaptic transmission, pointing to neural development and synaptic function as the main theme. Some terms like ossification and angiogenesis appear but are less central to the cluster\u2019s dominant neural-related signals.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0035855","count":3}]},{"hash":"1487695438143334820","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":17,"triangles":10,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0000387","count":3},{"id":"GO:0000245","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0006369","count":2}]},{"hash":"1362828625970747045","title":"Sensory Perception and Neural Signaling","description":"Based on the top GO terms, the cluster is enriched for sensory detection (mechanical and chemical stimuli, salty taste, pain perception) and regulation of neuronal communication (regulation of synaptic activity, neurotransmitter secretion). While a few terms reference broader physiological processes like water homeostasis and tracheal clearance, the prevailing pattern points to a module of sensory perception and neural signaling.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071467","count":3},{"id":"GO:0050914","count":3},{"id":"GO:1905789","count":3},{"id":"GO:0050891","count":3},{"id":"GO:0046929","count":3}]},{"hash":"1805274090930260842","title":"Cranial bone development and osteogenesis","description":"The cluster is dominated by GO terms related to bone and cranial skeletal development, including osteoblast fate commitment and cranial skeletal system development, suggesting a shared role in skeletal formation. Some terms touch on cell polarity, podosome assembly, and cytokinesis-related processes, which can reflect actin remodeling and cell fusion activities in osteoblast/osteoclast lineage and tissue morphogenesis. Overall, the most representative theme is osteogenesis with emphasis on cranial bone formation.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0060348","count":2},{"id":"GO:1904179","count":2},{"id":"GO:2000769","count":2},{"id":"GO:0060378","count":2}]},{"hash":"697017915378215623","title":"Embryonic ECM remodeling and integrin signaling","description":"Most terms cluster around extracellular matrix (hyaluronan metabolism, metallopeptidase activity) and cell\u2013ECM signaling (integrin-mediated signaling), linked to multicellular development (forebrain and neural tube closure, skeletal development). This suggests a cohesive theme of ECM remodeling guiding embryogenesis through integrin signaling pathways. ","confidence":"High","size":10,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030212","count":4},{"id":"GO:1905050","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0070208","count":3}]},{"hash":"1660728198640004542","title":"Collagen-ECM signaling and myeloid differentiation","description":"Based on the prominent representation of collagen biosynthetic and collagen-activated signaling terms, alongside multiple myeloid/immune differentiation and apoptotic regulation terms, the cluster appears to center on extracellular matrix (collagen) remodeling and signaling in myeloid lineage contexts. The eye morphogenesis term may reflect broader developmental roles of ECM, but the strongest cohesive theme is collagen/ECM-related signaling linked to myeloid differentiation and immune regulation. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002181","count":2},{"id":"GO:0051533","count":2},{"id":"GO:0030853","count":2},{"id":"GO:0032964","count":2},{"id":"GO:0060355","count":2}]},{"hash":"664856353346456415","title":"Unknown","description":"The top terms cover chromatin turnover, vitamin D response, synaptic vesicle transport, stem cell proliferation, autophagy, X-chromosome dosage compensation, necroptosis regulation, chemokine production, non-canonical NF-kB signaling, and lymph node development. The terms reflect diverse cellular processes with no single unifying function, suggesting the cluster contains proteins across multiple pathways rather than a coherent shared function.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0036205","count":9},{"id":"GO:0033280","count":9},{"id":"GO:0048490","count":8},{"id":"GO:0072089","count":8},{"id":"GO:0006914","count":8}]},{"hash":"444103429085471485","title":"Cell fate signaling and stress response","description":"The terms cluster around key signaling pathways (Hippo, Wnt), apoptosis and differentiation (keratinocyte differentiation, neuron apoptotic regulation, cardiac proliferation), along with transcriptional control and metabolic responsiveness (DNA-templated transcription, glucose stimulus). This suggests a core theme of coordinating cell fate decisions, growth/survival, and differentiation in response to cellular stress and metabolic cues, rather than a single narrow process.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0000413","count":2},{"id":"GO:0035329","count":2},{"id":"GO:1903070","count":2}]},{"hash":"1576033554236809512","title":"Adenylate cyclase\u2013coupled GPCR signaling","description":"The GO terms center on activation or inhibition of adenylate cyclase by GPCRs, GPCR internalization, and downstream physiological effects, suggesting a core GPCR signaling theme. This touches on cardiovascular regulation (blood pressure), neural signaling (dopaminergic transmission), and immune/metabolic aspects (T cell chemotaxis, histamine signaling). A few terms related to metabolism and transport broaden the scope but still align with GPCR-mediated regulation. Confidence: High","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":8},{"id":"GO:0010579","count":8},{"id":"GO:0002031","count":8},{"id":"GO:0045777","count":8},{"id":"GO:0022900","count":8}]},{"hash":"2029835818710118839","title":"Cell-Cell Adhesion and Neural/Epidermal Differentiation","description":"The top GO terms point to cell-cell adhesion and junction organization (calcium-dependent and homophilic adhesion), with several differentiation and guidance signals in neural and epidermal contexts (radial glial differentiation, dopaminergic axon guidance, keratinization, melanosome transport). This suggests a cohesive theme around adhesion-related roles influencing both neural development and skin-related processes, justifying a label that blends these aspects. However, the absence of edges and presence of some obsolete terms means the connection is present but not extremely strong.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016339","count":1},{"id":"GO:0060901","count":1},{"id":"GO:0031424","count":1},{"id":"GO:0060019","count":1},{"id":"GO:0051796","count":1}]},{"hash":"2018468329949021323","title":"Ubiquitin-Dependent Proteolysis and Meiosis","description":"The cluster is dominated by GO terms for ubiquitin-mediated protein degradation (SCF-dependent proteasomal ubiquitin-dependent protein catabolic process; ubiquitin-dependent protein catabolic process; protein polyubiquitination), pointing to proteostasis as a core function. The presence of terms tied to meiosis and oocyte maturation (spindle assembly in female meiosis I; oocyte maturation) along with cell cycle and DNA replication initiation regulation suggests a coordinated role of controlled proteolysis in meiotic progression and DNA replication timing. While there are additional signals like circadian regulation and stress responses, the strongest and most coherent theme is ubiquitin-dependent proteolysis linked to meiosis. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":7},{"id":"GO:0000209","count":7},{"id":"GO:0042787","count":7},{"id":"GO:0042752","count":7},{"id":"GO:0007057","count":6}]},{"hash":"2243625248669822436","title":"Embryonic Development Across Tissues","description":"This cluster centers on broad developmental processes across multiple tissues, including heart development, Schwann cell development, ossification, and multicellular organism development, with supporting roles from cell-cycle regulation, cell-matrix adhesion, and cytokinesis. The mix suggests a general morphogenesis/differentiation program rather than a single pathway.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0014044","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1715158439735379154","title":"Mitochondrial Metabolite Transport","description":"The top GO terms largely describe transport of metabolites and cofactors into or out of mitochondria (ADP, alpha-ketoglutarate, pyrimidine nucleotides, magnesium, phosphate, and pyridoxal phosphate), indicating a cohesive mitochondrial metabolite exchange function. A couple of terms reference broader metabolic responses (insulin stimulus, fatty acid response), which fit with energy metabolism themes but do not contradict the core transport-centered pattern.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0032869","count":1},{"id":"GO:0035435","count":1},{"id":"GO:0015866","count":1},{"id":"GO:0097274","count":1}]},{"hash":"807624931156927438","title":"Unknown","description":"The terms span cell proliferation, neural signaling, immune signaling, gastric secretion, and development, with no clear common function or pathway linking the proteins. No edges or cohesive theme emerge to tie the functions together, so a meaningful label cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0060041","count":6},{"id":"GO:0008284","count":6},{"id":"GO:0010818","count":5}]},{"hash":"1878896596782527632","title":"Unknown","description":"The top terms are highly diverse, spanning chemical responses (catechin, curcumin, mercury), cell adhesion, lymphangiogenesis, mitotic spindle attachment, glycogen regulation, sphingomyelin catabolism, and NFAT signaling. There is no single coherent biological function or pathway that ties these terms together, so a meaningful specific label cannot be assigned. ","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902168","count":2},{"id":"GO:1904643","count":2},{"id":"GO:0046689","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0001946","count":1}]},{"hash":"24840163714254939","title":"Mitochondrial Metabolite Transporters","description":"The top GO terms are dominated by transport of various metabolites and cofactors, especially into or out of mitochondria (e.g., ADP transport, phosphate ion transport, alpha-ketoglutarate transport, pyrimidine nucleotide import into mitochondrion, magnesium ion export from mitochondrion, deoxynucleotide transport, pyridoxal phosphate transport). This points to a coherent theme of mitochondrial metabolite transporters, with only a few smaller signals (like insulin response) being less central. Confidence: High.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":6},{"id":"GO:0032869","count":5},{"id":"GO:0035435","count":5},{"id":"GO:0015866","count":5},{"id":"GO:1990519","count":5}]},{"hash":"869872810613233516","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster shows strong enrichment for ubiquitin-mediated proteolysis: ubiquitin-dependent protein catabolic and SCF-dependent proteasomal ubiquitin-dependent processes, along with specific ubiquitin linkages (K63, K48) and autoubiquitination. Additional terms reference circadian rhythm regulation, NF-kappaB signaling, apoptosis, and DNA repair, all of which can be tied to ubiquitin signaling and proteasome turnover. This points to a cohesive function in tagging and degrading substrates via the ubiquitin-proteasome system, with related regulatory consequences.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0051092","count":3}]},{"hash":"1035289762656535720","title":"Embryonic morphogenesis and organ development","description":"The top GO terms point to broad developmental and morphogenetic processes across multiple tissues\u2014heart and vascular development (endocardial cushion formation, endothelial barrier), bone formation (ossification), pancreas morphogenesis, and general growth\u2014along with supporting activities like cell adhesion and mesenchymal proliferation. This suggests a general embryonic tissue development and organogenesis theme rather than a single pathway. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0007596","count":4},{"id":"GO:1903142","count":4},{"id":"GO:0061113","count":4}]},{"hash":"1406322441236223951","title":"Developmental regulation and proteostasis","description":"The cluster centers on developmental processes (brain development, skeletal morphogenesis, male gonad development) and includes regulatory mechanisms such as mRNA splicing, arginine methylation, ubiquitination (K11-linked) and proteasomal degradation, as well as cytoskeletal dynamics (actin depolymerization) and DNA repair. This combination suggests a group of proteins that coordinate development through transcriptional/post-transcriptional regulation and protein turnover, rather than a single pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0030042","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0035246","count":2}]},{"hash":"813978811675694437","title":"Mycothiol and bacillithiol biosynthesis in Gram-positive bacteria","description":"The strongest signals are mycothiol biosynthetic process and bacillithiol biosynthetic process, both explicitly listed. These two pathways are distinctive thiol-based redox systems used by Gram-positive bacteria to maintain redox balance. The presence of phospholipid biosynthetic process suggests accompanying membrane lipid metabolism, which often couples to redox state and stress adaptation. Other terms like response to heat and various sugar responses point to general stress responsiveness, but the central theme remains thiol-based biosynthesis in Gram-positive bacteria.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010125","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0008654","count":2},{"id":"GO:0033577","count":2}]},{"hash":"1967554752880886482","title":"Stimulus-Response Signaling and Developmental Regulation","description":"The cluster shows enrichment for cellular responses to a variety of stimuli (arsenite, lipopolysaccharide, ionomycin, virus, phorbol esters) along with development-related processes (angiogenesis, leaf formation) and regulatory processes (proteasomal degradation, glucosamine metabolism). This pattern suggests proteins involved in sensing or responding to environmental/chemical cues while also linking to developmental regulation pathways, rather than a single, cohesive enzyme function. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:2000025","count":3},{"id":"GO:1903936","count":2},{"id":"GO:0071222","count":2},{"id":"GO:1904637","count":2}]},{"hash":"125260053489008177","title":"Neurodevelopment and neuron-glia signaling","description":"This cluster centers on neural development and glial interactions. The most represented terms include chemical synaptic transmission (neuronal communication), Wnt/PCP and Notch signaling (developmental pathways), radial glia-guided migration of Purkinje cells and astrocyte differentiation (gliogenesis/directive processes), and angiogenesis (vascular development in the CNS). Additional terms related to intracellular trafficking (endosome transport, Golgi localization) likely reflect neuron and glia trafficking essential for development. Together, these terms point to a cohesive theme of CNS development with neuron\u2013glia signaling and maturation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007268","count":2},{"id":"GO:2000096","count":1},{"id":"GO:0035264","count":1},{"id":"GO:0021942","count":1},{"id":"GO:0045746","count":1}]},{"hash":"1572843655597014082","title":"Nuclear Organization and Ribosome Biogenesis","description":"The top GO terms point to nuclear/nucleolar functions, especially ribosome biogenesis, Cajal body organization, and maintenance of protein localization in the nucleus, suggesting a cohesive role in nuclear organization and ribosome production. Some immune or germline-related terms are present but appear less central to the main theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0001782","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1706629470538450956","title":"Ciliary Transport and Kinase Regulation","description":"The terms point to ciliary transport (intraciliary retrograde transport) and regulation of signaling via phosphorylation (positive regulation of kinase activity, protein autophosphorylation, GTPase activity), with additional, broader notes on mRNA transport and stress responses. This suggests a theme of intracellular trafficking linked to signaling control, centered around ciliary transport pathways and phosphorylation-based regulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035721","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0031954","count":2},{"id":"GO:0051028","count":2}]},{"hash":"998220133800331070","title":"Arachidonic acid\u2013driven inflammation and foam cell signaling","description":"The cluster centers on lipid-mediated inflammatory pathways: arachidonic acid metabolism (arachidonate secretion, leukotriene biosynthesis, phospholipid remodeling, phosphatidic acid biosynthesis) driving macrophage activation, IL-8 production, and antibacterial humoral responses, with a link to foam cell differentiation and cholesterol efflux regulation. This suggests a coherent theme of lipid signaling fueling inflammatory responses in macrophages and foam cell formation.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090238","count":3},{"id":"GO:0090370","count":3},{"id":"GO:0036151","count":3},{"id":"GO:0010744","count":3},{"id":"GO:0019370","count":3}]},{"hash":"903758147386872400","title":"Unknown","description":"The terms span diverse processes, including mRNA processing, adipocyte differentiation, cell migration, telomere maintenance, synaptic plasticity, receptor clustering, muscle stretch response, and calcium influx. There is no clear shared function connecting all 10 proteins, so a single concise label cannot be confidently assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0016477","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0060291","count":2}]},{"hash":"477699494653020506","title":"N-terminal and polyamine acetylation","description":"Based on the top GO terms, the cluster centers on acetylation-related processes, including N-terminal acetylation of various peptides (peptidyl-serine/methionine), propionylation, and several polyamine acetylations (spermidine, spermine, putrescine), as well as histone acetylation. Although a few terms (angiogenesis, melatonin biosynthesis, glucosamine metabolism) appear peripheral, the dominant signal is protein and chromatin modification via acetylation, supporting a cohesive acetylation-focused cluster.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006041","count":9},{"id":"GO:0032919","count":9},{"id":"GO:0001525","count":9},{"id":"GO:0017198","count":9},{"id":"GO:0061606","count":9}]},{"hash":"2189284849888581409","title":"Complement Activation and Adhesive Interactions in Development","description":"The top GO terms are clearly dominated by complement activation pathways (classical, alternative, lectin) and membrane attack complex activation, indicating a central theme around the complement system. Additional terms point to cell adhesion (cell-matrix and heterophilic adhesion) and sprouting angiogenesis, suggesting a developmental context where complement activity intersects with endothelial cell migration and adhesion. Some terms like in utero embryonic development and thyroid hormone generation imply broader developmental associations, but the core signal remains complement-mediated immune and adhesive processes in a developmental setting.","confidence":"High","size":10,"edges":35,"triangles":65,"max_degree":9,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006958","count":6},{"id":"GO:0006957","count":5},{"id":"GO:0001970","count":5},{"id":"GO:0034392","count":5},{"id":"GO:0001701","count":5}]},{"hash":"412090642254481283","title":"Neural development and complement activation","description":"The top GO terms mix immune complement activation (classical and alternative pathways and membrane attack complex activation) with developmental processes (in utero embryonic development, pyramidal neuron differentiation, axon guidance, synapse assembly, BMP response, angiogenesis, and cell adhesion). This points to proteins involved in developmental signaling with an immune component, potentially reflecting roles in neural circuit formation where complement-related mechanisms interface with neuronal development. The absence of edges suggests broad functional annotations rather than a tightly defined single pathway, but the combination supports a neural-development\u2013immune signaling theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0001701","count":3},{"id":"GO:0021859","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0071773","count":3}]},{"hash":"56226823459923672","title":"Germline oogenesis and RNA processing","description":"This cluster is dominated by terms linked to female germline development during oogenesis (germarium-derived cyst formation, fusome organization, oocyte karyosome formation) and also includes RNA processing and ribosomal RNA maturation processes (mRNA processing, rRNA maturation and surveillance). The shared theme points to germline development in the ovary with concurrent RNA processing activities essential for oocyte maturation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030727","count":1},{"id":"GO:0030723","count":1},{"id":"GO:1901919","count":1},{"id":"GO:0030846","count":1},{"id":"GO:0006397","count":1}]},{"hash":"366553273157312548","title":"Calcium-Driven Cytoskeleton and Barrier Regulation","description":"The top GO terms point to calcium signaling and cytoskeletal dynamics (cellular response to calcium, microvillus assembly, regulation of cytoskeleton) and barrier function (endothelial intestinal barrier), suggesting these proteins coordinate calcium-dependent cytoskeletal remodeling to maintain epithelial/endothelial barrier integrity.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090557","count":2},{"id":"GO:2000670","count":2},{"id":"GO:0030033","count":2},{"id":"GO:0019933","count":2},{"id":"GO:0071472","count":1}]},{"hash":"1224981634512433462","title":"Cardiopulmonary and neural organogenesis","description":"This cluster centers on developmental processes across heart (atrial/ventricular septum, AV valve), lung development, and neural differentiation (axon guidance, pyramidal neurons), with signals such as receptor clustering and GPCR-type cholinergic signaling, suggesting a coordinated role in organogenesis and cholinergic signaling during development.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060413","count":2},{"id":"GO:0003281","count":2},{"id":"GO:0003181","count":2},{"id":"GO:0030324","count":2},{"id":"GO:0033564","count":2}]},{"hash":"1606350830422867860","title":"Unknown","description":"These proteins show a mix of terms spanning sensory perception of sound and ear-related structures (otolith tethering), cell adhesion/morphogenesis, smooth muscle development, immune cell activation, metabolism, and reproduction. There is no single, cohesive biological process that ties all GO terms together, so a unified functional label cannot be confidently assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0007160","count":2},{"id":"GO:0035889","count":2},{"id":"GO:0048745","count":2},{"id":"GO:0000902","count":2}]},{"hash":"1381540681395139892","title":"Ubiquitin-regulated developmental signaling","description":"These proteins cluster around signaling pathways modulated by ubiquitination, notably K63-linked ubiquitination and autoubiquitination, and the regulation of ERK1/2 cascades. The presence of terms for multicellular development, cell differentiation, and angiogenesis supports a developmental signaling theme, with mechanical stimulus and IGF signaling modulation adding context to tissue remodeling and growth. NOD1/2 signaling terms suggest immune-related signaling connections, but the dominant pattern points to ubiquitin-dependent regulation of developmental signaling and angiogenesis.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0070427","count":2},{"id":"GO:0070534","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0043569","count":2}]},{"hash":"363320427317466952","title":"Unknown","description":"The top GO terms include Notch signaling, multiple amino acid catabolic and metabolic processes, vitamin B12 biosynthesis, fatty acid homeostasis, oxaloacetate metabolism, salicylic acid\u2013mediated defense signaling, and insulin response. These terms are too heterogeneous to reveal a single cohesive function for the cluster, so a precise, representative label cannot be assigned.","confidence":"","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007219","count":6},{"id":"GO:0042853","count":6},{"id":"GO:0097053","count":6},{"id":"GO:0009236","count":4},{"id":"GO:0055089","count":4}]},{"hash":"747937379050558953","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":34,"triangles":71,"max_degree":8,"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:0051384","count":6},{"id":"GO:0034354","count":6}]},{"hash":"187869331551609224","title":"Cell Cycle and Proteostasis","description":"The cluster combines cell cycle-related terms (cell division, mitotic DNA replication checkpoint signaling, centriole elongation) with protein quality control and folding/ERAD pathways (aggresome assembly, ubiquitin-dependent ERAD, chaperone-related refolding, protein homooligomerization), suggesting a coordinated role in progressing division while maintaining proteome integrity, including stress-related responses like heat acclimation.","confidence":"Medium","size":9,"edges":11,"triangles":4,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0072389","count":5},{"id":"GO:0045899","count":5},{"id":"GO:0033314","count":5},{"id":"GO:0030433","count":5}]},{"hash":"729491488333070634","title":"Neural Development and Protein Synthesis","description":"The top GO terms show a clear emphasis on neuronal development (pyramidal neuron development, olfactory bulb mitral cell layer development, tangential migration to the olfactory bulb) alongside protein synthesis (translation, cytoplasmic translation). While metabolic processes appear as well (glycolytic and glucose metabolism), the strongest signal is neural development with active translation in those cells, justifying a combined label that highlights both neuronal formation/migration and the need for protein synthesis. Confidence: Medium","confidence":"","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0021860","count":1},{"id":"GO:0006096","count":1}]},{"hash":"1484712455228063475","title":"Lipid Biosynthesis and Retinoid Metabolism","description":"Most of the top GO terms point to lipid metabolism and biosynthesis, including fatty acid elongation, very long-chain fatty acid biosynthesis, sphingolipid biosynthesis, and glucocorticoid biosynthetic processes, as well as retinol/retinoic acid metabolism and phylloquinone catabolic processes. This suggests a cohesive theme around lipid- and isoprenoid-derived molecule biosynthesis, with some ancillary transcription regulation signals. ","confidence":"High","size":9,"edges":12,"triangles":3,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0030497","count":7},{"id":"GO:0042761","count":7},{"id":"GO:0042376","count":7},{"id":"GO:0002138","count":7}]},{"hash":"1683833968203038894","title":"Lipid biosynthesis and vitamin metabolism","description":"The top GO terms point to lipid-related biosynthesis (fatty acid elongation, very long-chain fatty acids, poly-hydroxybutyrate) and various vitamin/hormone pathways (retinol/retinoic acid, phylloquinone catabolism, glucocorticoid biosynthesis), suggesting a cluster focused on lipid metabolism tied to vitamin and steroid hormone biosynthesis. The transcription regulation term is peripheral but does not contradict this core theme, so the label is a reasonable high-level summary.","confidence":"Medium","size":9,"edges":6,"triangles":1,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0042619","count":5},{"id":"GO:0030497","count":4},{"id":"GO:0042761","count":4},{"id":"GO:0042376","count":4}]},{"hash":"1442041740080102058","title":"Unknown","description":"The top GO terms are diverse and span RNA processing (m7G capping) to stress responses, cytoskeletal dynamics, proteasomal degradation, DNA repair, and development. There is no unifying function that ties all terms together for this cluster, so a single interpretable label cannot be assigned beyond Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":4},{"id":"GO:0071276","count":3},{"id":"GO:0035690","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0006370","count":2}]},{"hash":"496016146528923530","title":"Fatty acid \u03b2-oxidation and energy signaling","description":"This cluster is dominated by lipid catabolism and lipid-derived signaling pathways. The top GO terms center on fatty acid \u03b2-oxidation (acyl-CoA oxidase/dehydrogenase, medium-chain fatty acids) and carnitine metabolism, pointing to fatty acid utilization for energy. Additional terms for prostaglandin and ascaroside biosynthesis/metabolism, plus starvation response and post-embryonic development, suggest a broader theme of energy status informing developmental or signaling processes. Overall, the proteins appear linked to fatty acid breakdown and lipid-based signaling rather than a single, narrow function.","confidence":"High","size":9,"edges":9,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0033540","count":2},{"id":"GO:0033539","count":2},{"id":"GO:0051793","count":2},{"id":"GO:0019254","count":2}]},{"hash":"21194264948737347","title":"Lipid metabolism and immune-vascular signaling","description":"The terms point to lipid-related processes (prostaglandin biosynthesis, triglyceride and cholesterol metabolism) and signals affecting vascular and immune cell behavior (endothelial adhesion, B cell chemotaxis). Vitamin D response and methylation add hormone/epigenetic context, while xenobiotic catabolic terms reflect broader metabolic processing. This combination supports a cohesive theme around lipid signaling influencing vascular and immune functions, with some broad metabolic context.","confidence":"Medium","size":9,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":4},{"id":"GO:0001516","count":4},{"id":"GO:0071603","count":4},{"id":"GO:0035754","count":3},{"id":"GO:0006641","count":3}]},{"hash":"1280924194693135008","title":"DNA transposition and genome integration","description":"The cluster\u2019s top GO terms are dominated by DNA transposition and DNA integration, with supporting cell cycle and chromosome segregation terms, pointing to genome dynamics and mobile-element\u2013related activity. The presence of terms about proviral latency and symbiont entry into host cells further suggests themes of genome integration or incorporation. Overall, the label reflects a focus on transposition/integration processes with links to genome maintenance; some outliers exist but the core theme is clear.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075713","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0042790","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1238440873990173344","title":"Calcium-Dependent Neural Signaling and Astrocyte Activation","description":"The top GO terms are dominated by calcium-related processes: calcium ion transmembrane transport, cellular response to calcium ion, regulation of presynaptic cytosolic calcium concentration, and phosphatidylinositol-mediated signaling, all pointing to calcium-driven signaling pathways. Linked neural terms such as short-term memory and memory, alongside astrocyte activation and calcineurin-NFAT signaling, suggest a module of calcium-regulated neuronal signaling with glial involvement. A single kidney development term appears incidental rather than defining the cluster. Overall, this label captures the primary theme of calcium-dependent neural signaling and astrocyte interactions.","confidence":"High","size":9,"edges":26,"triangles":45,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070588","count":8},{"id":"GO:0071277","count":8},{"id":"GO:0072286","count":8},{"id":"GO:0051533","count":8},{"id":"GO:0007614","count":8}]},{"hash":"1249447244055296269","title":"PNS Neuron Axon Guidance and Synapse Assembly","description":"This cluster is enriched for peripheral nervous system neuron development, axon guidance/axonogenesis, and synapse assembly, with supporting signaling terms (integrin-mediated signaling and PDGF receptor signaling) that relate to neurite outgrowth and connectivity. A few general terms like mRNA export and helicase activity regulation are present but do not overshadow the neural development theme.","confidence":"High","size":9,"edges":15,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":3},{"id":"GO:0051096","count":3},{"id":"GO:0016973","count":3},{"id":"GO:0007229","count":2},{"id":"GO:0010641","count":2}]},{"hash":"1365994973190096833","title":"Meiotic Chromosome Condensation and Synaptonemal Complex","description":"This cluster shows a clear emphasis on meiosis-related chromosome behavior: meiotic chromosome condensation and separation, synaptonemal complex assembly, and regulation of meiotic DNA double-strand breaks, with supporting terms related to meiotic chromatin and cell division. These shared themes point to a cohesive meiotic chromosome organization function.","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":5,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0010032","count":4},{"id":"GO:1903342","count":4},{"id":"GO:0007076","count":4},{"id":"GO:0051307","count":4},{"id":"GO:0043007","count":4}]},{"hash":"129765369328646352","title":"Ubiquitin-dependent quality control and aggresome-autophagy","description":"This cluster centers on protein quality control: deubiquitination, ubiquitin-dependent ERAD, and aggresome assembly, coupled with microtubule-based transport to quality-control sites and regulation of autophagosome maturation. While translation and transcription-related terms appear, the dominant theme links proteostasis, recognizing misfolded proteins via ubiquitin pathways and autophagy-related handling.","confidence":"Medium","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":4},{"id":"GO:0000226","count":4},{"id":"GO:0002223","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0070842","count":3}]},{"hash":"1576047376078451866","title":"Actin Cytoskeleton Assembly and Remodeling","description":"Top terms are dominated by actin-related processes: nucleation (GO:0045010), polymerization (GO:0030041), network formation (GO:0051639), parallel filament bundle assembly (GO:0030046), and dendritic spine morphogenesis (GO:0060997), plus ruffle assembly regulation (GO:1900029). This points to core actin filament organization and remodeling activities. A peripheral term on mitochondrial fission can be compatible with actin dynamics but does not change the main theme. Overall, the cluster reflects actin cytoskeleton assembly and remodeling.","confidence":"High","size":9,"edges":11,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090140","count":4},{"id":"GO:0051639","count":4},{"id":"GO:0045010","count":4},{"id":"GO:0040038","count":3},{"id":"GO:0030041","count":2}]},{"hash":"1995457595665320859","title":"Neuronal endocytosis and synaptic receptor trafficking","description":"The top GO terms are dominated by endocytosis and endosome trafficking, including early endosome to Golgi transport and neurotransmitter receptor transport from endosome to the postsynaptic membrane, along with regulation of synaptic vesicle endocytosis. These point to a cohesive theme of vesicle recycling and receptor trafficking at synapses, with supporting roles from actin/cell polarity and related signaling pathways, justifying a neuron-centric endocytic trafficking label.","confidence":"High","size":9,"edges":14,"triangles":10,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071963","count":9},{"id":"GO:0034498","count":9},{"id":"GO:0006897","count":9},{"id":"GO:0098887","count":9},{"id":"GO:0031532","count":9}]},{"hash":"1137546904375896194","title":"Innate Immunity and Autophagy Regulation","description":"This cluster is driven by innate immune response terms, autophagy, and ubiquitination, suggesting a shared role in immune signaling and intracellular quality control. Additional terms related to vesicle transport, GTPase regulation, and vitamin D response imply coordinated regulation of signaling and trafficking in immune-related contexts, with some involvement in growth and stem cell processes. Overall, it points to a theme of innate immune signaling linked to autophagy and protein turnover rather than a single narrow pathway.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0016567","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0033280","count":4},{"id":"GO:0048490","count":3}]},{"hash":"432936183006682835","title":"RNA Splicing and Processing","description":"Most terms relate to RNA maturation and spliceosome machinery (spliceosomal complex assembly, snRNP assembly, mRNA splicing via spliceosome, tRNA processing, SSU-rRNA maturation) with nuclear import also represented; translation is present but not central. This points to RNA processing/splicing as the cluster's core function.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0051170","count":2},{"id":"GO:0030490","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0070317","count":2}]},{"hash":"1404198971594157342","title":"Glycolysis and Gluconeogenesis Regulation","description":"The top GO terms cluster around carbohydrate metabolism and regulatory steps in energy production, including dephosphorylation, carbohydrate phosphorylation, gluconeogenesis, and fructose 2,6-bisphosphate metabolism, which points to regulation of glycolysis/gluconeogenesis. Some terms extend to cobalt/cobalamin biosynthesis and metal ion response, and a xenobiotic response, suggesting either broader metabolic/metal homeostasis connections or annotation noise. Overall, the cluster is best described as regulation of carbohydrate energy pathways, with moderate confidence due to the presence of outlier terms.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":4,"top_function":"autophagy","top_go_terms":[{"id":"GO:0016311","count":3},{"id":"GO:0009236","count":3},{"id":"GO:0045820","count":3},{"id":"GO:0046835","count":3},{"id":"GO:0006003","count":3}]},{"hash":"1457819568035429142","title":"Mitosis and ubiquitin-mediated proteolysis","description":"The top GO terms are dominated by mitotic cell cycle and cell division, along with APC/C- and SCF-dependent ubiquitin-proteasome\u2013mediated protein catabolic processes, which together indicate a theme of mitotic progression controlled by targeted degradation. Supporting terms like regulation of GTPase activity and protein complex assembly may reflect additional regulation of the mitotic machinery, while brain development and defense responses are less central to the core theme. Overall, the cluster centers on cell-cycle progression coordinated by ubiquitin-mediated proteolysis.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0043547","count":4},{"id":"GO:2001162","count":3},{"id":"GO:0071276","count":3}]},{"hash":"872499150554479626","title":"Ubiquitin-Proteasome, Autophagy, and Immune Regulation","description":"The top GO terms cluster around protein ubiquitination and degradation (polyubiquitination, ERAD), autophagy, and modulation of immune signaling (NF-kB pathways) and chemokine production. Additional terms touch on vesicle transport and cell survival, suggesting a broader role in cellular quality control and stress responses that influence immune function. While some items (synaptic vesicle transport, vitamin D response) are peripheral, the dominant signals point to networks where protein turnover intersects with inflammatory signaling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0000209","count":4},{"id":"GO:0045869","count":4},{"id":"GO:0048490","count":4}]},{"hash":"1540764954975100038","title":"Inflammation-driven endothelial remodeling","description":"This cluster shows strong enrichment for innate and acute inflammatory responses alongside endothelial behaviors (migration, proliferation) and ECM remodeling (collagen organization) and EMT-like processes, suggesting a coordinated program of inflammation-induced vascular remodeling and EndMT. Some developmental terms appear, but the dominant theme is inflammation linked to endothelial and ECM changes.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000483","count":8},{"id":"GO:0021510","count":8},{"id":"GO:0010744","count":7},{"id":"GO:0002438","count":7},{"id":"GO:0030199","count":7}]},{"hash":"2003164117426144272","title":"DNA Replication and Cell Division","description":"Based on the top terms, the cluster centers on DNA replication and cell division, including mitotic DNA replication checkpoint signaling and centriole elongation, pointing to a core link to DNA synthesis and mitosis. The concurrent enrichment for chaperone-assisted refolding, aggresome assembly, and ubiquitin-dependent ERAD suggests supporting proteostasis mechanisms that accompany cell-cycle progression and protein quality control during division. Together, these terms imply a coordinated role in DNA replication/mitosis with protein homeostasis. ","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070389","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0072389","count":4},{"id":"GO:0045899","count":4}]},{"hash":"160164495758930385","title":"Skeletal development and neuromuscular signaling","description":"The cluster is dominated by bone-related processes (bone morphogenesis, bone mineralization) and neural/muscular functions (neuromuscular process controlling posture, synaptic vesicle clustering), suggesting proteins involved in skeletal development and neural\u2013muscular signaling. The presence of endosome-to-plasma membrane transport points to membrane trafficking relevant to both bone cells and neural synapses; immune response terms (interferon response, biotic stimulus) appear as broader background signaling but are not the primary theme. Overall, the strongest cohesive theme is bone formation together with neuromuscular signaling and associated trafficking.","confidence":"Medium","size":9,"edges":11,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060349","count":4},{"id":"GO:0035456","count":4},{"id":"GO:0046597","count":4},{"id":"GO:0044381","count":4},{"id":"GO:0035455","count":4}]},{"hash":"334607448335725310","title":"Embryonic Organogenesis","description":"The terms cluster around development and morphogenesis across multiple tissues (kidney development like metanephric and mesonephric duct, lymph vessel morphogenesis, cartilage condensation) with additional signals related to cell adhesion and immune pathways. This suggests a broad developmental theme rather than a single specific process, so Embryonic Organogenesis captures the shared function succinctly.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060355","count":2},{"id":"GO:0072218","count":2},{"id":"GO:0090238","count":2},{"id":"GO:0038094","count":2},{"id":"GO:0051873","count":2}]},{"hash":"996483298141656492","title":"Cerebellar development and neural signaling","description":"The cluster is dominated by neural development terms, notably Bergmann glial cell differentiation and cerebellar cortex formation, along with regulation of axon regeneration, which collectively point to cerebellar neurodevelopment and neural connectivity. Additional terms span transcription and various signaling pathways (including immune signaling), but the cerebellar development terms provide the strongest cohesive theme. Confidence in this being the core theme is Moderate due to the presence of non-neural terms that temper the signal. ","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0008285","count":7},{"id":"GO:0048679","count":7},{"id":"GO:0050852","count":7},{"id":"GO:0008286","count":7}]},{"hash":"238441039575468869","title":"Immune signaling and tissue remodeling","description":"This cluster centers on cytokine production (TNF and IL-4), integrin signaling, angiogenesis, fibroblast migration, and synapse assembly, pointing to a role in immune signaling and tissue remodeling; potassium transport and apoptosis terms appear as ancillary processes, suggesting a broader cellular signaling context.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006813","count":7},{"id":"GO:0042535","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0010763","count":4}]},{"hash":"900153473123793073","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":33,"triangles":65,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042068","count":9},{"id":"GO:1905490","count":9},{"id":"GO:0043547","count":9},{"id":"GO:0051301","count":9},{"id":"GO:0035330","count":9}]},{"hash":"468487743297499677","title":"Cellular Stress Response and Fate Regulation","description":"The cluster shows enrichment for responses to xenobiotic stimuli, lipopolysaccharide, oxidative stress, and hormonal/metabolic signals (glucocorticoids, glucose), along with cell cycle/division and regulation of macroautophagy and apoptosis execution, plus immune modulation. This pattern suggests a cohesive theme around how cells sense stress and metabolic cues and couple it to autophagy, apoptosis, and cell cycle decisions, including immune-related regulation.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0042542","count":1}]},{"hash":"1415504385056839108","title":"Unknown","description":"There are no GO terms or functional terms provided for this cluster, so there is no clear shared function to name. The network shows connectivity (edges/triangles) but without annotations we cannot infer a specific biological theme; thus the cluster is labeled Unknown. ","confidence":"","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[]},{"hash":"1575992664800098909","title":"Axon Guidance and Neural Crest Migration","description":"The GO terms cluster tightly around neuronal pathfinding and neural crest\u2013derived development, including semaphorin-plexin signaling, branchiomotor and sympathetic neuron guidance, trigeminal nerve organization, ventral trunk neural crest migration, and axonal fasciculation, with ERK/MAPK signaling often linked to guidance responses. This points to a coherent function in axon guidance and neural crest\u2013driven neural development.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000187","count":2},{"id":"GO:0021785","count":2},{"id":"GO:1902287","count":2},{"id":"GO:0097491","count":2},{"id":"GO:0021637","count":2}]},{"hash":"621484996740753456","title":"Neural development and synaptic signaling","description":"This cluster centers on neural development, axonogenesis, and synaptic communication, with GO terms for CNS development, vestibular morphogenesis, axonogenesis, trans-synaptic signaling, and hedgehog/BMP pathway regulation, suggesting roles in neural patterning, axon guidance, and synaptic modulation.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060116","count":6},{"id":"GO:0002175","count":6},{"id":"GO:0030336","count":6},{"id":"GO:0099557","count":6},{"id":"GO:0030513","count":6}]},{"hash":"1576234222618164354","title":"Endosomal trafficking and secretion regulation","description":"This cluster\u2019s top GO terms cluster around vesicle trafficking and secretion, notably endosomal transport (early to late endosome, endosome to lysosome) and regulation of neurotransmitter and insulin secretion, with supporting neural development terms such as dendritic spine maintenance and forebrain development. While a few terms touch on other biology (spermatid development, B cell homeostasis), the dominant signal points to endosomal/secretory pathways, particularly in neural contexts.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:0003382","count":2},{"id":"GO:0045022","count":2},{"id":"GO:0008333","count":2},{"id":"GO:0010796","count":2}]},{"hash":"674984495750484381","title":"Neural development and neuroinflammation","description":"The proteins are enriched for neural-focused terms (forebrain development; neuron and glial apoptotic processes; neurotrophin signaling) and immune/inflammatory signaling (NF-kappaB-related activity, LPS response, TGF-beta response), suggesting a cluster tied to neural development with neuroimmune interactions. Some terms are broader (hormonal response, B cell regulation, platelet formation), but the dominant theme centers on neural development alongside immune signaling.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0034349","count":4},{"id":"GO:0051402","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0032496","count":3}]},{"hash":"1856363494966923974","title":"Mitotic cell cycle proteins","description":"The top GO terms are dominated by cell division (GO:0051301) and mitotic cell cycle (GO:0051291), with a notable signal for protein heterooligomerization, which points to assembly of mitotic protein complexes. Other terms like development, lipid regulation, and immune response are less frequent, suggesting the core function is related to mitosis rather than a single developmental or immune pathway.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0030879","count":2},{"id":"GO:0043525","count":2}]},{"hash":"2096612660884067279","title":"Gametogenesis and gonad development","description":"The top GO terms center on germline formation and gonadal maturation, including spermatogenesis, oogenesis, vitellogenesis, and male gonad development, with supporting regulatory processes such as transcription regulation and nucleus organization. This suggests a cohesive cluster of genes involved in gametogenesis and gonadal development.","confidence":"High","size":9,"edges":27,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":7},{"id":"GO:0090230","count":7},{"id":"GO:0007549","count":7},{"id":"GO:0035023","count":7},{"id":"GO:0007283","count":7}]},{"hash":"22483980771282002","title":"Developmental transcription regulation and chromatin remodeling","description":"The top GO terms point to transcriptional control (DNA-templated transcription and its regulation) and chromatin-related processes (nucleosome positioning/density, histone deacetylation), with developmental contexts across tissues (retina, skeletal muscle, osteoblasts) and neural connectivity (inhibitory synapse assembly). This suggests a coherent theme of gene expression control during development mediated by chromatin dynamics, rather than a single tissue-specific function.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0006351","count":3},{"id":"GO:1904862","count":3},{"id":"GO:0035914","count":2},{"id":"GO:0016584","count":2}]},{"hash":"1334041252149713534","title":"Chromatin Organization and Nucleosome Assembly","description":"This cluster is strongly enriched for terms about heterochromatin organization, nucleosome assembly, histone modifications, and chromatin localization, pointing to a core chromatin/epigenetic regulatory function. The presence of transcription initiation and telomere-related terms further supports a chromatin-centric role.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0070828","count":8},{"id":"GO:0006334","count":8},{"id":"GO:0097298","count":8},{"id":"GO:0016584","count":8},{"id":"GO:0098532","count":8}]},{"hash":"971883949442359480","title":"GPCR-Mediated Signaling","description":"These proteins cluster around GO terms describing GPCR-triggered signaling cascades, including dopamine- and adrenergic-receptor pathways that activate adenylyl cyclase and PLC, as well as downstream GTPase regulation and phototransduction. The mix of cAMP and PLC signaling terms, plus GPCR-associated processes like chemotaxis and heart development, suggests a core role in G-protein coupled receptor signaling networks.","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010513","count":6},{"id":"GO:0043950","count":6},{"id":"GO:0007603","count":6},{"id":"GO:0007191","count":6},{"id":"GO:0043547","count":6}]},{"hash":"1562054078400299768","title":"GABAergic Signaling and Insecticide Response","description":"The GO terms center on neural signaling, especially gamma-aminobutyric acid (GABA) pathways, GABA receptor clustering, and ion transport, which together influence excitatory/inhibitory synaptic activity and behaviors like righting reflex and locomotion. The presence of insecticide-related terms alongside drug response regulation suggests sensitivity linked to GABAergic targets, a common insecticide mechanism, reinforcing a neural-signaling theme for this cluster.","confidence":"High","size":9,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0017085","count":6},{"id":"GO:0007214","count":6},{"id":"GO:0001661","count":6},{"id":"GO:0060079","count":6},{"id":"GO:0007626","count":5}]},{"hash":"697034043459466636","title":"Cell growth and signaling regulation","description":"The Top Terms show regulation and signaling across contexts, including apoptosis, immune cytokine production, inhibition and activation of growth, and various signaling pathways (trans-synaptic, Wnt, PDGF), along with metabolic and developmental processes such as glucose response, cholesterol biosynthesis, and chondrocyte growth. This variety centers on how cells control growth, survival, and communication, rather than a single pathway, making \"Cell growth and signaling regulation\" a concise, representative label.","confidence":"Medium","size":9,"edges":12,"triangles":7,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097194","count":9},{"id":"GO:0032633","count":9},{"id":"GO:0008285","count":9},{"id":"GO:0099557","count":9},{"id":"GO:0071333","count":9}]},{"hash":"1366767757615711670","title":"Innate immune NF-kappaB\u2013mediated inflammation","description":"The cluster is enriched for innate immune response, inflammatory response, and NF-kappaB signaling terms (including positive regulation of canonical NF-kappaB signaling and NF-kappaB transcription factor activity), along with TNF-mediated signaling. This points to proteins participating in innate immune sensing and inflammatory signaling via NF-kappaB pathways, with some incidental mentions of ubiquitination and nuclear transport that may relate indirectly. Overall, the dominant theme is immune signaling and inflammation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0051092","count":2}]},{"hash":"1302675368780164546","title":"Developmental growth and cytoskeletal remodeling","description":"Most terms point to developmental processes (brain development, multicellular organism development, skin development) and to cytoskeletal/cell-movement dynamics (mitotic cell cycle, actin filament depolymerization, negative regulation of epithelial cell migration) with protein turnover (SCF-dependent ubiquitin\u2013proteasomal degradation) supporting growth and tissue remodeling. An outlier term (menaquinone biosynthetic process) may reflect annotation noise or a non-eukaryotic source, but the dominant signal is development and cytoskeletal remodeling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0036265","count":2}]},{"hash":"2013662283331455285","title":"Protein synthesis, modification, and turnover","description":"The cluster\u2019s top terms cluster around making and managing proteins: translation (protein synthesis) and several post-translational modification and quality-control processes (ubiquitination, sumoylation, autoubiquitination, ERAD, and aggresome assembly). This points to a core theme of protein fate and regulation, with additional, broader signaling/developmental associations (TNF signaling, platelet activation, B cell homeostasis, blastocyst formation) that may reflect ancillary roles. Overall, the dominant theme is protein production, modification, and turnover with related signaling interplay.","confidence":"Medium","size":9,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0016925","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0051865","count":2}]},{"hash":"246305410432076824","title":"GPCR Signaling and Autonomic Physiology","description":"The top GO terms cluster around GPCR-driven signaling that modulates physiological processes: activation/inhibition of adenylate cyclase, adrenergic signaling, blood pressure regulation, dopaminergic transmission, and related neuroendocrine functions. While an electron transport chain term appears, the dominant theme is receptor-mediated signaling affecting nervous system and cardiovascular physiology, with additional immune and digestive associations. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":8},{"id":"GO:0007190","count":8},{"id":"GO:0045777","count":8},{"id":"GO:0010579","count":8},{"id":"GO:0010818","count":7}]},{"hash":"2135640758037403881","title":"Regulators of signaling and transcription","description":"The cluster\u2019s top GO terms point to broad regulatory roles, including modulation of signaling processes (positive regulation of GTPase activity; negative regulation of endocytosis; regulation of filopodium assembly) and gene expression (DNA-templated transcription; DNA integration; activation of protein kinase activity). A mix of neuronal differentiation and immune regulation terms also suggests diverse regulatory functions rather than a single cohesive pathway, supporting a label for general regulatory proteins involved in signaling and transcription.","confidence":"Low","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045953","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0015074","count":1},{"id":"GO:0032147","count":1},{"id":"GO:1902064","count":1}]},{"hash":"1660857285047168641","title":"Copper transporters and cisplatin response","description":"The top GO terms cluster around copper handling: regulation and import of copper ions, and intracellular copper homeostasis, with an additional link to xenobiotic/cisplatin response. This suggests a group of proteins involved in copper transport and related drug response, despite a few unrelated terms that may reflect annotation noise. Overall, copper transport/homeostasis and cisplatin-associated response best explain the shared functions.","confidence":"Medium","size":9,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902311","count":1},{"id":"GO:0006878","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0015680","count":1},{"id":"GO:0072719","count":1}]},{"hash":"139772600024350793","title":"Unknown","description":"The GO terms cover a broad mix of processes (protein turnover, immune signaling, circadian regulation, development in multiple tissues, synaptic function, and even a plant-specific process), and there is no single coherent function tying these proteins together. The zero edges further suggest a lack of direct functional linkage in this cluster. Therefore, Unknown with None.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0050853","count":5},{"id":"GO:0042752","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0035914","count":4}]},{"hash":"1409205579505917433","title":"Nuclear RNA processing and export","description":"The cluster shows GO terms tied to RNA metabolism and nuclear trafficking\u2014mRNA export, splicing, and ribosomal subunit export\u2014along with links to transcription regulation and centromere-associated chromatin assembly, suggesting a coordinated nuclear RNA processing/gene expression role during the cell cycle. Some terms appear less related (chemotropism, viral transport) and may be annotation noise.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0061641","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0000056","count":2}]},{"hash":"721154254006166069","title":"Unknown","description":"The top GO terms are highly diverse, spanning innate immune response, photosynthesis, plant hormone signaling, development, post-translational modification, metabolism, and drug response, with no shared process linking them and no edges among proteins. This indicates there isn\u2019t a single coherent functional theme for the cluster, so a specific label cannot be assigned beyond Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0051301","count":5},{"id":"GO:2000531","count":5},{"id":"GO:0009736","count":5},{"id":"GO:0046661","count":5}]},{"hash":"654242532328999262","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006370","count":2},{"id":"GO:0097309","count":2},{"id":"GO:0000453","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0039694","count":1}]},{"hash":"689082685110792399","title":"Telomere Maintenance and Capping Regulation","description":"Most top GO terms describe telomere biology\u2014negative/positive regulation of telomere maintenance via lengthening, localization to chromosome telomeric region, telomere capping, and telomere-related chromatid cohesion. A few terms touch neuronal signaling and neurotransmitter secretion, but these are less represented. Given the strong telomere-associated terms, the cluster seems to group proteins involved in telomere maintenance and protection.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:1904357","count":2},{"id":"GO:0070198","count":2},{"id":"GO:0070213","count":2},{"id":"GO:0006915","count":2}]},{"hash":"25531301135665137","title":"RNA Pol II Transcription Regulation and Chromatin Localization","description":"These proteins predominantly associate with transcription regulation by RNA polymerase II and chromatin-related processes. The top GO terms emphasize negative regulation of transcription by RNA Pol II, regulation of transcription preinitiation complex assembly, and establishment/localization of factors to chromatin, suggesting a chromatin-associated transcription control module. A couple of terms hint at broader processes (photomorphogenesis regulation, cellular respiration), but the strongest signal is transcriptional control linked to chromatin.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0071169","count":2},{"id":"GO:0042766","count":2},{"id":"GO:1900446","count":2},{"id":"GO:2000306","count":2}]},{"hash":"2182902627005749905","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster is dominated by ubiquitin-mediated protein catabolic processes, including SCF-proteasome pathways, ERAD, and autoubiquitination, pointing to a core function in tagging and degrading proteins. Associated terms also touch signaling regulation (JNK, NF-kappaB) and other ubiquitin-influenced processes like histone turnover and V(D)J recombination, reinforcing the theme of ubiquitin-proteasome system activity.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0031146","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0046328","count":5}]},{"hash":"260554046096575477","title":"Neural vision and dopaminergic signaling","description":"The cluster is dominated by GO terms for visual perception (GO:0007601), regulation of opsin-mediated signaling (GO:0022400), and dopaminergic synaptic transmission (GO:0001963), with supporting signals for sensory perception of pain and cocaine-related behavioral responses. This points to a cohesive theme of neural signaling with emphasis on vision and dopaminergic pathways, with some peripheral sensory processes. ","confidence":"Medium","size":9,"edges":16,"triangles":8,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0001963","count":5}]},{"hash":"1275916493252966257","title":"Insect development and circadian neural regulation","description":"This cluster combines developmental signaling terms (notochord formation; negative regulation of BMP signaling) with insect-specific processes (regulation of tracheal tube diameter; chitin-based embryonic cuticle biosynthesis) and neural/sleep-related functions (regulation of circadian sleep/wake cycle; sleep; cholinergic synaptic transmission; voltage-gated potassium channel activity). The mix points to proteins involved in developmental signaling pathways as well as neural regulation in insects, particularly in circadian and sleep contexts, suggesting a coherent theme around insect development and neural control. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014028","count":2},{"id":"GO:0030514","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0035158","count":1},{"id":"GO:0008362","count":1}]},{"hash":"959421456857905573","title":"Global Growth and Signaling Regulation","description":"The proteins here touch on a broad set of regulatory processes, spanning proliferation control, signaling pathways (Wnt, insulin, T cell receptor), apoptosis, differentiation, and even cell cycle-related events like DNA replication and kinetochore localization. Rather than a single specific pathway, the cluster seems tied to overarching regulation of cellular behavior across contexts, justifying a high-level label that captures its multi-pathway regulatory nature.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0008285","count":5},{"id":"GO:0090090","count":4},{"id":"GO:0048679","count":4},{"id":"GO:0034501","count":4},{"id":"GO:0050852","count":4}]},{"hash":"942480049464897632","title":"Cardiac and skeletal muscle contraction and sarcomere organization","description":"The top GO terms emphasize muscle contraction in cardiac tissue (ventricular cardiac muscle tissue morphogenesis, cardiac muscle contraction) and skeletal muscle mechanisms (slow-twitch contraction, sarcomere organization, muscle filament sliding), with related regulation of filament sliding and ATP-dependent activity. This points to a cluster of proteins involved in muscle contraction and sarcomere structure across cardiac and skeletal muscle, justifying a combined label.","confidence":"High","size":9,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0014883","count":6},{"id":"GO:0032972","count":6},{"id":"GO:0055010","count":6},{"id":"GO:0060048","count":6},{"id":"GO:0045214","count":5}]},{"hash":"1952832704590096436","title":"Neurobehavioral signaling and maternal behavior","description":"This cluster\u2019s top GO terms cluster around maternal behavior, maternal aggression, drinking behavior, and regulation of receptivity, with supporting neural signaling terms such as glutamate secretion and phosphorylation. Together they suggest a theme of neural circuits governing social/parental behaviors, rather than a single specific biochemical pathway. There is a stray osmoregulatory term, but it does not dominate the set. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032849","count":1},{"id":"GO:0033138","count":1},{"id":"GO:0090201","count":1},{"id":"GO:0030819","count":1},{"id":"GO:0002125","count":1}]},{"hash":"2188237495196654096","title":"CNS Neurotransmission and Drug-Response Signaling","description":"The cluster centers on central nervous system signaling, with strong representation of dopaminergic synaptic transmission, visual perception/learning, and behavioral responses to cocaine and morphine, along with ERK pathway regulation and brain-specific signaling. These together suggest a coherent theme of neural signal transduction and pharmacologic responsiveness, including addiction-related contexts, despite a few broader neuromodulatory terms. ","confidence":"High","size":9,"edges":12,"triangles":6,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001963","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0008542","count":6},{"id":"GO:0048148","count":6},{"id":"GO:0071380","count":6}]},{"hash":"645231567018964006","title":"Peripheral neuron development and Schwann cell dynamics","description":"Based on GO terms focusing on somatic motor neuron differentiation, neurofilament cytoskeleton organization, and Schwann cell proliferation/migration in axon regeneration, the cluster appears to reflect peripheral nervous system development and myelination processes, with supportive neuronal functions like glutamate reuptake. While a few terms are unrelated, the dominant theme ties to neuron\u2013glia (Schwann cell) interactions in the PNS.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002238","count":1},{"id":"GO:0032964","count":1},{"id":"GO:0044257","count":1},{"id":"GO:0060052","count":1},{"id":"GO:1905045","count":1}]},{"hash":"498118855437084707","title":"Unknown","description":"The top terms span plant-specific processes (photosynthesis, cytokinin signaling) and animal processes (response to morphine, male sex differentiation) plus broad metabolic and protein modification functions (pyruvate biosynthesis, gluconeogenesis, ubiquitination, prolyl isomerization). There is no single cohesive function or pathway tying these GO terms together, suggesting either annotation noise or a highly diverse protein set; thus a specific, confident label cannot be assigned.","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043278","count":3},{"id":"GO:0042866","count":2},{"id":"GO:0019700","count":2},{"id":"GO:2000531","count":2},{"id":"GO:0009736","count":2}]},{"hash":"1739982608099668290","title":"RNA Modification and Ribosome Biogenesis","description":"The cluster centers on RNA processing and ribosome assembly, with multiple terms for tRNA wobble modification, rRNA methylation, and export of the small ribosomal subunit, suggesting a coherent theme around RNA modification and ribosome biogenesis, despite some noisy outliers like nodulation and cobalamin biosynthesis.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0043985","count":3},{"id":"GO:0009236","count":3},{"id":"GO:0002098","count":3},{"id":"GO:0016049","count":3}]},{"hash":"795829806326305062","title":"Skeletal and neural development signaling","description":"This cluster is dominated by GO terms tied to development of the skeletal system (cartilage condensation, skeletal system development) and neural tissues (hippocampus development, trans-synaptic signaling). The VEGF receptor signaling term suggests angiogenic processes linked to tissue development, while apoptosis, proliferation regulation, and metabolic terms (glucose response, cholesterol biosynthesis) reflect broader cellular remodeling during development. Taken together, the proteins likely participate in developmental signaling coordinating skeletal and neural tissue formation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001502","count":4},{"id":"GO:0021766","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0048010","count":4},{"id":"GO:0097194","count":3}]},{"hash":"2122488845408691695","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0000447","count":3},{"id":"GO:0060733","count":3},{"id":"GO:0035264","count":3}]},{"hash":"1284542340501539796","title":"Peptide hormone and neuropeptide processing","description":"The top GO terms point to proteolytic processing and maturation of peptide hormones and neuropeptides, including insulin processing, enkephalin processing, and peptide pheromone maturation, with auxiliary signals like nerve growth factor production. A few terms relate to LDL receptor trafficking, but the dominant theme is peptide maturation and processing. ","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1905596","count":3},{"id":"GO:0032805","count":3},{"id":"GO:0007354","count":3},{"id":"GO:0032802","count":3},{"id":"GO:1905598","count":3}]},{"hash":"1135675524357459328","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":1},{"id":"GO:0009561","count":1},{"id":"GO:0000472","count":1},{"id":"GO:0000480","count":1},{"id":"GO:0000447","count":1}]},{"hash":"2036310322220889822","title":"Proteoglycan Biosynthesis and Tissue Development","description":"The top terms cluster around keratan sulfate proteoglycan biosynthesis and proteoglycan metabolism, with related roles in extracellular matrix remodeling, angiogenesis, and epithelial proliferation during wound healing and organ development; while other terms touch neural or reproductive development, the proteoglycan/ECM and tissue-development themes are the strongest link.","confidence":"Medium","size":9,"edges":11,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":6},{"id":"GO:0008542","count":3},{"id":"GO:0018146","count":3},{"id":"GO:0060055","count":3},{"id":"GO:0060058","count":3}]},{"hash":"621541820807317368","title":"MAPK and Cytokine Signaling","description":"Based on the GO terms, this cluster centers on signaling networks, especially MAPK cascades (ERK1/2 and JNK) and cytokine-related processes (IL-4 production, dendritic cell cytokines), with ties to PDGF signaling and developmental contexts (retina vasculature, chondrocyte growth). The common thread is intracellular signal transduction and regulation of immune and developmental pathways, though the terms span multiple tissues, so the name emphasizes signaling and cytokine regulation rather than a single tissue-specific function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0032633","count":5},{"id":"GO:0008285","count":5},{"id":"GO:0099557","count":5},{"id":"GO:0003430","count":5}]},{"hash":"2258109712373056270","title":"DNA recombination and cell cycle regulation","description":"This cluster is driven by GO terms for DNA recombination and DNA integration, with additional signals for cell cycle progression (G1/S transition) and redox balance, suggesting a theme around DNA metabolism linked to cell-cycle control. Some terms are obsolete, but the core enrichment points to DNA processing and mitotic regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0015074","count":2},{"id":"GO:0071375","count":2},{"id":"GO:1900087","count":2},{"id":"GO:0045454","count":2}]},{"hash":"817294946230702753","title":"Sterol and lipid biosynthesis","description":"The terms point to lipid and sterol metabolism across multiple pathways (fatty acid biosynthesis, ergosterol and cholesterol via lathosterol, ether lipids, and sterol oxidation), with some tissue-specific contexts (sebaceous gland, myelin). This cohesively indicates a cluster focused on lipid/sterol biosynthesis.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035754","count":1},{"id":"GO:0001949","count":1},{"id":"GO:0006633","count":1},{"id":"GO:0006696","count":1},{"id":"GO:0080065","count":1}]},{"hash":"148445881123392992","title":"Glucose- and solute-transport under osmotic stress","description":"The top GO terms cluster around membrane transport of various solutes (glucose, phosphate, urate, organic cations/anions, xenobiotics) and an osmotic/stress response, indicating a cohesive set of transport proteins involved in nutrient uptake and osmotic adaptation, with glucose starvation as a related context.","confidence":"High","size":9,"edges":10,"triangles":2,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":8},{"id":"GO:0044381","count":8},{"id":"GO:0070715","count":8},{"id":"GO:0006817","count":8},{"id":"GO:0052106","count":8}]},{"hash":"372489550294841137","title":"Drosophila wing imaginal disc and muscle development","description":"The cluster\u2019s GO terms cluster around wing imaginal disc development and related tissues (wing haltere, dorsal/ventral patterning, proximal/distal patterning, wing size regulation) as well as somatic and skeletal muscle development and muscle attachment. This points to a coherent developmental program governing wing and muscle formation in Drosophila, with some peripheral terms like eye morphogenesis included due to shared developmental pathways.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007525","count":1},{"id":"GO:0007519","count":1},{"id":"GO:0007482","count":1},{"id":"GO:0007451","count":1},{"id":"GO:0048190","count":1}]},{"hash":"135003359477352141","title":"Ciliary Hedgehog signaling in neural development","description":"The terms cluster around cilium-related processes (cilium assembly, ciliary transition zone localization) and the Smoothened Hedgehog pathway, together with neural development events (neural tube formation, telencephalon development, dorsal/ventral patterning). This suggests proteins function in cilia-mediated Hedgehog signaling guiding CNS development.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904491","count":1},{"id":"GO:0007224","count":1},{"id":"GO:0021956","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0008589","count":1}]},{"hash":"1589816803555850875","title":"Cell Cycle and Gametogenesis","description":"This cluster's terms cluster around core cell-division processes (mitotic spindle assembly, homologous recombination repair) and germline development (male gonad development, fertilization). Additional terms touch on protein turnover, RNA processing, and signaling, but the strongest signals point to cell-cycle regulation and reproductive development, justifying a label focused on these themes.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0001845","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0030042","count":2},{"id":"GO:0031146","count":2}]},{"hash":"1852016841032952065","title":"BMP-driven kidney development and angiogenesis","description":"The terms co-occur around metanephric kidney development (including distal convoluted tubule and related nephron segments), multicellular organism development, and BMP signaling, with additional emphasis on regulation of angiogenesis and lymphangiogenesis as well as cell-matrix adhesion. This points to a nephrogenesis program that also modulates vascular growth.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0072233","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0045880","count":5},{"id":"GO:0016525","count":5},{"id":"GO:0072221","count":5}]},{"hash":"1114712428983176261","title":"Memory-Linked Synaptic Signaling","description":"The top GO terms center on neuronal signaling and memory\u2014short-term and long-term memory, response to amphetamine, calcium ion transport, and excitatory postsynaptic potential\u2014indicating a function in synaptic activity and memory formation. A few outlier terms (peptidoglycan and other developmental terms) may reflect annotation noise or broad GO mappings, but the dominant theme is neuronal communication underlying memory. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007614","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0007616","count":2},{"id":"GO:0006816","count":2},{"id":"GO:0060079","count":2}]},{"hash":"167590786043513214","title":"Oxidative stress and metabolism","description":"The top GO terms point to oxidative stress-related responses (cellular response to hydrogen peroxide) and a suite of metabolic processes (prostaglandin biosynthesis, pyruvate and amino acid biosynthesis, nitrogen utilization, and cyanide metabolism), with one term tied to cell division. This suggests a cluster centered on metabolic activity with an oxidative stress dimension, though some terms are obsolete, which lowers precision. ","confidence":"Medium","size":8,"edges":13,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0001516","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006808","count":2}]},{"hash":"1583383241043451395","title":"Cross-tissue differentiation signaling","description":"The proteins show enrichment in GO terms related to differentiation across multiple tissues (brown fat, keratinocytes, skeletal system) and associated growth/signaling pathways (PDGF receptor signaling, PI3K/AKT). Although some terms (pain perception, muramyl dipeptide response) are less directly tied, the dominant theme is regulatory signals guiding differentiation across diverse tissues, justifying a cross-tissue differentiation signaling label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010641","count":7},{"id":"GO:0043065","count":7},{"id":"GO:0051965","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0051897","count":7}]},{"hash":"1102820016451766085","title":"Calcium Transport and Membrane Ion Homeostasis","description":"The cluster is dominated by GO terms tied to ion transport across membranes, especially calcium ion transmembrane transport, ER calcium concentration regulation, proton transport, and cadmium transport. This points to proteins involved in calcium handling and general membrane transport, with some muscle-related terms (e.g., regulation of cardiac muscle hypertrophy and fast/slow fiber transitions) suggesting Ca2+-dependent signaling in muscle contexts. A few terms appear ancillary (translation, stilbene catabolism), but the core signal centers on calcium and membrane ion flux.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":2},{"id":"GO:0014883","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0046272","count":1}]},{"hash":"2282088323374276110","title":"Unknown","description":"The top terms span diverse processes from mitochondrial translation and ER organization to various stress and developmental responses (antibiotic, glucocorticoid, lipopolysaccharide, heart development) and unrelated catabolic/metabolic terms, suggesting no coherent single function linking these proteins. ","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0032543","count":2},{"id":"GO:0009062","count":2},{"id":"GO:0070681","count":2},{"id":"GO:0019876","count":2}]},{"hash":"2172476236605498052","title":"Symbiont-host Interaction","description":"Most represented GO terms point to interactions with a host and potential modulation of host processes by a symbiont (GO:0044121, GO:0052040). Additional terms indicate bacterial metabolism and protein modification (ectoine biosynthesis, glucosamine metabolism, various acetylation/propionylation steps) that are common in microbial genomes and may support symbiotic lifestyle. The cluster thus seems best described as involving host interaction, with supporting metabolic-context terms.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019491","count":3},{"id":"GO:0006348","count":3},{"id":"GO:0030649","count":2},{"id":"GO:0006041","count":2},{"id":"GO:0052040","count":2}]},{"hash":"1797444102403935636","title":"Prostaglandin biosynthesis and inflammatory signaling","description":"These proteins are strongly linked to prostaglandin synthesis and the cyclooxygenase pathway, with concurrent signals of inflammatory responses (lipopolysaccharide response) and tissue remodeling (lung/epithelial differentiation and organ regeneration). A few terms appear less directly related (e.g., auxin/nitrogen-related), which may reflect annotation noise, but the core theme centers on prostaglandin signaling and associated inflammatory and regenerative processes.","confidence":"Medium","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":7},{"id":"GO:0006808","count":4},{"id":"GO:0009734","count":4},{"id":"GO:0031100","count":4},{"id":"GO:2000469","count":4}]},{"hash":"259115779140746158","title":"Monoamine neurotransmitter regulation and chemical stress response","description":"The cluster shows clear links to monoamine neurotransmitters, with terms like dopamine catabolic process and positive regulation of dopamine metabolism, and negative regulation of serotonin secretion. It also includes responses to xenobiotic stimuli, ethanol, lipopolysaccharide, and metal ions, suggesting a broader theme of neurotransmitter regulation under chemical/immune stress. This combination supports a cohesive label focused on dopamine/serotonin regulation alongside chemical stress responses.","confidence":"Medium","size":8,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046653","count":5},{"id":"GO:0010269","count":5},{"id":"GO:0042493","count":4},{"id":"GO:0014063","count":4},{"id":"GO:0032496","count":4}]},{"hash":"1008410920891885643","title":"Amino acid metabolism and biosynthesis","description":"Dominant GO terms focus on amino acid synthesis and catabolism (leucine, valine, isoleucine, including D- forms) and related amino acid metabolism pathways, with a few outliers (hormone level regulation, triglyceride metabolism). This makes amino acid metabolism the best unifying theme for the cluster.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900087","count":2},{"id":"GO:0010817","count":1},{"id":"GO:0006550","count":1},{"id":"GO:0019478","count":1},{"id":"GO:0046437","count":1}]},{"hash":"1504268131977591865","title":"Methylation-Driven RNA and Ribosome Modification","description":"The cluster is enriched for multiple methylation-related GO terms (peptidyl-serine dimethylation and trimethylation, peptidyl-lysine monomethylation, and histone H4 methylation), plus tRNA wobble uridine modification and ribosomal small subunit export. This suggests a coherent theme around methyltransferases and RNA-modifying enzymes involved in RNA processing and ribosome biogenesis, with some ancillary biosynthetic terms that may reflect related enzyme activities.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":3},{"id":"GO:0035572","count":2},{"id":"GO:0043985","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0018026","count":2}]},{"hash":"1650364621781275795","title":"Steroid, retinoid, and fatty acid metabolism","description":"Top terms emphasize metabolic processes tied to steroid hormone biosynthesis, retinoid metabolism, and fatty acid pathways, suggesting a cluster of proteins involved in lipid-derived metabolism and vitamin A derivative production.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0061370","count":5},{"id":"GO:0008209","count":5},{"id":"GO:0042572","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0042619","count":4}]},{"hash":"841885318412297730","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0048025","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000185","count":2},{"id":"GO:0001682","count":2}]},{"hash":"106964803582108854","title":"Translation and Translational Regulation","description":"Most terms cluster around core translation processes: translation in general, initiation, termination, elongation, and even selenocysteine incorporation, with several entries signaling positive regulation of cytoplasmic translation. This indicates the proteins likely function together in ribosome-associated translation and its regulation, despite a couple of ancillary terms (mRNA decay, antibiotic response) that may reflect broader post-transcriptional control contexts.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0014009","count":2},{"id":"GO:0006413","count":2},{"id":"GO:0001514","count":2},{"id":"GO:0006415","count":2}]},{"hash":"666084626338039482","title":"Cell signaling and cytoskeleton regulation","description":"The top GO terms point to modulation of signaling pathways (negative regulation of VEGF signaling; dephosphorylation) alongside processes tied to endocytosis and actin cortex assembly, suggesting a shared theme of how cells regulate signaling and reorganize their cytoskeleton. Some terms relate to development or fungal processes, which may reflect broader roles of these proteins in trafficking and cytoskeletal dynamics across contexts. Overall, a signaling-and-cytoskeleton regulation theme fits best.","confidence":"Medium","size":8,"edges":13,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030948","count":3},{"id":"GO:0035970","count":3},{"id":"GO:0000173","count":3},{"id":"GO:0030100","count":2},{"id":"GO:0030476","count":2}]},{"hash":"349741159707451631","title":"Actin dynamics and membrane trafficking","description":"The top GO terms converge on actin cytoskeleton regulation (actin filament severing, cell migration, dorsal closure), vesicle trafficking and Golgi organization (vesicle docking, asymmetric Golgi ribbon, raft distribution), and related development processes (cardiac muscle development, glomerular filtration). This suggests a cluster driven by cytoskeleton remodeling linked to membrane trafficking and cell movement.","confidence":"Medium","size":8,"edges":11,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000132","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0044855","count":2},{"id":"GO:0006904","count":2},{"id":"GO:0038089","count":2}]},{"hash":"1272741093963738209","title":"Axon Guidance and Neuronal Migration","description":"The cluster is dominated by multiple axon guidance terms across different neuron types (commissural, retinal ganglion, branchiomotor), plus related regulation of axon extension and associated migration processes, suggesting a cohesive theme of neural pathfinding and development. A few terms touch broader aspects like environmental enrichment and otic placode development, but the core signal remains axon guidance during neuronal development.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071679","count":3},{"id":"GO:0002042","count":3},{"id":"GO:0031290","count":3},{"id":"GO:1905040","count":2},{"id":"GO:0090648","count":2}]},{"hash":"1210758500441235762","title":"Integrin signaling and ECM remodeling","description":"The top GO terms point to integrin-mediated signaling and extracellular matrix interactions (collagen, hyaluronan metabolism, metallopeptidases) driving cell migration and tissue remodeling, with additional signals related to synapse assembly/maintenance and dendrite growth, suggesting adhesion-dependent development and morphogenesis.","confidence":"High","size":8,"edges":8,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":4},{"id":"GO:0042535","count":3},{"id":"GO:0018996","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0010763","count":3}]},{"hash":"2033703692900721470","title":"Neural development and epithelial junction regulation","description":"The top GO terms center on neural development (neural tube closure, forebrain development) and epithelial organization (tight junction assembly), with broader multicellular development and membrane targeting. This points to a developmental program focusing on neural/epithelial tissue formation, making the label representative of the cluster\u2019s function. Some stress-related terms (ER stress, cadmium response) may reflect cellular responses during development but do not override the core theme.","confidence":"High","size":8,"edges":11,"triangles":6,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000810","count":5},{"id":"GO:0007118","count":5},{"id":"GO:0090314","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0001501","count":5}]},{"hash":"1558702738236744757","title":"ECM-Integrin Signaling in Mammary Morphogenesis","description":"This cluster centers on integrin-mediated and extracellular matrix signaling, with links to mammary gland duct morphogenesis and hormonal modulation (estradiol) and ERK cascade regulation, suggesting coordinated ECM\u2013receptor signaling during mammary tissue remodeling. Some terms are less directly connected (e.g., fungal-origin response), but the dominant theme is ECM-integrin signaling and developmental morphogenesis.","confidence":"Medium","size":8,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032355","count":3},{"id":"GO:0007229","count":2},{"id":"GO:0071404","count":2},{"id":"GO:0035426","count":2},{"id":"GO:0002092","count":2}]},{"hash":"1857453190952658622","title":"ECM and Cell Adhesion Signaling","description":"The top GO terms cluster around extracellular matrix interactions and cell adhesion\u2014hyaluronan metabolism, integrin signaling, and calcium-independent cell-matrix adhesion\u2014further supported by cartilage morphogenesis and matrix-related processes; together they suggest a functional theme of ECM remodeling and cell\u2013matrix communication rather than a single enzymatic or immune pathway.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006956","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0006929","count":3},{"id":"GO:0007229","count":3}]},{"hash":"1487521011237362582","title":"Innate Immune Response and Endocytosis","description":"The most represented terms are innate immune response and positive regulation of cytokine production in inflammatory response, along with receptor-mediated endocytosis and signaling pathways like integrin-mediated signaling. This suggests a core function in immune signaling and endocytic uptake. Some developmental terms (hippocampus development, cartilage morphogenesis, stamen formation) may reflect multi-functionality or annotation noise, but the predominant pattern points to innate immunity-related roles.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:1900017","count":2},{"id":"GO:0006898","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0006929","count":1}]},{"hash":"1927544429770799873","title":"Ephrin Signaling and Neuronal Morphogenesis","description":"The proteins cluster around ephrin receptor signaling, ERK/JNK MAPK cascades, and processes like axon extension and dendrite morphogenesis, plus focal adhesion regulation. This suggests ephrin-mediated signaling programs that drive neuronal growth and structural remodeling.","confidence":"High","size":8,"edges":7,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":5},{"id":"GO:0046330","count":5},{"id":"GO:0048013","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0051893","count":5}]},{"hash":"1045393833770292841","title":"Developmental EMT and Morphogenesis Signaling","description":"The terms cluster around signaling pathways that drive development and tissue shaping, notably EMT in cardiac development, face morphogenesis, and Wnt/ERK signaling. Cytoskeletal remodeling and exocytosis regulation further support dynamic cell movement during morphogenesis, suggesting involvement in signaling-driven developmental processes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034394","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0038031","count":2},{"id":"GO:0051496","count":2},{"id":"GO:0060317","count":2}]},{"hash":"292366381528713006","title":"Epithelial Differentiation and Growth Signaling","description":"These terms predominantly point to epithelial differentiation (keratinocyte and lung epithelium) and growth signaling networks (Hippo, receptor guanylyl cyclase signaling, and GTPase regulation), with ancillary processes like cytokinesis and transcription regulation that commonly accompany differentiation programs.","confidence":"Medium","size":8,"edges":9,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032465","count":3},{"id":"GO:0030512","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0030216","count":3},{"id":"GO:0060487","count":3}]},{"hash":"1476706273255524709","title":"Coagulation and Inflammation","description":"Despite 8 proteins and no edges, the top GO terms cluster around vascular coagulation, fibrinolysis, leukocyte migration, and tissue remodeling\u2014key components of inflammation and wound healing. Notable terms include positive regulation of blood coagulation, positive regulation of fibrinolysis, leukocyte migration in inflammatory response, and tissue remodeling, suggesting a functional theme of coagulation-linked immune remodeling. Some terms (exocrine pancreas development, cellular response to glucose stimulus) seem incidental to this cluster, so the label emphasizes the dominant coagulation/inflammation signal.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014909","count":1},{"id":"GO:1903238","count":1},{"id":"GO:0035264","count":1},{"id":"GO:0048771","count":1},{"id":"GO:0070684","count":1}]},{"hash":"950029076171553771","title":"T cell signaling and lymphatic-vascular regulation","description":"This cluster is dominated by GO terms related to T cell biology\u2014T cell homeostasis, T cell receptor signaling, and NFAT/calcineurin signaling\u2014suggesting a core function in T cell activation. Additional terms point to vascular/lymphatic context (negative regulation of vascular permeability, lymphangiogenesis), implying interplay between T cell signaling and lymphatic/vascular regulation. The xenobiotic response term appears but is secondary. Overall, the label captures the central theme: T cell signaling with lymphatic-vascular involvement.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0043029","count":3},{"id":"GO:0050852","count":2},{"id":"GO:0043116","count":2},{"id":"GO:0001946","count":2}]},{"hash":"1647115464018399572","title":"Unknown","description":"The top terms are diverse: glial and neuron apoptotic processes, lens fiber cell differentiation, taste perception, transcription, hypoxia response, autophosphorylation regulation, xenobiotic response, and behavior. The mix spans neural, sensory, ocular development, stress responses, and basic transcription, with no single dominant function linking all proteins. Because there is no coherent theme and no edge support, I label this cluster Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034349","count":2},{"id":"GO:0050909","count":2},{"id":"GO:0051402","count":2},{"id":"GO:0031954","count":2},{"id":"GO:0071456","count":2}]},{"hash":"1731813925456065912","title":"Unknown","description":"The top GO terms cover vitamin D response, protein ubiquitination, thermoception, kinase activity regulation, chemokine production, prostate gland\u2013related epithelial maturation, telomere maintenance, cell growth, and general multicellular processes. There isn\u2019t a single unifying function or pathway linking these terms for this set of proteins, suggesting diverse or mixed roles rather than a coherent cluster-specific function. Therefore, the cluster is best labeled Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0050955","count":2},{"id":"GO:0071901","count":2},{"id":"GO:2000340","count":2}]},{"hash":"237850800965660644","title":"Unknown","description":"The GO terms span metabolism (potassium transport, cholesterol biosynthesis, fatty acid oxidation), stress and toxin response, hormone signaling (peptide hormone, FSH), apoptosis, immune signaling (IL-4 production), growth regulation, and synaptic signaling. This wide diversity does not converge on a single clear function or pathway, suggesting no cohesive theme for a concise label beyond Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006813","count":4},{"id":"GO:0006695","count":4},{"id":"GO:0009636","count":4},{"id":"GO:0019395","count":4},{"id":"GO:0071375","count":4}]},{"hash":"1681437190871205647","title":"Neural and Visual System Development","description":"This cluster is enriched for GO terms tied to vision and brain development\u2014retinol metabolism, visual perception, hippocampus development, and excitatory synaptic activity\u2014suggesting a neural/visual theme. While there are broader terms like apoptosis and xenobiotic response, they may reflect developmental stress or pleiotropy rather than a distinct module; a term like vagina development could be a secondary developmental role in other tissues, but the core pattern supports neural/visual development.","confidence":"Medium","size":8,"edges":15,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":3},{"id":"GO:0055091","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0010628","count":3}]},{"hash":"1944361948508265616","title":"Neuronal development and vesicle regulation","description":"Several GO terms point to brain- and neuron-specific processes, including hippocampus development and regulation of neuron apoptotic processes, as well as regulation of synaptic vesicle endocytosis. Additional terms suggest intracellular trafficking (ER to Golgi transport), membrane dynamics (phospholipid homeostasis), mitochondrial fission, and signaling pathways (TORC2, CAMKK-AMPK). Collectively, the cluster appears to group proteins involved in neuronal development and the regulation of synaptic vesicle trafficking and related signaling, with supporting links to organelle dynamics and membrane biology.","confidence":"Medium","size":8,"edges":5,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043525","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0021766","count":5},{"id":"GO:0000186","count":5},{"id":"GO:1904515","count":4}]},{"hash":"461453611855877968","title":"Defense and stress signaling","description":"The terms cluster around immune and stress response pathways, including cellular responses to lipopolysaccharide, TNF-mediated signaling, and regulation of NF-kappaB signaling (canonical and non-canonical), plus an intrinsic apoptotic pathway related to DNA damage. The presence of a plant-specific hypersensitive response term alongside animal inflammatory signaling, along with more general processes like mismatch repair and protein folding, suggests a broader theme of defense and stress signaling rather than a single specific pathway. Confidence: Medium","confidence":"","size":8,"edges":21,"triangles":23,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0034051","count":1},{"id":"GO:0071222","count":1},{"id":"GO:0042347","count":1},{"id":"GO:0042771","count":1},{"id":"GO:0033209","count":1}]},{"hash":"359726136793390614","title":"Epithelial polarity and membrane trafficking","description":"The top GO terms point to processes that organize epithelial cell polarity (apical/basal polarity, tight junction assembly) and various vesicle trafficking pathways (ER-Golgi transport, endocytosis, Golgi-ER retrograde transport, and vacuole targeting). This suggests the cluster comprises proteins coordinating polarity establishment with membrane trafficking. TORC2 signaling and a miscellaneous term are present but less central. Confidence: High","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0070830","count":5},{"id":"GO:0006888","count":5},{"id":"GO:0006897","count":5},{"id":"GO:0045197","count":5},{"id":"GO:0090162","count":5}]},{"hash":"1930048973098445939","title":"Unknown","description":"The GO terms across the proteins are highly heterogeneous: apoptosis execution phase, acrosome reaction, response to food, small GTPase signaling, innate immune response, defense against bacteria, megakaryocyte differentiation, spliceosome-mediated splicing, and glycerol catabolic process. These functions span apoptosis, reproduction, metabolism, gene expression regulation, and immunity with no unifying biological process dominating the cluster. Therefore no coherent functional theme can be inferred.","confidence":"","size":8,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0097194","count":2},{"id":"GO:0007340","count":2},{"id":"GO:0032094","count":2},{"id":"GO:0007264","count":2},{"id":"GO:0045087","count":2}]},{"hash":"641190443078620844","title":"Developmental signaling and cell cycle regulation","description":"The cluster\u2019s top GO terms point to developmental control (root development, regulation of Wnt signaling) and cell-cycle processes (mitotic cytokinesis, chromatid cohesion), along with growth suppression and apoptosis. This pattern suggests proteins coordinating development with cell proliferation and movement, rather than a single metabolic function, justifying a label centered on developmental signaling and cell-cycle regulation.","confidence":"Medium","size":8,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":4},{"id":"GO:0090090","count":4},{"id":"GO:0043065","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0071276","count":3}]},{"hash":"1683899887837222411","title":"Nervous system development and synaptic signaling","description":"The cluster is enriched for neural development and synaptic function terms: retina development, inhibitory synapse assembly, retrograde trans-synaptic signaling, learning, and nervous system regulation of respiration, suggesting a module centered on neurons and synapses. Some terms on cholesterol transport and osteoblast development may reflect pleiotropy but do not override the dominant neural signal.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":6},{"id":"GO:0002076","count":6},{"id":"GO:1904862","count":6},{"id":"GO:0002087","count":6},{"id":"GO:0051384","count":4}]},{"hash":"1780379509818522670","title":"Arthropod innate immunity and cuticle development","description":"The top GO terms mix innate immune signaling (cellular response to interleukin-1, NF-kappaB activation, IL-6/IL-8 related responses) with chitin-based cuticle biology (ecdysis, cuticle development, chitin catabolic processes). This suggests proteins in the cluster participate in immune signaling pathways and arthropod cuticle formation/remodeling, possibly linking defense responses to development. A few terms like apoptosis and lung development may reflect broader roles or annotation cross-talk but do not override the main two themes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071347","count":4},{"id":"GO:0007250","count":4},{"id":"GO:0072606","count":3},{"id":"GO:0000272","count":3},{"id":"GO:0018990","count":3}]},{"hash":"1856232508723411554","title":"Adhesion, Coagulation, and Vascular Remodeling","description":"The cluster is driven by adhesion-related GO terms (heterophilic and cell-matrix adhesion) and by processes linked to angiogenesis and junction assembly, suggesting roles in tissue remodeling and blood vessel development. Coagulation and immune-regulation terms (intrinsic coagulation pathway, negative regulation of complement activation, negative regulation of fibrinolysis) further support a vascular integrity and inflammation\u2013regulation theme. A few terms like photosynthesis and synapse assembly are outliers but do not outweigh the adhesion/coagulation/angiogenesis signal.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":3},{"id":"GO:0007160","count":3},{"id":"GO:0051965","count":2},{"id":"GO:0007597","count":2},{"id":"GO:0060244","count":2}]},{"hash":"1561037820372498640","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":14,"triangles":9,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0045071","count":3},{"id":"GO:0035455","count":3},{"id":"GO:0042274","count":2},{"id":"GO:0006412","count":2}]},{"hash":"1983673994377653848","title":"Developmental and Signaling Regulators","description":"This cluster centers on GO terms tied to regulation (both positive and negative) of signaling pathways and development, including heart development and spermatogenesis, rather than a single enzymatic or structural role. The mix of regulatory processes (GTPase activity, protein kinase activity, transporter regulation, and cell proliferation) points to proteins that modulate signaling and developmental pathways across contexts. Given the diverse, but thematically linked functions, the label captures the overarching theme without over-specificity.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0006469","count":2},{"id":"GO:1901896","count":2},{"id":"GO:0007507","count":2},{"id":"GO:1903634","count":1}]},{"hash":"2153773016719785122","title":"Unknown","description":"The top GO terms cover visual perception, neural crest and heart development, calcium signaling, glycan processing, platelet degranulation, and neuronal synaptic functions, without a unifying biological process. With no edges linking the proteins, there is no clear shared function tying them together, so a specific, confident label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0014029","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0070588","count":1},{"id":"GO:0071277","count":1}]},{"hash":"1078482548652787716","title":"GABAergic Auditory-Motor Signaling and Circadian Regulation","description":"The term set centers on GABA signaling and receptor clustering, with sensory (sound) perception, motor reflexes (righting reflex), and neural modulation of action potentials, alongside circadian sleep/wake cycle regulation. This suggests proteins involved in GABAergic synapses within auditory-motor brain circuits and their circadian control, supporting a cohesive label focused on GABAergic auditory-motor signaling and circadian regulation.","confidence":"High","size":8,"edges":10,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":7},{"id":"GO:0007214","count":6},{"id":"GO:0060013","count":6},{"id":"GO:0097112","count":6},{"id":"GO:2001023","count":6}]},{"hash":"2175427897114108751","title":"Synaptic vesicle exocytosis and Golgi trafficking","description":"This cluster centers on vesicle trafficking and membrane fusion, highlighted by SNARE complex assembly, exocytic insertion of neurotransmitter receptors, and various Golgi- and ER-to-Golgi transport terms. The prominence of synaptic vesicle exocytosis and long-term potentiation points to roles in neurotransmitter release and synaptic plasticity, with Golgi-related processes likely reflecting receptor processing and trafficking. Hindgut contraction and vacuole fusion appear less central. Overall, the common thread is vesicle trafficking at synapses and through the Golgi apparatus.","confidence":"High","size":8,"edges":12,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035493","count":5},{"id":"GO:0090161","count":5},{"id":"GO:0060291","count":5},{"id":"GO:0098967","count":5},{"id":"GO:0048280","count":5}]},{"hash":"475283829197257490","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":22,"triangles":28,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":3},{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0042273","count":2}]},{"hash":"1669973822659363305","title":"Catecholamine GPCR Signaling","description":"The top GO terms point to adrenergic receptor pathways that inhibit or regulate adenylate cyclase and cAMP, plus downstream effects like vasoconstriction, thermogenesis, and dopaminergic signaling. While a few terms touch broader behaviors, the core theme is catecholamine (epinephrine/norepinephrine) receptor\u2013mediated GPCR signaling and its regulation of cAMP, making this a coherent cluster label.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010818","count":4},{"id":"GO:0071881","count":4},{"id":"GO:0031649","count":4},{"id":"GO:0001963","count":4},{"id":"GO:0001697","count":4}]},{"hash":"649425661988656431","title":"Protein acetylation and polyamine metabolism","description":"These proteins repeatedly show acetylation-related GO terms (N-terminal acetylation, histone H4 acetylation, spermine/spermidine/putrescine acetylation) and related metabolic processes (glucosamine, melatonin biosynthesis, angiogenesis). This pattern suggests a common theme around acetylation-based regulation and polyamine metabolism, with supportive links to related pathways.","confidence":"Medium","size":8,"edges":14,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006041","count":7},{"id":"GO:0032919","count":7},{"id":"GO:0001525","count":7},{"id":"GO:0017198","count":7},{"id":"GO:0061606","count":7}]},{"hash":"706059298648685685","title":"Developmental gene regulation and stress responses","description":"This cluster centers on developmental processes (multicellular development, forebrain/skeletal development, neural tube closure) and regulation of gene expression (DNA-templated transcription, imprinting), plus stress responses (ER stress\u2013induced apoptosis, cadmium response), suggesting a theme of developmental gene regulation under stress.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0001501","count":5},{"id":"GO:0070059","count":5},{"id":"GO:0001843","count":5},{"id":"GO:0071276","count":5}]},{"hash":"397460785439316664","title":"Unknown","description":"The reported GO terms are highly diverse (neural development, gonad and tongue muscle differentiation, lipid and xenobiotic metabolism, methylation, and cell cycle regulation) with no single shared function linking all eight proteins. Because no coherent theme emerges, a specific labeled function cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061000","count":2},{"id":"GO:0007289","count":2},{"id":"GO:0006641","count":2},{"id":"GO:0032259","count":2},{"id":"GO:0008585","count":2}]},{"hash":"1108009116743738082","title":"Unknown","description":"The GO terms span immune signaling (Fc-gamma receptor pathway, response to fungal origin, platelet activation), inflammatory lipid signaling (arachidonate secretion), and developmental processes across multiple tissues (kidney nephrons, lymphatic vessels, cartilage). There isn't a single cohesive biological theme tying these terms together, so a specific functional label cannot be confidently assigned.","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010572","count":4},{"id":"GO:0071226","count":4},{"id":"GO:0060355","count":3},{"id":"GO:0072218","count":3},{"id":"GO:0090238","count":3}]},{"hash":"2219044870404521205","title":"Adrenergic GPCR signaling and blood pressure regulation","description":"The top terms center on GPCR signaling through adrenergic receptors, with adenylate cyclase activation/inhibition and clear ties to blood pressure regulation (norepinephrine/epinephrine\u2013vasoconstriction). Additional terms point to related neural signaling (dopaminergic transmission) and neuroendocrine processes (histamine secretion), suggesting a cluster focused on adrenergic/G-protein coupled signaling controlling cardiovascular and autonomic functions. Confidence: High","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":8},{"id":"GO:0045777","count":8},{"id":"GO:0010579","count":8},{"id":"GO:0010818","count":7},{"id":"GO:0071881","count":7}]},{"hash":"1744215643574587906","title":"Neural sensory signaling and ion transport","description":"This cluster's top GO terms cluster around nervous system functions (thermoception, behavioral response to pain, optic nerve organization, cerebellum maturation) and ion transport (manganese transport, calcium import), suggesting a theme of neural sensing and signaling with ion homeostasis. While some terms are development-oriented, the overall signal points to neural sensory processing and related ion transport.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006828","count":6},{"id":"GO:1903244","count":6},{"id":"GO:0098703","count":6},{"id":"GO:0021590","count":5},{"id":"GO:0048016","count":5}]},{"hash":"1509407794588252031","title":"Unknown","description":"The GO terms span disparate processes\u2014embryonic development, cerebellar/Purkinje cell development, synapse maturation, fertilization, and both lectin and alternative complement activation\u2014nor a single cohesive function for this protein set. Because the terms point to multiple unrelated themes rather than a unified role, there is no confident, representative label.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090528","count":3},{"id":"GO:0001701","count":2},{"id":"GO:0034392","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0060074","count":2}]},{"hash":"897140996021078610","title":"Nuclear proteostasis and genome maintenance","description":"The top GO terms point to ubiquitin-dependent degradation pathways (ERAD and SCF-proteasome) indicating protein turnover, while other terms suggest nuclear processes such as nucleosome assembly, mRNA splicing, and DNA repair via homologous recombination. Together, these imply a theme around nuclear proteostasis coupled with genome maintenance rather than a strictly cytosolic function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0030042","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0000724","count":1}]},{"hash":"190708110963599167","title":"Vertebrate organ development","description":"The terms cluster around development and maturation of organs and tissues (bone ossification, glomerular basement membrane and heart ventricle formation, synapse assembly, renin secretion, and broader multicellular development). A few terms (complement activation) are less cohesive but don\u2019t override the dominant organogenesis signal. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0048671","count":2},{"id":"GO:0032836","count":2}]},{"hash":"1421661213833277321","title":"Ubiquitin-Dependent TNF/NF-\u03baB Signaling","description":"The terms cluster around ubiquitination (protein ubiquitination, K6-linked ubiquitination, ubiquitin-dependent protein catabolic process) and inflammatory signaling (TNF-mediated signaling, I-kappaB phosphorylation, regulation of the JNK cascade). While there are a couple of histone modification and V(D)J recombination mentions, the dominant theme is ubiquitin-mediated regulation of inflammatory pathways and protein turnover. This suggests a function in ubiquitin-dependent control of TNF and NF-\u03baB/JNK signaling.","confidence":"High","size":8,"edges":9,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0033151","count":1},{"id":"GO:1903721","count":1},{"id":"GO:0036205","count":1},{"id":"GO:0070512","count":1},{"id":"GO:0046328","count":1}]},{"hash":"260973039578721805","title":"Chromatin modification and RNA processing","description":"This cluster centers on chromatin regulation (histone acetylation) and RNA processing (mRNA splicing), with additional nuclear processes such as DNA repair and ubiquitin-mediated turnover, and developmental signals. The dominant theme links chromatin modification with RNA processing and genome maintenance, supporting the label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0043982","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1031522128281322276","title":"Polyamine Biosynthesis and Transport","description":"Most frequent GO terms in this cluster center on polyamine metabolism, including spermidine biosynthetic process, putrescine biosynthetic process, and positive regulation of polyamine transmembrane transport. Together with trans-Golgi network membrane organization, these points suggest a functional emphasis on polyamine synthesis and cellular transport, which can influence Golgi function and related processes. The other GO terms (kidney development, L-arginine catabolic process, glycerol biosynthesis) appear less consistent with core function and may reflect broad annotations for the included proteins, but the dominant polyamine signals justify the label.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009089","count":5},{"id":"GO:0098629","count":5},{"id":"GO:0008295","count":5},{"id":"GO:1902269","count":5},{"id":"GO:0033387","count":5}]},{"hash":"1121572931124500663","title":"Mitochondrial Import and Membrane Regulation","description":"Two terms cluster around mitochondrial function: protein import into the mitochondrial matrix and regulation of mitochondrial membrane permeability, both with two proteins, suggesting a mitochondrial-focused cluster despite a few outliers. The presence of a couple of cell-cycle and nuclear-process terms is minor relative to the mitochondrial signals, so the main theme is mitochondrial activity.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000492","count":2},{"id":"GO:0010867","count":2},{"id":"GO:1903740","count":2},{"id":"GO:0030150","count":2},{"id":"GO:2000134","count":2}]},{"hash":"1801680848086396165","title":"Lipid and Xenobiotic Metabolism","description":"The top GO terms cluster around lipid processing (triglyceride metabolic process, cholesterol catabolic process) and xenobiotic catabolism (dibenzo-p-dioxin and camphor catabolic processes), with methylation also suggesting regulatory modification. While some terms touch on development and cell cycle regulation, the strongest and most coherent signal is a metabolic module focused on lipid and foreign compound processing, hence a name reflecting both lipid and xenobiotic metabolism. Confidence: Medium","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006641","count":5},{"id":"GO:0032259","count":5},{"id":"GO:0008585","count":5},{"id":"GO:0006707","count":5},{"id":"GO:0019341","count":5}]},{"hash":"757340223815382422","title":"Rho GTPase\u2013driven actin remodeling","description":"This cluster is dominated by GO terms tied to Rho protein signal transduction and actin cytoskeleton organization, including activation of GTPase activity and regulation of Rho signaling, pointing to a core function in cytoskeletal dynamics governed by Rho GTPases. Other terms like Golgi localization, mitochondrial protein import, and triglyceride biosynthesis are present but less central to this theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001241","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0090630","count":2}]},{"hash":"1035403637722141109","title":"Phototransduction GPCR signaling","description":"These terms point to proteins involved in visual signal detection (light stimulus) and GPCR-mediated signaling, with second messengers such as cAMP and cGMP produced downstream, along with transcriptional regulation resulting from light-responsive signaling. The combination suggests a phototransduction/visual signaling cluster centered on GPCR pathways and cyclic nucleotide signaling. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050908","count":2},{"id":"GO:0071880","count":2},{"id":"GO:0006171","count":2},{"id":"GO:0001973","count":2},{"id":"GO:0035556","count":2}]},{"hash":"1522388924505785975","title":"Unknown","description":"The GO terms span coagulation, complement and fibrinolysis regulation, cell migration and signaling, junction assembly, photosynthesis, and lipid metabolism, with no clear shared pathway or function, and the cluster has no edges\u2014indicating a heterogeneous set rather than a coherent theme.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007597","count":2},{"id":"GO:0060244","count":2},{"id":"GO:0015979","count":2},{"id":"GO:0090528","count":2},{"id":"GO:0045959","count":2}]},{"hash":"954137043038516340","title":"Cardiovascular GPCR signaling and vasoconstriction","description":"The terms cluster around GPCR signaling, including prostaglandin response, GPCR internalization, and regulation of GTPase activity, with development-related terms like heart development and mesoderm morphogenesis. This points to proteins functioning in cardiovascular GPCR pathways and vascular regulation, with a few related terms (endocytosis, cytoskeletal localization, apoptosis) that are contextually ancillary but sometimes linked to GPCR trafficking and cell fate decisions.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071380","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0045907","count":2},{"id":"GO:0007507","count":2}]},{"hash":"584980235346837844","title":"Nuclear ribosome import and DNA replication regulation","description":"GO terms point to nuclear processes, especially ribosomal protein import into the nucleus, DNA replication\u2013dependent chromatin assembly, and TORC1 signaling, with supporting cell-cycle events like mitotic nuclear membrane reassembly. This suggests a nucleus-centered growth and replication theme for the cluster.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0070262","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0007084","count":2}]},{"hash":"2222181151004482952","title":"RNA and Histone Methylation","description":"The top GO terms cluster around various methylation and modification processes (tRNA wobble uridine modification, rRNA guanine-N7 methylation, histone H4-R3 methylation, and peptidyl-arginine hydroxylation), plus related RNA processing steps like ribosomal subunit export. Although a few terms are broad metabolic processes, the shared theme is macromolecule modification by methylation, suggesting a coherent RNA/histone modification-focused cluster. Confidence: Medium","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043985","count":6},{"id":"GO:0009236","count":6},{"id":"GO:0002098","count":6},{"id":"GO:0016049","count":6},{"id":"GO:0000056","count":6}]},{"hash":"192138514198337134","title":"Ubiquitin-Dependent Protein Turnover","description":"The top GO terms are dominated by ubiquitin-related processes: polyubiquitination and K11-linked ubiquitination, and the ubiquitin-dependent ERAD pathway. This points to a core function in ubiquitin-mediated proteostasis and degradation. Additional terms (actin depolymerization, homologous recombination, synaptic vesicle endocytosis, signaling pathways, glycogen catabolism) may reflect secondary roles or multifunctionality, but the central theme across the cluster appears to be ubiquitin-driven protein turnover and quality control.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0030042","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0072286","count":1}]},{"hash":"1751621784795416180","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around developmental processes and tissue formation, including endocrine system development, cartilage morphogenesis, left-right pattern formation, placental and trophoblast differentiation. A few terms relate to general RNA processing, but the dominant theme is embryonic development and morphogenesis, suggesting the proteins collectively participate in developmental regulation and patterning.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0003323","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0060707","count":2}]},{"hash":"1140431717047798470","title":"Apoptosis regulation and cytokine signaling","description":"The terms indicate a core of apoptosis regulation (execution phase; mitochondrial membrane permeability) alongside inflammatory signaling (IL-12/IL-6, TGF-beta; glucocorticoid/dexamethasone response), with ubiquitination possibly modulating these processes. Together, they point to a stress-induced apoptosis\u2013cytokine response module.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0070671","count":1},{"id":"GO:1902109","count":1},{"id":"GO:0097194","count":1},{"id":"GO:0071560","count":1}]},{"hash":"379091073535028031","title":"Acetylation-driven protein and polyamine modification","description":"This cluster is dominated by GO terms related to acetylation: multiple N-terminal acetylation events, histone H4 acetylation, and acetylation of polyamines (spermidine, spermine, putrescine). There are also acetylation steps linked to melatonin biosynthesis, plus related metabolic processes like glucosamine metabolism and angiogenesis that can tie to acetyl-CoA\u2013dependent modification pathways. The unifying theme is acetylation-based modifications across proteins and metabolites.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006041","count":8},{"id":"GO:0032919","count":8},{"id":"GO:0001525","count":8},{"id":"GO:0017198","count":8},{"id":"GO:0061606","count":8}]},{"hash":"2485666624095544","title":"Innate immune signaling with autophagy and ubiquitination","description":"These terms highlight immune signaling paths (non-canonical NF-kappaB, chemokine production, lymph node development) and protein homeostasis mechanisms (autophagy, ubiquitination, necroptosis regulation). While a couple of terms touch on neuronal trafficking and X-chromosome dosage, the dominant themes are immune signaling and proteostasis, suggesting the cluster centers on immune responses and protein turnover rather than a single specialized process.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045869","count":1},{"id":"GO:0048490","count":1},{"id":"GO:0006914","count":1},{"id":"GO:0009048","count":1},{"id":"GO:0070936","count":1}]},{"hash":"1590139551901050587","title":"Developmental and Reproductive Tissue Remodeling","description":"The cluster centers on development across tissues (mammary gland, Purkinje cell layer) and reproductive events (zona pellucida penetration, acrosome reaction), with accompanying extracellular matrix/glycosylation processes (keratan sulfate proteoglycan biosynthesis, protein glycosylation) and wound-healing\u2013related epithelial proliferation and angiogenesis. Together, these terms point to a theme of tissue remodeling during development and reproduction.","confidence":"Medium","size":8,"edges":12,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":6},{"id":"GO:0006486","count":4},{"id":"GO:0018146","count":3},{"id":"GO:0060055","count":3},{"id":"GO:0060058","count":3}]},{"hash":"1406714174708076009","title":"Proteoglycan metabolism and mammary gland development","description":"Dominant GO terms center on proteoglycan biosynthesis and metabolism (keratan sulfate proteoglycan biosynthetic and metabolic processes) and mammary gland development, with related wound-healing signals (epithelial proliferation, angiogenesis). A few neural terms may reflect annotation noise, but the proteoglycan\u2013development signals are the strongest overall.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":6},{"id":"GO:0008542","count":4},{"id":"GO:0018146","count":4},{"id":"GO:0060055","count":4},{"id":"GO:0060058","count":4}]},{"hash":"2014976938253322003","title":"Neural development and sensory responses","description":"This cluster's top GO terms point to nervous system development and sensory processing, including cerebellum maturation, optic nerve organization, thermoception, and behavioral responses to pain, with additional related sensory/physiological responses (caffeine response, gravitaxis) and neural regulation elements; despite some outliers and obsolete terms, the dominant theme is neural development and sensory function.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021590","count":1},{"id":"GO:0048016","count":1},{"id":"GO:0050955","count":1},{"id":"GO:0048266","count":1},{"id":"GO:2000340","count":1}]},{"hash":"178782526206718767","title":"Cell fate regulation and signaling","description":"GO terms include regulation of necroptosis, cell cycle, transcription, and signaling via ubiquitination and TLR pathways, plus a developmental term (spongiotrophoblast development). This suggests a theme of controlling cell fate decisions and associated signaling networks rather than a single, specific process.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060544","count":1},{"id":"GO:0051311","count":1},{"id":"GO:0000122","count":1},{"id":"GO:1990001","count":1},{"id":"GO:0060712","count":1}]},{"hash":"53082432337200686","title":"Glucose and Ion Transmembrane Transporters","description":"The terms point to a cluster of membrane transport proteins handling glucose and a variety of ions/solutes (phosphate, nitrate, organic cations, xenobiotics) and related vesicle loading processes. This suggests a functional group of transporters coordinating nutrient uptake and solute movement across membranes, with glucose-related regulation emphasized.","confidence":"Medium","size":8,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":8},{"id":"GO:0044381","count":8},{"id":"GO:0070715","count":8},{"id":"GO:0006855","count":8},{"id":"GO:0015706","count":8}]},{"hash":"40460422321493105","title":"Unknown","description":"These terms span telomere maintenance regulation, cardiovascular and cortical development, growth signaling, muscle stretch response, and general gene expression control. There is no clear, unified biological process tying all members together, so a single informative label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":4},{"id":"GO:0021819","count":4},{"id":"GO:1904355","count":4},{"id":"GO:0060396","count":4},{"id":"GO:0060843","count":4}]},{"hash":"1551359914948498760","title":"Unknown","description":"The 8 proteins are linked to a wide range of distinct processes, including neuronal synaptic regulation, AMPA receptor activity, apoptosis in response to DNA damage, FGFR signaling modulation, monocyte and T cell differentiation, keratinocyte apoptosis, and developmental events like chorio-allantoic fusion. This diversity shows no single coherent biological theme, so a unique, informative label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":1},{"id":"GO:2000311","count":1},{"id":"GO:0042771","count":1},{"id":"GO:0040037","count":1},{"id":"GO:0045657","count":1}]},{"hash":"699248523411712821","title":"Neuronal synaptic transmission and plasticity","description":"The dominant terms are related to neuronal signaling and plasticity: long-term potentiation, memory, calcium response, neurotransmitter secretion, and regulation of synaptic vesicle exocytosis, which together indicate synaptic transmission and plastic change in neurons. Other terms such as abscisic acid signaling, VEGF receptor signaling, apoptotic regulation, and heart contraction are less central and may reflect broader multifunctionality or annotation noise. Overall, the core theme is synaptic communication and plasticity.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0071277","count":2},{"id":"GO:0048015","count":2},{"id":"GO:0007613","count":2},{"id":"GO:0007269","count":2}]},{"hash":"967112476868245763","title":"Epithelial Development and Cytoskeletal Dynamics","description":"This cluster centers on terms related to skin/epithelial development and the actin-based cytoskeleton, including skin development, terminal web assembly, and actin filament depolymerization. Additional terms point to calcium signaling and GTPase regulation, which commonly coordinate cytoskeletal remodeling and cell signaling in developing epithelia. While there are broader development and cell-division terms, the recurring theme is epithelial cytoskeletal organization during development, supporting this label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":3},{"id":"GO:0030042","count":2},{"id":"GO:0071277","count":2},{"id":"GO:0007275","count":2},{"id":"GO:1902896","count":2}]},{"hash":"375280742200969845","title":"Fatty acid and retinoid metabolism","description":"This cluster is dominated by lipid-related biosynthesis and metabolism terms, including fatty acid elongation, very long-chain fatty acid biosynthesis, PHB (a lipid storage polymer) biosynthesis, steroid catabolic processes, and retinoid metabolism (retinol and retinoic acid) as well as phylloquinone catabolism, indicating a cohesive lipid/vitamin metabolism theme.","confidence":"High","size":7,"edges":6,"triangles":2,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0042619","count":6},{"id":"GO:0030497","count":5},{"id":"GO:0042761","count":5},{"id":"GO:0042376","count":5}]},{"hash":"2261838345900317848","title":"Bacterial lipid and sugar biosynthesis","description":"This cluster is led by GO terms for lipid biosynthesis (phospholipid and glycolipid) and bacillithiol production, which point to bacterial lipid metabolism, particularly in Bacillus species. The presence of sugar-related terms (response to sucrose and mannitol, starch biosynthesis) suggests broader carbohydrate metabolism. Although some terms are obsolete or less directly related, the core theme centers on microbial lipid and carbohydrate biosynthetic processes, making the label representative. ","confidence":"Medium","size":7,"edges":18,"triangles":21,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0008654","count":2},{"id":"GO:0033577","count":2},{"id":"GO:0009744","count":2},{"id":"GO:0009405","count":2},{"id":"GO:0010555","count":2}]},{"hash":"650969775667656961","title":"Unknown","description":"The cluster\u2019s top GO terms span lipid metabolism (prostaglandin, triglyceride, cholesterol), epigenetic methylation, development (female gonad development), tissue differentiation (tongue muscle), cell cycle regulation, copper ion response, and xenobiotic/dioxin and camphor catabolism. This wide and disparate mix lacks a single unifying function or pathway, so a coherent, specific label isn\u2019t supported. ","confidence":"","size":7,"edges":11,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":6},{"id":"GO:0006641","count":4},{"id":"GO:0032259","count":4},{"id":"GO:0008585","count":4},{"id":"GO:0006707","count":4}]},{"hash":"685647668086088789","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around neural development and synaptic organization, including motor neuron axon guidance, synapse localization and receptor clustering, cell-matrix adhesion, Rho signaling, and calcineurin-NFAT signaling. While heart development appears among terms, the dominant theme is neuronal growth, axon guidance, and synaptic regulation through signaling and adhesion/cytoskeletal processes.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0008285","count":3},{"id":"GO:0035418","count":3},{"id":"GO:0070886","count":3},{"id":"GO:0008045","count":3}]},{"hash":"2144281454587773443","title":"Unknown","description":"Top terms are highly diverse: nervous system development, phototropism, muscle differentiation, immune cell differentiation, and ubiquitin-mediated proteolysis, with little overlap; no clear shared pathway or function ties all proteins together, so Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0009638","count":1},{"id":"GO:0042787","count":1},{"id":"GO:0035914","count":1},{"id":"GO:0045496","count":1}]},{"hash":"2145943197141538914","title":"Endothelial barrier dynamics and cell migration signaling","description":"The cluster features GO terms for GTPase-mediated signaling, tight junction assembly, vascular permeability regulation, and neuronal migration processes, pointing to a cohesive role in coordinating barrier integrity and cell movement during development. A few metabolism-related terms are present but secondary to the main barrier/migration theme.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":3},{"id":"GO:0001561","count":2},{"id":"GO:0000266","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0007173","count":2}]},{"hash":"132297818932292289","title":"Unknown","description":"The top GO terms span diverse processes\u2014cobalamin and oxaloacetate metabolism, fatty acid and sphingomyelin biosynthesis, multiple signaling pathways (Notch, insulin, salicylic acid) and tryptophan/kynurenine metabolism\u2014showing no single cohesive function tying all proteins together. This suggests the cluster is not functionally cohesive.","confidence":"","size":7,"edges":6,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009236","count":3},{"id":"GO:0055089","count":3},{"id":"GO:0007219","count":3},{"id":"GO:0019441","count":3},{"id":"GO:0034276","count":3}]},{"hash":"910369137362588000","title":"Unknown","description":"This cluster shows a highly diverse mix of functions, including microtubule severing, metabolic pathways (glutamate and sphingolipid metabolism), signaling (growth factor response), neurotransmitter biosynthesis (dopamine from tyrosine), and stress/toxin responses (thermotaxis, pyrethroid response). There is no single dominant biological process or molecular function linking all members, and several terms are obsolete, so a cohesive, representative label is not apparent.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":2},{"id":"GO:0043052","count":2},{"id":"GO:0071363","count":2},{"id":"GO:0006538","count":2},{"id":"GO:0006585","count":2}]},{"hash":"631896458092672270","title":"Nucleotide metabolism and salvage","description":"The top GO terms are dominated by nucleotide phosphorylation, salvage, and interconversion (AMP/ADP biosynthesis, purine ribonucleotide interconversion, nucleoside monophosphate phosphorylation), suggesting the proteins contribute to maintaining nucleotide pools. Two development terms (brain, liver) may reflect broad annotations rather than core function of the cluster. Thus, the cluster is best described as related to nucleotide metabolism and salvage, with Medium confidence.","confidence":"Medium","size":7,"edges":13,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0046940","count":3},{"id":"GO:0046041","count":3},{"id":"GO:0015951","count":3},{"id":"GO:0044209","count":3}]},{"hash":"1806708943843376574","title":"RNA and protein methylation","description":"This cluster is dominated by GO terms for RNA modification (tRNA wobble uridine modification, tRNA methylation, and rRNA modification) and protein methylation (peptidyl-arginine methylation). These indicate a common theme of methyltransferase activities acting on RNA and proteins. Some other terms (biosynthetic processes, xenobiotic response, nodulation) may reflect broader metabolism or annotation noise, but the core signal supports RNA- and protein-methylation functions.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0002098","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0009877","count":3},{"id":"GO:0016126","count":3}]},{"hash":"919474815950643552","title":"Rho-mediated cytoskeleton signaling","description":"This cluster centers on signals that regulate the cytoskeleton, notably Rho GTPase activity and Rho signaling, which underlie responses to mechanical stimuli and actin dynamics. The presence of related terms like positive regulation and regulation of Rho signaling, along with cellular responses to mechanical cues and axonogenesis regulation, supports a theme of cytoskeletal remodeling and signaling. A couple of immune-related terms (complement activation) appear but are not the main driver of the cluster, suggesting these proteins may have multiple roles but share cytoskeleton- and signaling-centric functions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0043547","count":1},{"id":"GO:0007266","count":1}]},{"hash":"1633503238470926444","title":"Cranial nerve development and axon guidance","description":"GO terms predominantly describe axon guidance and cranial nerve-related development, including commissural neuron axon guidance, branchiomotor neuron axon guidance, axon extension during guidance, and facial nerve structural organization, plus otic placode development. Additional terms like cell-matrix adhesion and regulation of GTPase activity reflect the cellular machinery enabling axon navigation and morphogenesis in cranial regions.","confidence":"High","size":7,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0034260","count":2},{"id":"GO:0034392","count":2},{"id":"GO:0007160","count":2},{"id":"GO:1905040","count":2},{"id":"GO:0071679","count":2}]},{"hash":"119245476340313609","title":"Unknown","description":"The GO terms encompass a broad and disparate set of functions, including skin development, endodermal differentiation, apoptotic cell clearance, meiosis-related processes, and various catabolic or stress-response terms, with several entries marked obsolete. There is no clear single biological theme tying these proteins together, making a confident specific label unlikely.","confidence":"","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045715","count":2},{"id":"GO:0043277","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0035987","count":2},{"id":"GO:0046306","count":1}]},{"hash":"1561012659735148990","title":"Vascular and Craniofacial Development","description":"The top GO terms cluster around developmental processes, especially blood vessel maturation, cartilage and craniofacial morphogenesis, and general multicellular development, with hypoxia response and signaling modulation (Notch and EGFR). This combination suggests a developmental program governing vascular and craniofacial tissue formation, rather than a single isolated function. Leukocyte migration may reflect migratory aspects of development or tissue remodeling in this context. Confidence: High","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:0045746","count":3},{"id":"GO:0050900","count":3},{"id":"GO:0045742","count":3},{"id":"GO:2001258","count":3},{"id":"GO:0097094","count":3}]},{"hash":"200796441382103927","title":"Endothelial Growth and Redox Regulation","description":"This cluster is centered on regulation of endothelial cell migration and redox homeostasis, with several terms tied to growth control and detoxification of oxidants, suggesting a theme of vascular growth coupled with oxidative stress management. A few outliers (e.g., photoreceptor light responses, homogentisate catabolism) may be noise relative to the dominant redox-growth axis.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043535","count":4},{"id":"GO:0045454","count":4},{"id":"GO:0040008","count":2},{"id":"GO:0009407","count":2},{"id":"GO:0009636","count":2}]},{"hash":"459967894722253162","title":"Actin Cytoskeleton Remodeling and Signaling","description":"The cluster is dominated by terms tied to actin dynamics (actin filament depolymerization, ruffle assembly, actin cortical patches) and associated signaling (integrin-mediated signaling, cellular response to TGF-beta, regulation of endocytosis). These collectively indicate a theme of actin cytoskeleton remodeling linked to signaling pathways, with a few development-associated terms likely reflecting broader roles in morphogenesis. ","confidence":"Medium","size":7,"edges":8,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":2},{"id":"GO:0030042","count":1},{"id":"GO:0045806","count":1},{"id":"GO:0097178","count":1},{"id":"GO:0048735","count":1}]},{"hash":"445168357869332537","title":"Developmental morphogenesis and neural development","description":"The GO terms cluster around developmental and morphogenetic processes\u2014bone mineralization, coronary artery morphogenesis, and EMT\u2014combined with neural development cues such as axon extension, auditory receptor fate, and glial regulation, plus signaling pathways (PDGF signaling, cortisol response, IL-4 production). This suggests a broad developmental/morphogenesis theme with emphasis on neural development rather than a single, narrow function.","confidence":"Medium","size":7,"edges":8,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030282","count":2},{"id":"GO:0034351","count":2},{"id":"GO:0010718","count":1},{"id":"GO:0072602","count":1},{"id":"GO:0048846","count":1}]},{"hash":"211368177688837508","title":"Neuronal synapse formation and signaling","description":"This cluster aggregates terms such as neurotransmitter secretion, synapse assembly, and reelin-mediated signaling, with neuronal calcium response as a supportive theme, pointing to neuron\u2013synapse development and signaling. A few terms related to autophagy and apoptosis are present but do not define the main function.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001302","count":5},{"id":"GO:0034351","count":4},{"id":"GO:0007269","count":4},{"id":"GO:0007416","count":4},{"id":"GO:0038026","count":4}]},{"hash":"1128492377397970093","title":"Mitotic spindle dynamics and microtubule transport","description":"The top GO terms cluster around mitosis and microtubule-based activities (centrosome separation, metaphase chromosome alignment, plus-end-directed vesicle transport along microtubules, nuclear migration along microtubules) with additional cytoskeletal roles in development and neuronal maintenance, indicating a shared function in cytoskeletal organization and motor-driven transport across contexts.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":5},{"id":"GO:0072092","count":5},{"id":"GO:0007080","count":5},{"id":"GO:0072383","count":5},{"id":"GO:0048364","count":5}]},{"hash":"1615460373517430683","title":"Nuclear import/export and mitosis","description":"The GO terms show strong emphasis on nuclear transport (tRNA export from nucleus; regulation of protein import into nucleus; NLS-bearing protein import into nucleus) and mitotic processes (mitotic nuclear membrane disassembly; mitotic centrosome separation), with supporting protein\u2013protein interactions (heterooligomerization/homooligomerization) that fit within transport complexes. This suggests a cohesive cluster around nuclear transport machinery and mitotic regulation. ","confidence":"High","size":7,"edges":9,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0075733","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0010827","count":3},{"id":"GO:0006409","count":3},{"id":"GO:0007077","count":3}]},{"hash":"1730844021804645786","title":"Unknown","description":"The terms span many unrelated processes (RNA processing, DNA repair, ubiquitination, development, signaling) with no shared core function and no edges connecting them, so there is no coherent label to assign.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":2},{"id":"GO:0046784","count":2},{"id":"GO:0030042","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0000724","count":1}]},{"hash":"86749416145190951","title":"Integrin-Mediated Adhesion and ECM Remodeling","description":"The top GO terms cluster around calcium-independent cell-matrix adhesion, integrin signaling, and cell migration, with metallopeptidase activity suggesting ECM remodeling. These cohesive themes point to ECM adhesion/signaling as the core function of the group, even though a few terms represent unrelated contexts.","confidence":"Medium","size":7,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007161","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0006929","count":3},{"id":"GO:0007229","count":3},{"id":"GO:1905050","count":3}]},{"hash":"1657230038423824998","title":"Migration, adhesion, and immune signaling","description":"The top GO terms cluster around cell movement and adhesion (substrate-dependent cell migration; integrin-mediated signaling; cellular extravasation; chondrocyte morphogenesis) and immune-related processes (T cell activation via TCR; complement activation). Additional terms touch on tissue remodeling (metallopeptidase activity), protein complex formation (protein heterotrimerization), and proteasome assembly, suggesting a broader theme of dynamic cell interactions during development and immune contexts. Overall, a concise interpretation is a cluster focused on cell migration/adhesion plus associated immune signaling, with some housekeeping/developmental terms. ","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006929","count":2},{"id":"GO:0007229","count":2},{"id":"GO:1905050","count":2},{"id":"GO:0003429","count":2},{"id":"GO:0070208","count":2}]},{"hash":"2057987674006603950","title":"Integrin signaling and cell adhesion","description":"The cluster is defined by GO terms centered on integrin-mediated signaling, cell-matrix adhesion, and extravasation, with additional related terms like heterotypic cell-cell adhesion and transcytosis, suggesting a cohesive theme of cell adhesion and trafficking. Some outlier terms such as sensory perception of sound and endodermal differentiation appear less connected, likely reflecting annotation noise or broader context in the data.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":2},{"id":"GO:0045123","count":2},{"id":"GO:0007161","count":2},{"id":"GO:0035987","count":2},{"id":"GO:0034113","count":2}]},{"hash":"553083934482781875","title":"Vesicle trafficking and endocytosis","description":"The cluster\u2019s GO terms are dominated by endocytosis and vesicle trafficking processes: synaptic vesicle endocytosis, endocytic recycling, Rab GTPase signaling, and regulation of GTPase activity, along with basal protein localization. While there are apoptosis- and development-related terms present, the strongest shared theme appears to be membrane trafficking and protein localization rather than a single cohesive pathway. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035745","count":2},{"id":"GO:0097194","count":2},{"id":"GO:0032483","count":2},{"id":"GO:1902041","count":2},{"id":"GO:0032456","count":2}]},{"hash":"1753327717326817155","title":"Developmental signaling and phosphorylation regulation","description":"The terms cluster around skin and multicellular development and a set of signaling and phosphorylation-related processes, including cAMP/adenylate cyclase signaling, kinase and phosphatase regulation, tyrosine phosphorylation, GTPase activity, and protein autophosphorylation. This pattern suggests a module of developmental signaling where phosphorylation control governs developmental processes, hence the label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043588","count":4},{"id":"GO:0007613","count":3},{"id":"GO:0032516","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0007190","count":3}]},{"hash":"2091228565607064446","title":"Plant cell wall biosynthesis","description":"This cluster is dominated by plant cell wall\u2013related biosynthetic terms: cell wall organization, plant-type secondary cell wall biogenesis, and specific polysaccharide biosynthesis processes (homogalacturonan, glucuronoxylan) along with related glycan and sugar metabolism terms. These consistently point to synthesis and assembly of plant cell walls, indicating a cohesive theme despite a few outlier terms that may reflect broader or noisy annotations. Confidence rests on the plant-specific cell wall signals being the majority signal.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":3},{"id":"GO:0016266","count":3},{"id":"GO:0072520","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0043403","count":2}]},{"hash":"1473146209603524747","title":"Signaling and cell cycle regulation","description":"This cluster centers on GO terms related to intracellular signaling (positive regulation of GTPase activity, serine/threonine kinase activity, and protein autophosphorylation), as well as cell proliferation and the mitotic cell cycle. The presence of mRNA transport and hypoxia response hints at coordinated regulation of gene expression under stress. Taken together, the proteins appear to participate in signaling pathways that regulate cell division and related kinase activities, rather than a single, narrowly defined process.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0031954","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0071456","count":2}]},{"hash":"1928723242659477138","title":"Unknown","description":"The listed GO terms cover diverse processes: DNA repair and meiotic regulation, mRNA splicing, ubiquitin\u2011mediated proteolysis, arginine methylation, TGF-beta signaling, cytoskeleton dynamics, and development. There isn't a single coherent function or pathway tying these proteins together, so a specific label isn't justifiable.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0030042","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0035246","count":2}]},{"hash":"151013538084289623","title":"Unknown","description":"The top GO terms span neuronal development and synaptic vesicle regulation, signaling pathways (Wnt, T cell receptor), protein synthesis and ubiquitination, ER stress-related apoptosis, as well as bone resorption and yeast mating projection growth\u2014these diverse processes do not reveal a single cohesive function for the cluster. Therefore, an Unknown label with no confidence is appropriate.","confidence":"","size":7,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0045453","count":2}]},{"hash":"1982743540649951967","title":"NF-kappaB\u2013driven antiviral signaling and autophagy","description":"These proteins cluster around immune defense against viruses, primarily via NF-kappaB signaling, with supporting roles in vitamin D response, chemokine production, and autophagy. The presence of autophagy and necroptosis regulation suggests coordination between antiviral responses and cell death pathways. Some terms are obsolete, but the core theme of antiviral NF-kappaB signaling coupled to autophagy best explains the set.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":5},{"id":"GO:0051607","count":5},{"id":"GO:0043123","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0090073","count":5}]},{"hash":"1664181409740745143","title":"Mitotic spindle and cytoskeleton signaling in development","description":"The cluster's top GO terms center on mitotic cell cycle and microtubule-based movement, with additional signals related to GTPase and serine/threonine kinase regulation and mRNA transport, all of which align with cytoskeletal dynamics and controlled signaling during cell division and tissue development. The presence of multicellular organism development and skin development terms suggests broader developmental roles of these proteins, consistent with a cohesive theme around mitosis-cytoskeleton regulation in developing tissues.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0007018","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0031954","count":2}]},{"hash":"1110574752598535293","title":"Oxidative stress response and genome maintenance","description":"The cluster shows enrichment for redox-related terms (redox homeostasis, cellular response to hydrogen peroxide) alongside DNA-related processes (DNA recombination) and cell cycle regulation (positive regulation of G1/S transition), suggesting a link between oxidative stress response and genome integrity maintenance. Despite some obsolete terms, the recurring themes point to defense against oxidative damage and genome stability mechanisms.","confidence":"Medium","size":7,"edges":8,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071375","count":2},{"id":"GO:1900087","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0080111","count":2},{"id":"GO:0090502","count":2}]},{"hash":"456233776607354351","title":"Unknown","description":"The terms show a broad mix of stress response, lipid and xenobiotic metabolism, and some development and cell-cycle signals, with no clear single theme tying them together. This makes it difficult to assign a concise, representative label. ","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035902","count":4},{"id":"GO:0006641","count":3},{"id":"GO:0032259","count":3},{"id":"GO:0008585","count":3},{"id":"GO:0006707","count":3}]},{"hash":"1469116901510540179","title":"Embryonic patterning and organ morphogenesis","description":"The cluster prominently features GO terms for left/right pattern formation, cartilage morphogenesis, placental and trophoblast development, and endocrine system development, all indicating embryonic tissue patterning and morphogenesis. While there are also higher-level RNA processing and ribosome/export terms that reflect general gene expression machinery, the strongest signals are developmental and morphogenetic. Medium","confidence":"","size":7,"edges":10,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":4},{"id":"GO:0000055","count":3},{"id":"GO:0003323","count":3},{"id":"GO:1903026","count":3},{"id":"GO:0000398","count":3}]},{"hash":"1089265423692961220","title":"Calcium signaling and calcium-dependent processes","description":"Most terms cluster around calcium dynamics: release of sequestered calcium into the cytosol, calcium ion transport, cellular responses to calcium, and calcium-modulated signaling (including Wnt calcium pathway) and related vesicle processes (synaptic vesicle endocytosis, platelet degranulation) and caffeine response. A few terms (N-glycan processing, metanephric development) are less direct but can be connected to broader calcium-influenced pathways. Confidence: High","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051281","count":4},{"id":"GO:0007223","count":4},{"id":"GO:0070588","count":3},{"id":"GO:0071277","count":3},{"id":"GO:0072286","count":3}]},{"hash":"576557015334853453","title":"Immune Activation Signaling","description":"The cluster is dominated by terms related to immune signaling and activation, including positive regulation of monocyte aggregation, Toll-like receptor 9 signaling, and positive regulation of mast cell activation via Fc-epsilon receptor signaling. While there are a couple of development-related terms present (forebrain neuron generation, chondrocyte growth), the recurring theme centers on immune cell signaling and activation pathways, making \"Immune Activation Signaling\" a concise, representative label.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1900625","count":5},{"id":"GO:0021872","count":5},{"id":"GO:0038185","count":5},{"id":"GO:0038097","count":5},{"id":"GO:0034162","count":5}]},{"hash":"1451028239138425223","title":"Developmental and Immune Signaling","description":"Proteins in this cluster show GO annotations spanning T cell receptor signaling, nervous system development, axon guidance, ROBO signaling, mast cell chemotaxis, and key signaling cascades (ERK, PI3K, TORC2), plus ossification. This suggests a set of signaling components used across development and immune/migration contexts, rather than a single pathway, justifying a label that emphasizes broad developmental and immune signaling roles.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0007286","count":7},{"id":"GO:0002551","count":7},{"id":"GO:0070374","count":7}]},{"hash":"200421232518956570","title":"Rab-mediated vesicle trafficking","description":"This cluster centers on Rab GTPase\u2013dependent membrane trafficking. The prominent terms\u2014Rab protein signal transduction, protein transport, and activation of GTPase activity\u2014point to vesicle movement governed by Rab family proteins. Additionally, protein geranylgeranylation and its positive regulation are key modifiers that enable Rab proteins to associate with membranes, reinforcing the trafficking theme. Some non-core terms relate to species-specific processes, but the core signal is Rab-driven transport.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0050935","count":1},{"id":"GO:0018344","count":1},{"id":"GO:0050771","count":1},{"id":"GO:0090630","count":1}]},{"hash":"195274072505631936","title":"Neuronal differentiation and synaptic plasticity","description":"The top GO terms are dominated by neural development and synaptic function, including striatal medium spiny neuron differentiation, cerebellum morphogenesis, and positive regulation of long-term synaptic potentiation. Other terms touch on neural signaling (PDGF receptor pathway) and processes linked to vesicle trafficking and cell polarity, which can influence synapse formation and maintenance. Taken together, the cluster appears to group proteins involved in brain development and synaptic plasticity rather than a single small pathway.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0021773","count":3},{"id":"GO:0045806","count":3},{"id":"GO:0032633","count":3},{"id":"GO:0010641","count":3},{"id":"GO:0021587","count":3}]},{"hash":"1062226017193164959","title":"ER-Golgi Trafficking and Energy Signaling","description":"The top GO terms cluster around COPII-coated vesicle budding and ER stress response, with supportive terms for phospholipid homeostasis, vesicle endocytosis, and energy-sensing pathways (CAMKK-AMPK and TORC2). This suggests a coherent theme of membrane trafficking and lipid homeostasis tied to cellular energy and stress signaling, despite a few peripheral annotations. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090114","count":4},{"id":"GO:0034976","count":3},{"id":"GO:1904515","count":2},{"id":"GO:0099139","count":2},{"id":"GO:0055091","count":2}]},{"hash":"1121628376736089912","title":"Stress Response and Development","description":"The proteins are linked to multiple stimulus-response processes (xenobiotic, LPS, ROS, glucocorticoids, glucose) as well as autophagy and apoptosis, alongside developmental terms (heart development, metamorphosis). This suggests a cluster of proteins involved in cellular stress responses that intersect with development and immune signaling, rather than a single, narrow function. Therefore the label captures the broad theme with moderate confidence.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"wound healing","top_go_terms":[{"id":"GO:0042493","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0042542","count":3},{"id":"GO:0051384","count":3}]},{"hash":"403648668854124628","title":"NF-kB\u2013Mediated Immune Response and Apoptosis","description":"This cluster is dominated by GO terms linking NF-kappaB signaling, innate immune detection (bacterial sensing, IL-12 response), and stress-induced apoptosis (including mitochondrial permeability regulation and execution phase), along with related hormone signaling (TGF-beta, dexamethasone) and oxidative stress responses. Together these suggest a cohesive module where inflammatory signaling interfaces with programmed cell death under stress conditions.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0042542","count":2},{"id":"GO:0070671","count":2},{"id":"GO:1902109","count":2}]},{"hash":"438411089937687726","title":"Apoptosis and Inflammatory Signaling","description":"This cluster centers on apoptosis-related processes (execution phase of apoptosis, apoptotic process in development, negative regulation of mitochondrial membrane permeability in apoptosis) and immune/stress signaling (cytokine production in inflammatory response, interleukin-12 response), with additional links to cellular stress responses (hydrogen peroxide) and hormone signaling (TGF-beta and dexamethasone). The combination suggests proteins involved in programmed cell death and inflammatory/stress signaling during development.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":2},{"id":"GO:1900017","count":2},{"id":"GO:0042542","count":1},{"id":"GO:0070671","count":1},{"id":"GO:1902109","count":1}]},{"hash":"438089240812089305","title":"Neural development and synaptic signaling","description":"The proteins show strong representation of nervous system development, brain development, and synaptic processes (glutamatergic transmission, synapse assembly, calcium-dependent exocytosis). While a few terms touch on related pathways like inner ear development and VEGF signaling, the dominant theme centers on neural development and synaptic function.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0035249","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0045956","count":2}]},{"hash":"300491306518968606","title":"Metabolic Remodeling and Differentiation Stress Responses","description":"The terms indicate metabolic activity (cholesterol biosynthesis, glucose metabolism) paired with differentiation processes (keratinocyte differentiation, cartilage condensation) and checks on proliferation plus stress signaling (apoptotic process, response to toxic substance). This points to a module of proteins involved in metabolic changes during epidermal/cartilaginous differentiation and associated stress responses, rather than a single narrowly defined pathway.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006695","count":3},{"id":"GO:0006006","count":3},{"id":"GO:0014070","count":3},{"id":"GO:0030216","count":2},{"id":"GO:0006915","count":2}]},{"hash":"305954130627356208","title":"Angiogenesis and vascular remodeling with ERK signaling","description":"The top terms are dominated by angiogenesis and endothelial cell migration/adhesion, with several entries about positive regulation of the ERK1/2 cascade. These point to a vascular development/remodeling theme, with ERK signaling as a key pathway. While adaptive immune and other terms appear, they seem secondary to the primary vascular functions.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0043536","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0009636","count":3},{"id":"GO:0002250","count":3}]},{"hash":"610206939022794314","title":"Biosynthesis and stress-response pathways","description":"This cluster features multiple biosynthetic processes (collagen biosynthetic, spermidine biosynthesis, clavulanic acid biosynthesis) alongside cellular responses to various stimuli (lipopolysaccharide, dexamethasone, transforming growth factor beta) and ion-related responses. The mix suggests a general theme around biosynthesis coupled with environmental or immune signaling, rather than a single, tight pathway. Confidence: Medium","confidence":"","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":2},{"id":"GO:0032964","count":2},{"id":"GO:0008295","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0071549","count":2}]},{"hash":"457534976376129461","title":"Genome maintenance and stress response","description":"This cluster centers on DNA repair and genome maintenance, with base-excision repair and DNA recombination as core processes. Additional signals of stress handling\u2014xenobiotic response and redox homeostasis\u2014and a link to cell-cycle regulation (G1/S) point to coordinated genome protection and replication control under cellular stress; some terms are obsolete but the main theme remains DNA damage response and stress adaptation.","confidence":"Medium","size":7,"edges":6,"triangles":1,"max_degree":5,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0006284","count":4},{"id":"GO:0071375","count":3},{"id":"GO:1900087","count":3}]},{"hash":"2293149663677025808","title":"Signaling regulation and mitochondrial dynamics","description":"Based on the top GO terms, the cluster centers on regulatory signaling pathways (e.g., TORC2, CAMKK-AMPK) and processes linked to energy/metabolic regulation (phospholipid homeostasis, mitochondrial fission), alongside cell polarity. This suggests the proteins function together in coordinating signaling with organelle dynamics, 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:1904515","count":2},{"id":"GO:0099139","count":2},{"id":"GO:0055091","count":2},{"id":"GO:1900242","count":2},{"id":"GO:1905289","count":2}]},{"hash":"431791872750725376","title":"Actin-driven protrusions and cell migration","description":"The cluster centers on actin cytoskeleton dynamics, especially filopodium and ruffle assembly, which relate to cell migration and morphogenesis (e.g., regulation of fibroblast migration, epithelial morphogenesis). Additional terms about endosome/melanosome transport fit with actin-based trafficking processes, supporting a cohesive module of actin remodeling and membrane protrusion functions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051489","count":3},{"id":"GO:0036010","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0010762","count":3}]},{"hash":"206699489425019513","title":"Neural Sensory Signaling","description":"The top GO terms cluster around sensory perception (visual, pain) and stimulus-responsive signaling (prostaglandin/xenobiotic responses, cocaine behavioral effect, ERK cascade), which together suggest a theme of neural processing of external stimuli and associated signaling pathways. Some terms like blood coagulation and heart development are broader and reflect shared signaling roles rather than a single neural module, and the absence of edges indicates the proteins may represent a broader, non-connected set rather than a tight functional cluster. Overall, the label captures the dominant neural-sensory signaling theme without overextending to unrelated functions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":4},{"id":"GO:0071380","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0007507","count":4}]},{"hash":"113397042757010787","title":"Filopodium dynamics and adherens junction signaling","description":"This cluster centers on cytoskeletal remodeling (filopodium assembly and its regulation) and cell\u2013cell adhesion (adherens junction organization), with accompanying signaling pathways (ephrin signaling, ERK cascade) and regulation such as ubiquitination. The terms together suggest a coordinated program of actin-driven protrusions and intercellular communication, possibly in morphogenesis or synaptic/adherens junction contexts, rather than a single isolated pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051489","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0051932","count":2},{"id":"GO:0034332","count":2}]},{"hash":"1064270606332738002","title":"SNARE-mediated vesicle trafficking","description":"The top GO terms cluster around vesicle transport and SNARE machinery, including ER-to-Golgi transport, Golgi ribbon formation, SNARE complex assembly, Golgi-to-plasma membrane transport, and synaptic vesicle exocytosis, with ancillary regulation of membrane targeting and insulin response. This pattern indicates a cohesive role in vesicle trafficking and SNARE-mediated fusion processes.","confidence":"High","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0090161","count":4},{"id":"GO:0043134","count":3},{"id":"GO:0042144","count":3},{"id":"GO:0035493","count":3}]},{"hash":"1593673302514215964","title":"RNA Processing and Surveillance","description":"This cluster centers on RNA maturation and quality control, with strong signals for splicing (spliceosome and prespliceosome assembly), mRNA decay and silencing (NMD and mRNA cleavage), ribosome biogenesis, and translation, plus RNA surveillance pathways (TRAMP tRNA surveillance) and related translation regulation. These cohesive themes suggest a function in RNA processing and translation control.","confidence":"High","size":7,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:2000623","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0030423","count":2}]},{"hash":"255864055330431736","title":"Neural development and axon guidance","description":"This cluster centers on nervous system development and axon guidance, with terms like CNS development, photoreceptor cell axon guidance, paranode region localization, and cell-cell adhesion. BMP signaling and Smoothened signaling also point to developmental regulation. The kidney development term appears as a weaker outlier; overall the strongest shared theme is neural development and axon pathfinding, including retina-related guidance.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":2},{"id":"GO:0002175","count":1},{"id":"GO:0030513","count":1},{"id":"GO:0007610","count":1},{"id":"GO:0007417","count":1}]},{"hash":"21881597183617937","title":"Translation regulation and ribosome maturation","description":"The cluster is dominated by translation-related terms (translation, regulation of translation) and maturation of SSU-rRNA, pointing to a ribosome/translation-focused group. While some outlier terms touch on RNA processing and exocytosis, the core signal is protein synthesis control and ribosome maturation.","confidence":"Medium","size":7,"edges":11,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0046898","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0033119","count":1}]},{"hash":"376629097043765957","title":"mRNA processing and export","description":"The cluster is dominated by GO terms related to RNA maturation and trafficking, including mRNA splicing via the spliceosome, polyadenylation, and mRNA export from the nucleus, which together point to a core function in RNA processing and transport rather than membrane transport roles. While some transport terms (xenobiotic and vitamin transmembrane transport) appear, they are less central to the shared function of the cluster. Overall, the dominant theme is RNA metabolism.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0098789","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0035461","count":2}]},{"hash":"1824521838603409936","title":"Neuronal Ion Transport and Signaling","description":"The cluster\u2019s GO terms center on transmembrane ion transport (sodium, calcium, potassium) and synaptic signaling (GABA pathway, excitatory postsynaptic potential), with behavioral readouts like locomotory behavior and startle response, and circadian sleep regulation. This points to proteins involved in neuronal excitability and synaptic communication that influence movement and rhythms, hence a label focused on neuronal ion transport and signaling.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0007214","count":2},{"id":"GO:0001661","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0007626","count":2}]},{"hash":"389588444632256644","title":"Cardiac Development and Conduction","description":"The cluster shows enrichment for GO terms tied to heart function, including AV node action potential, regulation of heart rate by cardiac conduction, and depolarization/repolarization of atrial and ventricular cardiac muscle cells, suggesting a core theme around cardiac electrophysiology. There are also broader developmental terms (multicellular organism development, spinal cord development, ossification, spermatid differentiation), which may reflect the developmental context of the heart and organogenesis. Overall, the set appears best described as cardiac development with emphasis on conduction, hence the label.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071481","count":2},{"id":"GO:0007289","count":2},{"id":"GO:0061000","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0086016","count":2}]},{"hash":"2288575500370505008","title":"Keratinization and Epidermal Differentiation","description":"The cluster shows enrichment for keratinization and keratinocyte differentiation, pointing to an epidermal/skin-related role. While other terms touch on glands, coagulation, and tissue remodeling, the strongest and most specific signals are epidermal processes, suggesting a group of structural, barrier-related proteins.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":2},{"id":"GO:0042628","count":2},{"id":"GO:0032471","count":2},{"id":"GO:0048536","count":2},{"id":"GO:0060662","count":2}]},{"hash":"1536634467555705812","title":"Diverse membrane transporters (ions and metabolites)","description":"The top GO terms point to transmembrane transport of a variety of substrates (fructose, L-aspartate, bicarbonate, chloride, oxalate, sulfate) and related conditions like intracellular pH elevation, indicating the cluster centers on membrane transporter activity with diverse substrates. A few terms (sensory perception of sound, sporulation) are outliers, but the dominant pattern supports a transporter-focused group.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015755","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0089712","count":2},{"id":"GO:0015701","count":2},{"id":"GO:1902476","count":2}]},{"hash":"1189035532299077783","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0031100","count":1},{"id":"GO:0006189","count":1},{"id":"GO:0019240","count":1},{"id":"GO:1903718","count":1}]},{"hash":"1323170750616426471","title":"Telomere Regulation and Signaling","description":"The top GO terms include telomere capping and telomere maintenance via telomerase, paired with general signaling processes (intracellular signal transduction) and diverse cellular activities (mRNA processing, adipogenesis, cell migration, thermoception). This suggests a cluster centered on regulatory roles and signaling, with telomere regulation as a core thread, but the presence of varied functions reduces cohesion. So the name reflects the strongest shared themes, but confidence is Low. ","confidence":"Low","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904355","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0045736","count":2}]},{"hash":"453445199479744796","title":"Transcription and Cell Cycle Regulators","description":"The top GO terms show strong representation of DNA-templated transcription and the mitotic cell cycle, with supporting terms related to chromosome alignment, development, and signaling. This suggests proteins primarily involved in transcriptional regulation and cell division, with auxiliary roles in development and various signaling pathways. Therefore, a concise label capturing the core theme is \"Transcription and Cell Cycle Regulators.\" ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0051311","count":3},{"id":"GO:1990001","count":3},{"id":"GO:0060712","count":3}]},{"hash":"2012506947944768839","title":"Growth and Development Regulation","description":"The top GO terms cluster around regulation of growth signaling (IGF receptor signaling, cell growth), angiogenesis, limb development, and tissue adhesion/remodeling, pointing to a cohesive theme of coordinating growth and developmental processes; a few peripheral/obsolete terms are present but do not override the core pattern.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043569","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0001558","count":2},{"id":"GO:0019800","count":2},{"id":"GO:0060173","count":2}]},{"hash":"2021003729982260685","title":"Mitochondrial Metabolite Transporters","description":"The top GO terms cluster around transport of various metabolites and nucleotides across membranes, especially into and out of mitochondria (e.g., ADP transport, deoxynucleotide transport, alpha-ketoglutarate transport, pyrimidine nucleotide import into mitochondrion, pyridoxal phosphate transport, magnesium ion export from mitochondrion). This suggests the proteins function as mitochondrial metabolite transporters. A couple terms (cellular response to insulin stimulus, response to fatty acid) reflect broader metabolic regulation but do not contradict the transport-centric theme.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0015866","count":4},{"id":"GO:0097274","count":4},{"id":"GO:1990519","count":4}]},{"hash":"116985658575173582","title":"Ubiquitin-Dependent Proteolysis and NF-\u03baB Signaling","description":"These proteins cluster around ubiquitin-mediated protein degradation (including K48, K63, K6 linkages and ERAD) and signaling, with GO terms pointing to NF-\u03baB activation and I\u03baB phosphorylation, plus regulation of JNK and necroptosis. The consistent emphasis on ubiquitination and downstream inflammatory/stress signaling supports a cohesive functional theme rather than unrelated processes.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0009048","count":3},{"id":"GO:0070936","count":3},{"id":"GO:0060546","count":3},{"id":"GO:0046328","count":3}]},{"hash":"2241805517987291020","title":"RNA splicing and translation initiation regulation","description":"The cluster\u2019s top GO terms center on mRNA splicing via the spliceosome and regulation of translation initiation, including preinitiation complex formation and translation reinitiation (also IRES-dependent viral translation). This points to a shared theme of post-transcriptional gene expression control encompassing both splicing and translation processes.","confidence":"High","size":7,"edges":15,"triangles":16,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0006378","count":4}]},{"hash":"1952308304447387684","title":"Calcium-Dependent Vesicle Trafficking","description":"This cluster centers on calcium signaling and vesicle dynamics: terms for calcium ion transport and cellular response to calcium, paired with regulation of synaptic vesicle endocytosis and platelet degranulation, point to Ca2+-driven exo/endocytosis. Additional terms related to NFAT signaling and cell shape suggest downstream signaling and cytoskeletal coordination of trafficking, while a Golgi-associated N-glycan processing term reflects the trafficking machinery context. Overall, the proteins likely function together in calcium-regulated membrane trafficking and vesicle cycling.","confidence":"Medium","size":7,"edges":18,"triangles":23,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":2},{"id":"GO:0070588","count":1},{"id":"GO:0071277","count":1},{"id":"GO:0019800","count":1},{"id":"GO:0072286","count":1}]},{"hash":"725481754095681079","title":"Plant sugar metabolism and storage","description":"The top GO terms center on carbohydrate metabolism in plants\u2014inulin, raffinose, and sucrose catabolic processes, plus carbohydrate storage\u2014indicating a primary theme around plant sugar metabolism. Additional terms about gibberellin and karrikin responses suggest related hormone-mediated growth and stress signaling, which can accompany metabolic shifts. A few unrelated terms exist, but the dominant signal supports a plant carbohydrate metabolism and storage cluster.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902927","count":1},{"id":"GO:0034484","count":1},{"id":"GO:0071370","count":1},{"id":"GO:0052576","count":1},{"id":"GO:0005987","count":1}]},{"hash":"2287889394392431147","title":"Dopaminergic Signaling and Temperature/Sensory Response","description":"The cluster combines dopamine-related neural signaling (dopaminergic synaptic transmission; regulation of dopamine metabolic process) with sensory and thermoregulatory cues (phototransduction, cellular response to temperature stimulus, heat generation, pain perception). This suggests proteins involved in temperature/light\u2013sensitive neural processing modulated by dopamine, with some metabolic thermogenesis context; a cohesive theme around dopamine-mediated sensory signaling and temperature responses. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0018298","count":5},{"id":"GO:0007603","count":5}]},{"hash":"2281773732790432215","title":"Astrocyte Calcium Signaling and NFAT Activation","description":"The terms cluster around calcium ion release and signaling, calcium transport, phosphoinositide signaling, caffeine response, and astrocyte activation, with downstream calcineurin-NFAT signaling. This indicates a calcium-dependent signaling module in astrocytes, including NFAT activation, supporting the chosen label.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051281","count":3},{"id":"GO:0010800","count":3},{"id":"GO:0007223","count":3},{"id":"GO:0070588","count":3},{"id":"GO:0071277","count":3}]},{"hash":"1174742576928278582","title":"Peripheral nervous system development","description":"The top GO terms cluster around neuronal differentiation (somatic motor neuron differentiation), neurofilament cytoskeleton organization, and Schwann cell dynamics, which together point to development and maintenance of the peripheral nervous system and neuron\u2013glia interactions. Additional terms related to ECM and lipid signaling provide supportive context for neural tissue environment. Therefore, Peripheral nervous system development is a plausible, cohesive label for this cluster.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002238","count":1},{"id":"GO:0032964","count":1},{"id":"GO:0044257","count":1},{"id":"GO:0060052","count":1},{"id":"GO:1905045","count":1}]},{"hash":"638208002331202191","title":"Ubiquitin-Dependent Proteolysis in Cell Cycle","description":"Dominant terms cluster around ubiquitin-mediated protein degradation, including neddylation, SCF- and APC/C-dependent ubiquitination, and general ubiquitin-dependent proteolysis, all tied to cell division and mitotic progression. This coherent theme supports a role in regulating cell cycle transitions via targeted protein degradation, despite a few peripheral terms. ","confidence":"High","size":7,"edges":10,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045116","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0031145","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1044003573552182883","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0098789","count":1},{"id":"GO:0006364","count":1},{"id":"GO:0034247","count":1},{"id":"GO:0034414","count":1}]},{"hash":"393832553874933816","title":"Fatty acid beta-oxidation and energy metabolism","description":"The top GO terms point to multiple steps of fatty acid breakdown (acyl-CoA oxidase/dehydrogenase, medium-chain FA catabolism) and carnitine-mediated FA transport, all central to beta-oxidation and energy production. Related terms like prostaglandin metabolism and starvation response support a lipid-oxidation\u2013driven metabolic state. The cluster appears to group a cohesive lipid catabolic module rather than disparate processes.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033540","count":2},{"id":"GO:0033539","count":2},{"id":"GO:0051793","count":2},{"id":"GO:0019254","count":2},{"id":"GO:0006574","count":2}]},{"hash":"1247553400895978914","title":"Mitochondrial Metabolite Transport","description":"The top GO terms are dominated by transport activities, especially import/export of nucleotides, cofactors, and metabolites into or out of mitochondria (e.g., pyrimidine nucleotides into mitochondrion, deoxynucleotide transport, alpha-ketoglutarate transport, magnesium export from mitochondrion), with additional related transport and metabolic regulation terms. This cohesive pattern points to a cluster centered on mitochondrial metabolite/cofactor transport functions.","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0015866","count":3},{"id":"GO:0097274","count":3},{"id":"GO:1990519","count":3}]},{"hash":"2148627605848121379","title":"Redox and prostaglandin signaling in neural development","description":"This cluster centers on prostaglandin biosynthesis alongside redox homeostasis and CNS development, with accompanying signaling regulation terms (ERK/JNK). The combination suggests a theme where lipid mediators and redox balance influence neural development and related signaling pathways.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":5},{"id":"GO:0045454","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0006808","count":3},{"id":"GO:0031100","count":3}]},{"hash":"1280208302231346571","title":"Immune Response and Lymphocyte Development","description":"Cluster shows a strong representation of innate and adaptive immune terms (innate immune response, defense response to virus, V(D)J recombination, spleen development) indicating a theme centered on vertebrate immune system and lymphocyte maturation. Some non-immune terms (peroxisome import, histone turnover, ubiquitin ERAD) may reflect multi-function proteins or pleiotropy, but the dominant signal is immune-related. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0016558","count":4},{"id":"GO:0033151","count":3}]},{"hash":"944896164893629558","title":"ER quality control and innate immune signaling","description":"Proteins here show connections to ER-associated degradation and ER stress (ERAD, unfolded protein maintenance) and to regulation of innate immune pathways (NF-kappaB, TLR3, LPS signaling, GM-CSF) as well as autophagy, suggesting a common theme where protein quality control interfaces with immune signaling and inflammatory responses. Some terms are obsolete, but the non-obsolete terms point to this ER stress\u2013immune regulation axis.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0051092","count":3},{"id":"GO:1901097","count":3},{"id":"GO:0034140","count":3},{"id":"GO:1904378","count":2}]},{"hash":"384309558531793298","title":"RNA processing and methylation enzymes","description":"The cluster is dominated by GO terms for various methylation activities (rRNA, tRNA, protein, peptidyl modifications, histone where present) and RNA processing steps (mRNA splicing, cap formation, RNA editing). This points to a set of methyltransferases and associated factors involved in RNA maturation and related post-translational modifications, with some epigenetic-related activity reflected by histone methylation terms.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0006479","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0035572","count":1}]},{"hash":"887713279053068824","title":"Neurodevelopment","description":"This cluster is dominated by neural and embryonic development terms (forebrain development, neural tube closure, multicellular organism development, skeletal system development). There are also cell-cycle and ER-stress\u2013related terms, but they are secondary to the developmental signals. The label Neurodevelopment captures the main theme with high confidence.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0070059","count":2}]},{"hash":"808462952292006782","title":"Neural development and proteoglycan metabolism","description":"This cluster centers on brain development and neural-related processes (brain development, cerebellar Purkinje cell layer development, visual learning) and extracellular matrix components (keratan sulfate proteoglycan biosynthetic and proteoglycan metabolic processes). The combination suggests a theme of neural development tied to proteoglycan synthesis/metabolism, with some ancillary signaling terms possibly reflecting broader tissue remodeling. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":2},{"id":"GO:0070970","count":2},{"id":"GO:0007420","count":2},{"id":"GO:1902176","count":2},{"id":"GO:0008542","count":2}]},{"hash":"1556159047027254599","title":"Unknown","description":"The top GO terms are highly diverse (glucocorticoid response, learning, lipid and carbohydrate metabolism, plant-specific biosynthetic processes, retina development) with no clear unifying function or pathway. The lack of edges and the presence of many disparate terms suggest the proteins do not share a coherent common biological role, so there isn\u2019t a reliable, specific label beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051384","count":4},{"id":"GO:0007612","count":4},{"id":"GO:0090122","count":4},{"id":"GO:0051593","count":4},{"id":"GO:0019441","count":4}]},{"hash":"322359417388766073","title":"Notch Signaling in Development","description":"Top terms include positive and negative regulation of Notch signaling and several development-related processes (somitogenesis, leg segmentation, intestinal development), suggesting a Notch-mediated developmental theme. However, other terms (DNA integration, B cell differentiation, obsolete annotations) and lack of edges indicate only tentative coherence among the members. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0002315","count":1},{"id":"GO:1902367","count":1},{"id":"GO:0036011","count":1},{"id":"GO:0007143","count":1}]},{"hash":"2113437573598426113","title":"Acetylation of polyamines and N-terminal peptides","description":"Most top GO terms describe acetylation events, including spermidine/spermine/putrescine acetylation and N-terminal protein acetylation. This suggests a cluster centered on acetyltransferase-mediated modifications, spanning both polyamine metabolism and protein N-terminal acetylation, with melatonin biosynthesis and angiogenesis terms likely connected through acetylation-related pathways.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006041","count":7},{"id":"GO:0032919","count":7},{"id":"GO:0001525","count":7},{"id":"GO:0017198","count":7},{"id":"GO:0061606","count":7}]},{"hash":"1251300049186158440","title":"Peptide maturation and LDL receptor pathways","description":"The top GO terms cluster around processing and maturation of peptide hormones and neuropeptides (insulin processing, enkephalin processing, peptide pheromone maturation, nerve growth factor production) and related regulation of receptor activity/trafficking (LDL receptor catabolic processes, receptor binding, receptor recycling). This suggests a shared theme of peptide maturation linked with receptor signaling and turnover, though development-related terms appear less central. ","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1905596","count":2},{"id":"GO:0032805","count":2},{"id":"GO:0007354","count":2},{"id":"GO:0032802","count":2},{"id":"GO:1905598","count":2}]},{"hash":"390522183574429294","title":"Calcium signaling and vesicle trafficking","description":"These proteins cluster around calcium-dependent signaling and membrane trafficking: multiple GO terms point to calcium ion transport and cellular responses to calcium, and several terms involve vesicle dynamics and signaling (phosphatidylinositol-mediated signaling, synaptic vesicle endocytosis, platelet degranulation, thrombopoietin signaling). Calcineurin-NFAT regulation and protein dephosphorylation further tie to calcium-activated phosphatase activity. While a kidney development term appears, the dominant theme is calcium-driven signaling linked to vesicle regulation, suggesting a cohesive calcium- and vesicle-trafficking module.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":3},{"id":"GO:0070588","count":2},{"id":"GO:0071277","count":2},{"id":"GO:0072286","count":2},{"id":"GO:0002576","count":2}]},{"hash":"233681313654245099","title":"Platelet Activation and Coagulation Regulation","description":"This cluster is dominated by terms related to platelet activation, IL-10 production, chemokine production, blood coagulation, and regulation of complement/fibrinolysis, pointing to a cohesive theme of immune\u2013vascular signaling and coagulation control. A few terms (photosynthesis, smooth septate junction assembly) appear as outliers, likely annotation noise, but the core terms support a platelet/coagulation\u2013immune regulation theme.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0010572","count":4},{"id":"GO:0032613","count":4},{"id":"GO:0090197","count":3},{"id":"GO:0007597","count":3},{"id":"GO:0060244","count":3}]},{"hash":"2176808368603390041","title":"Unknown","description":"The terms include immune signaling (Fc-epsilon receptor signaling, IL-4 production, susceptibility to T cell cytotoxicity), apoptosis, and tumor cell detection, but also neuronal signaling and metabolic processes (trans-synaptic signaling, SA node action potential, cholesterol biosynthesis, glucose response). These do not converge on a single coherent function, so a specific label cannot be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":2},{"id":"GO:0060370","count":1},{"id":"GO:0097194","count":1},{"id":"GO:0002355","count":1},{"id":"GO:0032633","count":1}]},{"hash":"106504750687233975","title":"Multitissue development and morphogenesis","description":"Top terms indicate differentiation across neural, muscular, reproductive tissues and organ morphogenesis, with supporting cytoskeletal remodeling; together they suggest a shared theme of developmental processes shaping diverse tissues. Confidence reflects this broad, multisystem developmental connection.","confidence":"Medium","size":6,"edges":12,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:1904948","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0045805","count":2},{"id":"GO:0010735","count":2}]},{"hash":"2092341778979194480","title":"Unknown","description":"The GO terms are highly diverse, spanning cell cycle and division with plant secondary metabolite biosynthesis, xenobiotic and antibiotic metabolism, and even bacterial cell wall processes. There is no clear unifying function or pathway linking these six proteins, so a cohesive label cannot be assigned beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0002175","count":1},{"id":"GO:0033330","count":1},{"id":"GO:0052697","count":1}]},{"hash":"1675313487617710539","title":"Inflammation and tissue repair","description":"Mainly reflects inflammatory and regenerative processes: LPS response, response to toxic substances, cyclooxygenase pathway, and type II pneumocyte differentiation point to immune activation and lung tissue repair; organ regeneration reinforces this theme, despite some outlier terms (auxin signaling).","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031100","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006808","count":2}]},{"hash":"2255143345187504597","title":"Broad Stress Response Signaling","description":"The cluster shows a mix of GO terms related to responses to starvation and nutrient regulation, hormone signaling (auxin), regeneration, inflammation (cyclooxygenase pathway, LPS response), oxidative processes, and muscle relaxation. This diversity suggests proteins involved in general signal transduction and stress-responsive pathways rather than a single, cohesive biological process, across different biological contexts. ","confidence":"Medium","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042594","count":4},{"id":"GO:0006808","count":3},{"id":"GO:0009734","count":3},{"id":"GO:0031100","count":3},{"id":"GO:2000469","count":3}]},{"hash":"2223348768697691969","title":"Bacterial fatty acid and menaquinone biosynthesis","description":"This cluster is dominated by GO terms for menaquinone biosynthesis and various fatty acid metabolic processes (long-chain, very long-chain, medium-chain), fatty acid import, and related CoA metabolism, suggesting a cohesive theme of bacterial lipid energy metabolism and quinone biosynthesis. Some terms like bioluminescence and seed coat development may reflect broader annotations or cross-talk, but the core signal points to lipid/quinone-related bacterial pathways.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":4},{"id":"GO:0044539","count":4},{"id":"GO:0043041","count":4},{"id":"GO:0000038","count":4},{"id":"GO:0008218","count":4}]},{"hash":"2049398576952353132","title":"Mitotic progression and chromatin regulation","description":"The top GO terms cluster around cell division and mitotic progression (cell division; metaphase/anaphase transition) and chromatin-related processes (histone modification, K11-linked ubiquitination), suggesting a theme of mitotic control and chromatin dynamics. Some terms (interferon response, metal ion response, glucocorticoid signaling) are more peripheral and likely noise, but the core signals point to cell-cycle regulation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0046661","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0010288","count":2},{"id":"GO:2000324","count":2}]},{"hash":"348778940569757267","title":"Bacterial lipid and antimicrobial biosynthesis","description":"The terms are dominated by lipid biosynthesis (glycolipid, phospholipid) and specialized bacterial pathways (bacillithiol biosynthesis, antibiotic biosynthesis), suggesting a module involved in producing lipid components and antimicrobial compounds in bacteria. A couple of sugar-related responses appear but are less central to the core theme. Overall, the cluster aligns best with bacterial biosynthetic processes rather than a single eukaryotic pathway.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0009247","count":3},{"id":"GO:0008654","count":2},{"id":"GO:0033577","count":2},{"id":"GO:0009744","count":2}]},{"hash":"1522862006215908138","title":"Lipid and xenobiotic metabolism","description":"Prostaglandin biosynthesis and lipid catabolic processes, together with xenobiotic catabolic pathways (dibenzo-p-dioxin, camphor), point to a cluster of proteins involved in lipid metabolism and detoxification.","confidence":"High","size":6,"edges":10,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":3},{"id":"GO:0042994","count":2},{"id":"GO:0060316","count":2},{"id":"GO:0006641","count":2},{"id":"GO:0032259","count":2}]},{"hash":"986251136821700195","title":"Bacterial metabolism and secondary metabolite biosynthesis","description":"The terms point to a metabolic cluster spanning primary catabolic pathways (fatty acid beta-oxidation, valine and phenylacetate catabolism) and secondary metabolite biosynthesis (antibiotics, menaquinone and phylloquinone). That combination is characteristic of microbial metabolism, where energy generation coexists with production of cofactors and antibiotics.","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0006574","count":3},{"id":"GO:0010124","count":3}]},{"hash":"2158505011700626263","title":"Ribosome Biogenesis and Translation","description":"The GO terms cluster around ribosome biogenesis (ribosome biogenesis, ribosomal small subunit biogenesis), translation (translation, cytoplasmic translation), and tRNA modification, indicating a core role in making ribosomes and carrying out protein synthesis. The inclusion of cell cycle, cell division, and cell septum assembly terms suggests this machinery is coordinated with bacterial cell division. Some regulation of translation under amino acid starvation is noted, but the central theme remains ribosome production and translation linked to cell division.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006412","count":2},{"id":"GO:1903833","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0042274","count":2}]},{"hash":"2146252612271736381","title":"Diverse organic compound metabolism","description":"The top GO terms span thiamine biosynthesis, tetrahydrofolate metabolism, central metabolism (2-oxoglutarate), nucleoside catabolism (thymidine), and various hydrocarbon/halogen catabolic processes, along with redox homeostasis. This pattern suggests proteins involved in metabolism across a broad set of organic substrates rather than a single pathway, implying a cluster with diverse metabolic capabilities. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0009228","count":3},{"id":"GO:0046653","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0043448","count":2},{"id":"GO:0006103","count":2}]},{"hash":"2253364150170209992","title":"Developmental morphogenesis and cell adhesion","description":"The enriched terms point to organ development and tissue patterning (lung branching morphogenesis, heart valve formation, planar orientation) along with cell\u2013cell adhesion (homophilic/heterophilic) and guidance/synaptic assembly processes, suggesting a cluster of proteins involved in developmental morphogenesis coordinated by adhesion and guidance cues across multiple tissues.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060488","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0007416","count":4},{"id":"GO:0060490","count":4},{"id":"GO:0007156","count":4}]},{"hash":"1969170117156730098","title":"Transcriptional regulation and chromatin modification","description":"This cluster centers on gene expression control, with strong signals for DNA-templated transcription, cell-cycle\u2013related regulation, and histone modification, plus ubiquitin-mediated control and nuclear receptor signaling. The outliers (ureter development, male sex differentiation) are less central but may reflect broader developmental regulation; overall the shared theme is transcriptional regulation via chromatin state and protein turnover.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0046661","count":2},{"id":"GO:0008277","count":2},{"id":"GO:0070979","count":2}]},{"hash":"358870208099167577","title":"Oxidative phosphorylation and mitochondrial respiration","description":"Top GO terms strongly indicate mitochondrial energy metabolism: proton transmembrane transport and mitochondrial electron transport from ubiquinol to cytochrome c, along with aerobic respiration. While a few terms relate to nucleotide biosynthesis or development, the dominant pattern points to the respiratory chain and ATP generation, justifying this label.","confidence":"High","size":6,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":3},{"id":"GO:0006122","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0046939","count":1},{"id":"GO:0046039","count":1}]},{"hash":"1394433430409284715","title":"Vitamin and fatty acid biosynthesis","description":"The cluster is enriched for vitamin/cofactor biosynthesis (menaquinone, phylloquinone, cobalamin) and fatty acid metabolism (beta-oxidation and homeostasis), with additional signals for antibiotic biosynthesis and aromatic compound catabolism. These collectively point to a functional group involved in producing or processing lipids and vitamins, rather than a single signaling pathway. A few terms like Notch signaling and kynurenic acid biosynthesis are less representative, likely annotation noise.","confidence":"Medium","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0010124","count":2},{"id":"GO:0042372","count":2}]},{"hash":"1019543230234279889","title":"Angiogenesis and vascular morphogenesis","description":"This cluster's terms cluster around integrin signaling, ECM organization (collagen fibrils), endothelial and fibroblast migration, and sprouting angiogenesis, all core to vascular development and vessel remodeling. Also linked are axon guidance-related cues and Hedgehog pathway regulation, which can intersect with vascular patterning, supporting a role in angiogenic signaling and ECM interactions.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007229","count":4},{"id":"GO:0048846","count":4},{"id":"GO:0060982","count":4},{"id":"GO:0045880","count":4},{"id":"GO:0030199","count":4}]},{"hash":"1093471458374114506","title":"N-terminal and polyamine acetyltransferases","description":"The top GO terms cluster around acetylation reactions, including N-terminal acetylation of various residues (peptidyl-Met/Ser) and acetylation of polyamines (putrescine, spermidine, spermine). This strongly suggests the proteins function as acetyltransferases with diverse substrates. A few terms like melatonin biosynthesis or glucosamine metabolism are peripheral notes rather than core themes. Confidence: High","confidence":"","size":6,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006041","count":2},{"id":"GO:0032919","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0017198","count":2},{"id":"GO:0061606","count":2}]},{"hash":"1128713102774673632","title":"Methylation Enzymes (RNA and Protein)","description":"The top GO terms cluster around methylation activities, including tRNA methylation and protein methylation, plus a general methylation term, suggesting enzymes that transfer methyl groups. There are several outliers (dopamine/catecholamine metabolism and lignin biosynthesis) that don\u2019t clearly fit, but the strongest signal is methylation-related functions, so the label reflects the core theme of the cluster.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006584","count":1},{"id":"GO:0009236","count":1},{"id":"GO:0042420","count":1},{"id":"GO:0030488","count":1}]},{"hash":"1637576180960526350","title":"Unknown","description":"The GO terms cover disparate areas (GPCR signaling, immune responses, thermoception, development) with no dominant function, and the sparse connections imply no cohesive cluster-level function.","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0070671","count":2},{"id":"GO:0050955","count":2},{"id":"GO:0034162","count":2}]},{"hash":"2246476053928294500","title":"Ribosome Biogenesis and Cell Division Proteins","description":"The top GO terms are strongly centered on ribosome biogenesis, ribosomal subunit export from the nucleus, and tRNA modification, alongside cell division and septum assembly, which points to nucleolar/translation machinery and division-related proteins as the core theme. Immune defense terms are present but appear ancillary, suggesting annotation noise rather than a shared immune function across the cluster.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0050829","count":5},{"id":"GO:0000055","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0006400","count":5}]},{"hash":"694629191405078001","title":"Transmembrane Transporters for Ions and Small Molecules","description":"The top GO terms point to transport across membranes for xenobiotics, vitamins, and various ions (xenobiotic transport, vitamin transport, potassium ion transport, molybdate transport, cysteine transport). This suggests a cluster of membrane transporter proteins with a broad substrate range. A couple of outlier terms (bacteriocin immunity, negative regulation of endoribonuclease activity) may be less related or reflect ancillary regulatory roles, but the core signal is transport activity. Confidence: Medium","confidence":"Medium","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":6},{"id":"GO:0035461","count":6},{"id":"GO:0042908","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0010949","count":3}]},{"hash":"276095717358005183","title":"Cartilage ECM Organization and Chondrocyte Differentiation","description":"GO terms in this cluster point to extracellular matrix organization (collagen fibril organization), cartilage development (positive regulation of chondrocyte differentiation), and matrix remodeling (peptidyl-lysine oxidation, lysyl oxidase\u2013type processes). EMT and endocytosis terms suggest broader tissue remodeling and turnover of matrix components. The combination fits a theme of ECM assembly/remodeling in cartilage development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:2000483","count":3},{"id":"GO:0031638","count":3},{"id":"GO:0001837","count":3},{"id":"GO:0032332","count":3}]},{"hash":"1457887750667299562","title":"ECM remodeling and cell migration","description":"The cluster centers on extracellular matrix remodeling and cell movement, with themes of substrate-dependent migration, integrin signaling, metallopeptidase activity, and hyaluronan metabolism (plus cartilage morphogenesis). Immune and vascular components (extravasation, complement activation, coagulation, and T cell activation) are also present, suggesting ECM remodeling intertwined with immune cell trafficking and inflammatory responses. ","confidence":"Medium","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006929","count":5},{"id":"GO:0007229","count":5},{"id":"GO:1905050","count":5},{"id":"GO:0003429","count":5},{"id":"GO:0070208","count":5}]},{"hash":"602291540961854017","title":"Neuronal RNA Processing and Synaptic Regulation","description":"The cluster centers on RNA processing and nonsense-mediated decay, along with terms for dopamine secretion and regulation of GABAergic synaptic transmission, pointing to a neuronal RNA metabolism module that modulates synaptic signaling. Some DNA-related and viral process terms are present but appear peripheral to the main theme.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000184","count":2},{"id":"GO:0006265","count":2},{"id":"GO:0014059","count":2},{"id":"GO:0032228","count":2},{"id":"GO:0006307","count":1}]},{"hash":"242938094191611754","title":"Stress-Driven Inflammation and Apoptosis Regulation","description":"The top GO terms cluster around inflammatory signaling (positive regulation of chemokine production; production of molecular mediators in inflammatory response) along with cellular stress responses (unfolded protein response, ER stress-related apoptotic signaling) and control of apoptosis. A couple of metabolism-related terms appear but the dominant signal is stress- and inflammation-related regulation of cell survival, suggesting this cluster represents proteins coordinating stress responses with immune signaling.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006032","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0002532","count":2},{"id":"GO:0016226","count":1}]},{"hash":"1243829753076489499","title":"Signaling and morphogenesis","description":"The proteins in this cluster show enrichment for MAPK/JNK signaling, immune response, mechanotransduction, cell migration, integrin signaling, matrix remodeling, and developmental processes (cartilage morphogenesis and stamen formation). This spread suggests a broad role in signaling and tissue development rather than a single, cohesive pathway, so a label focused on signaling and morphogenesis captures the shared theme.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046330","count":3},{"id":"GO:0042088","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0032707","count":3},{"id":"GO:0006929","count":2}]},{"hash":"1446709253589228280","title":"Ribosome biogenesis and RNA processing","description":"This cluster is dominated by RNA processing and ribosome assembly processes: maturation of SSU-rRNA and snoRNA release from pre-rRNA, along with mRNA splicing and nuclear mRNA decay. Additional terms point to chromatin remodeling and transcription start-site regulation, suggesting a broader role in nuclear gene expression control. Thus, a combined label of ribosome biogenesis and RNA processing best fits the shared functions.","confidence":"Medium","size":6,"edges":11,"triangles":10,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000462","count":5},{"id":"GO:1990417","count":5},{"id":"GO:0071042","count":5},{"id":"GO:0043044","count":5},{"id":"GO:0042766","count":5}]},{"hash":"2293165384846992644","title":"Skeletal Development and Wnt Signaling Regulation","description":"This cluster centers on skeletal development, highlighted by embryonic cranial skeleton morphogenesis and growth plate chondrocyte growth, with additional support from negative regulation of canonical Wnt signaling. These terms together suggest a developmental trajectory focused on bone formation and cartilage growth, modulated by Wnt pathway activity. Other terms (DNA replication, apoptosis, glucose response, cholesterol biosynthesis, trans-synaptic signaling) appear as broader cellular processes present in many contexts but are less defining for this cluster\u2019s core theme.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0048701","count":4},{"id":"GO:0097194","count":3},{"id":"GO:0032633","count":3},{"id":"GO:0008285","count":3}]},{"hash":"360032804511105491","title":"Vertebrate neural and retinal development","description":"The top GO terms are heavily weighted toward nervous system and eye development (neural tube closure, forebrain development, retina development, and broader multicellular organism development). This suggests the cluster is enriched for proteins involved in vertebrate neural/retinal formation, despite a few outlier terms related to stress responses and general assembly; overall, the dominant theme is neural and retinal developmental processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0001843","count":3}]},{"hash":"1493837775156043961","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000462","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0000480","count":3}]},{"hash":"979949589145112713","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071630","count":1},{"id":"GO:0006458","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0070389","count":1}]},{"hash":"36629468652455655","title":"Proteostasis and ribosome biogenesis","description":"The terms cluster around protein quality control (ubiquitin-dependent ERAD, aggresome assembly, autophagy regulation) and components of ribosome production (translation, small subunit ribosome assembly, rRNA maturation), suggesting a cohesive theme of maintaining protein homeostasis and ribosome biogenesis, despite some outlier terms.","confidence":"High","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0006357","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0014070","count":3}]},{"hash":"568777028324681639","title":"Tissue Development and Cell Adhesion Signaling","description":"This cluster includes GO terms for cell-matrix adhesion, cell-cell adhesion, and basement membrane development, along with sprouting angiogenesis and endocardial development, as well as Hedgehog pathway regulation and thyroid hormone generation. The common thread is roles in tissue morphogenesis and adhesion-driven cell migration, mediated by diverse signaling pathways, rather than a single function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031104","count":5},{"id":"GO:0007160","count":5},{"id":"GO:0007157","count":4},{"id":"GO:0045880","count":4},{"id":"GO:0001867","count":4}]},{"hash":"1867767937612581125","title":"RNA Processing and Transcription Regulation","description":"Top GO terms indicate strong involvement in RNA processing and gene expression control, including mRNA splicing via the spliceosome and prespliceosome assembly, and TRAMP-dependent tRNA surveillance. The presence of transcription regulation by RNA polymerase II and DNA topology/dna replication terms suggests coordination of transcription and nucleic acid metabolism. The embryonic cranial skeleton morphogenesis and defense response to Gram-positive bacteria terms may reflect broader developmental and immune contexts, but the core signature centers on RNA processing and transcription regulation.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0000717","count":2}]},{"hash":"824919386203259853","title":"Epidermal development signaling","description":"Top terms suggest coordinated epidermal development with signaling (GTPase and kinase activity), cytoskeletal remodeling (actin depolymerization), and proliferation (mitotic cell cycle, proliferation), with supporting roles for mRNA transport and hypoxia response during tissue formation.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0031954","count":4},{"id":"GO:0051028","count":4},{"id":"GO:0071456","count":4}]},{"hash":"377759607618280515","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0000398","count":2},{"id":"GO:1904570","count":2},{"id":"GO:0071038","count":2}]},{"hash":"1619978619313211251","title":"Complement and Coagulation Regulation","description":"The cluster shows a cohesive set of GO terms centered on innate immunity and hemostasis, including positive regulation of membrane attack complex activation, intrinsic coagulation, and regulation of complement activation. While a single term for photosynthesis appears, the dominant signal is immune/coagulation-related, suggesting a module involved in complement control and clotting regulation rather than a photosynthesis function.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001970","count":5},{"id":"GO:0007597","count":4},{"id":"GO:0060244","count":4},{"id":"GO:0015979","count":4},{"id":"GO:0090528","count":4}]},{"hash":"1150349882533535447","title":"Gametogenesis and Gonad Development with Transcriptional Regulation","description":"The terms point primarily to reproductive development (spermatogenesis, oogenesis, male gonad development) and sex-chromosome dosage compensation, with supporting signals of transcriptional regulation and chromatin-associated processes. This suggests proteins in a cluster tied to sex-specific germ cell formation and gonad development, modulated at the transcriptional level, despite some broader developmental terms present. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001649","count":2},{"id":"GO:0035264","count":1},{"id":"GO:0090230","count":1},{"id":"GO:0007549","count":1},{"id":"GO:0035023","count":1}]},{"hash":"1440475147370288314","title":"Unknown","description":"The top GO terms span diverse processes\u2014from mitotic cell cycle and DNA replication initiation to visual perception, brain development, metabolism, signaling, cell junction regulation, inflammation, and apoptosis\u2014showing no coherent shared function across the proteins. This suggests a heterogeneous or noisy annotation rather than a single, unified biological theme, so a meaningful label cannot be confidently assigned.","confidence":"","size":6,"edges":10,"triangles":6,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0007601","count":6},{"id":"GO:0097194","count":5},{"id":"GO:0071333","count":5},{"id":"GO:0006695","count":5}]},{"hash":"1047882328181762600","title":"Cardiac Development and Morphogenesis","description":"This cluster shows a clear enrichment for heart development and morphogenesis terms, including left/right axis specification, cardiac right ventricle formation, cardiac neural crest cell involvement in outflow tract morphogenesis, and ventricular trabecula myocardium morphogenesis. While a few terms (e.g., learning, IL-4 production) are unrelated to heart development, the strongest and most frequent GO terms point to a cohesive theme of cardiac development and morphogenesis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0042691","count":1},{"id":"GO:0019800","count":1},{"id":"GO:0070986","count":1}]},{"hash":"1035911173693473847","title":"NF-kappaB-Mediated Inflammatory Signaling","description":"This cluster centers on NF-kappaB pathway activation and inflammatory cytokine responses (interleukin-12, interleukin-8), with accompanying stress responses (oxidative stress, hypoxia) and xenobiotic/antibiotic reactions, suggesting a cohesive immune/inflammatory signaling program. The appearance of apoptosis-related terms fits stress-induced signaling rather than a developmental process, though one outlier term (head involution) likely reflects annotation noise. High","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070671","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0042542","count":2},{"id":"GO:0097194","count":2}]},{"hash":"58920057536277340","title":"Neural-immune signaling and development","description":"The GO terms center on signaling pathways (JNK cascade, TORC2) and immune responses (Th1, IL-23 regulation), alongside neural development and synaptic processes (hippocampus development, neuron apoptotic regulation, synaptic vesicle endocytosis) and membrane-related activities (phospholipid homeostasis). This suggests a cluster of proteins involved in signaling networks that link neural development/function with immune signaling and membrane dynamics, rather than a single specialized function. One term appears unrelated and likely noise, but the core theme remains coherent.","confidence":"Medium","size":6,"edges":9,"triangles":4,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":5},{"id":"GO:0042088","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0032707","count":5},{"id":"GO:0043525","count":5}]},{"hash":"1803448203726068400","title":"CNS development and axonogenesis signaling","description":"The set is dominated by neural-development terms (CNS development, axonogenesis), trans-synaptic signaling, and pathway regulation (BMP, Smoothened), indicating involvement in neural circuit formation and axon guidance. Vestibular morphogenesis and paranode region localization reinforce a nervous-system-centric role.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060116","count":4},{"id":"GO:0002175","count":4},{"id":"GO:0030336","count":4},{"id":"GO:0099557","count":4},{"id":"GO:0030513","count":4}]},{"hash":"489267700918599434","title":"Synaptic signaling and neuron development","description":"Most of the top GO terms point to synaptic structure and function (trans-synaptic signaling, synapse organization, transmission of nerve impulse) and neuronal growth (regulation of dendrite development), with one or two unrelated terms likely representing annotation noise. This suggests the proteins in this cluster mainly participate in synaptic connectivity and neuronal signaling, including modulation of sodium channel clustering. ","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0099557","count":5},{"id":"GO:1902771","count":5},{"id":"GO:0050808","count":5},{"id":"GO:1901491","count":5},{"id":"GO:0019226","count":5}]},{"hash":"165231302925578449","title":"Neural development and synaptic signaling","description":"This cluster is dominated by GO terms related to neural development and synaptic function, including CNS development, positive regulation of axonogenesis, trans-synaptic signaling, vestibular receptor morphogenesis, and signaling pathways (Smoothened/Hedgehog and BMP). These terms together point to neurite outgrowth, axon guidance, and synaptic modulation, with paranode localization reflecting axonal domain organization. While BMP/Hedgehog pathways are broader, their involvement here supports a cohesive neural-development/synaptic theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060116","count":6},{"id":"GO:0002175","count":6},{"id":"GO:0030336","count":6},{"id":"GO:0099557","count":6},{"id":"GO:0030513","count":6}]},{"hash":"897733974637981217","title":"Vascular and Neural Development","description":"The terms are dominated by angiogenesis and collagen fibril organization, with additional signals related to nervous system axon localization and regeneration, along with heart and other tissue development. This pattern suggests a developmental program coordinating vascular, neural, and extracellular matrix remodeling across tissues, rather than a single tissue-specific process.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0030199","count":3},{"id":"GO:2000352","count":3},{"id":"GO:0002175","count":2},{"id":"GO:0060739","count":2}]},{"hash":"1431774120924664185","title":"TGF-\u03b2/SMAD signaling and GI epithelium maintenance","description":"This cluster centers on regulation of SMAD signaling (including negative regulation) and epithelial biology, with multiple terms pointing to TGF-\u03b2/SMAD pathways, EMT control, and maintenance of GI epithelium, as well as related bile acid signaling. Immune-related terms (monocyte aggregation, mast cell activation) suggest broader signaling interplay, though the core theme remains epithelial homeostasis via SMAD/TGF-\u03b2 signaling. Some outlier terms (e.g., phenazine biosynthesis, forebrain neuron generation) may reflect annotation noise or pleiotropy rather than a shared function.","confidence":"Medium","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009405","count":2},{"id":"GO:0002047","count":2},{"id":"GO:0060394","count":2},{"id":"GO:0030277","count":2},{"id":"GO:0060392","count":2}]},{"hash":"1413154524883979635","title":"Vesicle Exocytosis and Protein Transport Regulation","description":"This cluster is most strongly associated with exocytosis and intracellular transport terms (negative regulation of synaptic vesicle exocytosis; positive regulation of calcium ion-dependent exocytosis; protein transport; intracellular transport of viral material), suggesting a theme around vesicle trafficking and release control. Some terms (e.g., mRNA splicing, chemotropism, obsolete regulations) are less coherent with this core, indicating possible heterogeneity or annotation noise. Overall, the dominant signal points to vesicle exocytosis and protein transport regulation.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010738","count":3},{"id":"GO:2000301","count":2},{"id":"GO:0051489","count":2},{"id":"GO:0045956","count":2},{"id":"GO:0015031","count":2}]},{"hash":"903233140882037513","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":3},{"id":"GO:0032781","count":3},{"id":"GO:0006886","count":2},{"id":"GO:0071630","count":2},{"id":"GO:0006458","count":2}]},{"hash":"578743948636819798","title":"Developmental Signaling and Transcription Regulation","description":"The top GO terms cluster around developmental processes (multicellular organism growth, male sex differentiation, ureter development) and transcription/signaling regulation (DNA-templated transcription, regulation of GPCR signaling, glucocorticoid signaling). Together they suggest proteins that coordinate development through transcriptional control and signaling pathways, with additional regulatory processes (ubiquitination, DNA damage response) as broader context.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":3},{"id":"GO:0008630","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0046661","count":2}]},{"hash":"1686768592681515420","title":"Mitochondrial dynamics and maintenance","description":"I named it mitochondrial dynamics and maintenance because the cluster is dominated by mitochondrial-related processes: stress-induced mitochondrial fusion, mitochondrion inheritance, and regulation of cardiolipin metabolism, all pointing to control of mitochondrial morphology, distribution, and lipid composition. Some peripheral terms (ERAD, raft localization, ECM/adhesion, TLR3 signaling) may reflect broader protein roles or noise, but the core signal centers on mitochondrial regulation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:1900210","count":1},{"id":"GO:1903044","count":1},{"id":"GO:0060355","count":1},{"id":"GO:2000049","count":1}]},{"hash":"1367557358536446545","title":"DNA Repair and Nucleic Acid Metabolism","description":"The GO terms show a clear emphasis on nucleic acid maintenance: nucleotide-excision repair, base-excision repair, and DNA recombination, with depyrimidination supporting nucleotide processing. Spermidine biosynthesis can support DNA stabilization and repair, while chaperone-mediated assembly may assist damage-response complexes. A few terms about nitrogen use and ER polarization are present but appear ancillary to the dominant nucleic-acid\u2013related theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008295","count":2},{"id":"GO:0006289","count":1},{"id":"GO:0006284","count":1},{"id":"GO:0032074","count":1},{"id":"GO:0045008","count":1}]},{"hash":"1421755749567779090","title":"Cardiac and skeletal muscle development","description":"The cluster\u2019s top GO terms center on heart and skeletal muscle formation and morphogenesis (cardioblast migration, cardiac right ventricle formation, myoblast fate determination, skeletal muscle differentiation, neural crest involvement in outflow tract morphogenesis), with supporting signals from related neural development terms (oculomotor nerve development, regulation of synapse maturation). While some endocrine-related terms appear, the dominant theme is cardiogenic and myogenic differentiation.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0003326","count":6},{"id":"GO:0003219","count":6},{"id":"GO:0061309","count":6},{"id":"GO:0061102","count":6},{"id":"GO:0035914","count":6}]},{"hash":"917794729429207028","title":"Neural sensory signaling","description":"The top GO terms cluster around visual perception and neural communication (dopaminergic synaptic transmission, prepulse inhibition) and adrenergic signaling, pointing to a core theme of neuronal signaling and sensory processing, with some peripheral metabolic/immune annotations.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031649","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0060134","count":2},{"id":"GO:0019433","count":2}]},{"hash":"1504201028012054943","title":"Calcium-Driven Vesicle Trafficking and Secretion","description":"This cluster centers on calcium signaling and vesicle dynamics: multiple terms point to calcium ion transport and cellular responses, calcineurin-NFAT signaling, and GTPase-regulated processes, plus vesicle endocytosis and platelet degranulation, which are all tied to secretory and regulatory vesicles. N-glycan processing and a developmental term appear as supportive contextual processes in secretory pathways and organ development, respectively, but the dominant theme is calcium-dependent regulation of vesicle trafficking and secretion.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0070588","count":3},{"id":"GO:0071277","count":3},{"id":"GO:0072286","count":3},{"id":"GO:0051091","count":3}]},{"hash":"1200267367312907287","title":"Ubiquitin-regulated innate NF-\u03baB signaling","description":"The top GO terms indicate innate immune responses and defense against virus, with several entries pointing to positive regulation of canonical NF-kappaB signaling. Additionally, ubiquitination processes (K63-linked, autoubiquitination) suggest regulation of signaling pathways. While a few terms touch on development, the strongest, recurring theme is ubiquitin-modulated innate immune NF-\u03baB signaling.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0051092","count":2}]},{"hash":"403063667539826233","title":"RNA Splicing and Translational Regulation","description":"GO terms show strong emphasis on RNA processing and splicing (RNA splicing, alternative splicing via spliceosome, small-subunit processome assembly) along with regulation of translation (regulation of translational initiation, IRES-dependent viral initiation) and mRNA stability/modification, suggesting a cluster of proteins involved in post-transcriptional gene expression control at both RNA processing and translational levels.","confidence":"High","size":6,"edges":8,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:1903586","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0075522","count":2}]},{"hash":"559402126087246677","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002181","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0034476","count":1},{"id":"GO:0000973","count":1}]},{"hash":"2286412084283793246","title":"Meiotic Recombination and Oogenesis","description":"This cluster centers on meiotic processes: homologous chromosome pairing, meiotic recombination (including heteroduplex formation and mismatch repair), spindle midzone assembly, and oogenesis, with a DNA-damage\u2013response signal suggesting meiotic checkpoint involvement.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000712","count":1},{"id":"GO:0007144","count":1},{"id":"GO:0051257","count":1},{"id":"GO:0007129","count":1},{"id":"GO:0048477","count":1}]},{"hash":"575401168587227057","title":"GPCR Signaling Across Systems","description":"The terms cluster around GPCR-mediated signaling across multiple systems: adrenergic receptor signaling inhibiting adenylate cyclase, dopaminergic synaptic transmission, T cell chemotaxis via chemokine receptors, histamine-induced gastric acid secretion, vascular tone regulation by norepinephrine/epinephrine, and related locomotion and thermogenesis. This suggests the proteins function within GPCR pathways that modulate neuromodulation, immune cell movement, cardiovascular and digestive responses, and metabolic/behavioral outputs.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010818","count":3},{"id":"GO:0071881","count":3},{"id":"GO:0031649","count":3},{"id":"GO:0001963","count":3},{"id":"GO:0001697","count":3}]},{"hash":"335552563186587761","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0098789","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0019076","count":2},{"id":"GO:0000398","count":2}]},{"hash":"465010519586815204","title":"Co-translational ER targeting and translation initiation","description":"This cluster centers on SRP-dependent cotranslational targeting to membranes (ER), translation initiation and reinitiation, preinitiation complex formation, and ER-Golgi vesicle trafficking, suggesting proteins that function at the ribosome\u2013membrane interface and in early secretory pathway events; viral translation terms appear but still reflect general translation initiation pathways.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0006446","count":2}]},{"hash":"2078434475688922576","title":"Collagen Biosynthesis and ECM Remodeling with Inflammatory Signaling","description":"The top GO terms are dominated by collagen fibril organization and collagen biosynthetic process, pointing to extracellular matrix production. Added terms include both positive and negative regulation of angiogenesis, along with innate immune and inflammatory signals (complement activation, TNF production) and a cadmium-response stress term, suggesting a cluster of ECM remodeling proteins linked to vascular modulation and inflammatory signaling rather than a single, narrow function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0043152","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0045766","count":2}]},{"hash":"1854095927240415845","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000724","count":2},{"id":"GO:0070979","count":2}]},{"hash":"755766156452370244","title":"Redox Homeostasis and Xenobiotic Metabolism","description":"This cluster centers on redox balance and detoxification, with GO terms emphasizing cellular oxidant detoxification, redox homeostasis, and oxidoreductive processes. Additionally, several catabolic processes for various organic molecules (methylamine, camphor, dioxin, cholesterol) and processes like methylation and triglyceride metabolism suggest enzymes involved in xenobiotic and lipid metabolism. The common theme is metabolic processing of organic compounds coupled to maintaining redox state.","confidence":"Medium","size":6,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0030416","count":2},{"id":"GO:0006641","count":2}]},{"hash":"1806436033547115791","title":"Skeletal and neuromuscular development with immune signaling","description":"The terms show bone morphogenesis and mineralization (skeletal), neuromuscular processes (posture control, synaptic vesicle clustering), and immune responses (interferon responses, biotic stimulus), plus related cellular trafficking and metabolic signaling. Together this suggests a cluster around skeletal/neuromuscular development with cross-talk from immune signaling and trafficking pathways.","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060349","count":3},{"id":"GO:0035456","count":3},{"id":"GO:0046597","count":3},{"id":"GO:0044381","count":3},{"id":"GO:0035455","count":3}]},{"hash":"772314327068074405","title":"Apoptosis and Cytokine Signaling","description":"This cluster centers on apoptotic processes (execution phase, developmental apoptosis, and regulation of mitochondrial membrane permeability) and includes several cytokine-related signals (IL-12 response, IL-6 production regulation, responses to TGF-beta and dexamethasone). While a couple of terms like brain development and detection of bacterium are present, the dominant theme ties cell death regulation to immune/cytokine signaling pathways. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070671","count":1},{"id":"GO:1902109","count":1},{"id":"GO:0097194","count":1},{"id":"GO:0071560","count":1},{"id":"GO:0071549","count":1}]},{"hash":"1936428374902046170","title":"Sperm flagellum and cilium motility","description":"The cluster centers on ciliary/flagellar components\u2014axoneme assembly and motility\u2014with supporting microtubule modifications (polyglutamylation, polyglycylation) and regulation of cilium movement, particularly in sperm; one outlier term likely reflects annotation noise but does not override the core motif.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0030516","count":1},{"id":"GO:1905419","count":1},{"id":"GO:0018095","count":1},{"id":"GO:0003353","count":1}]},{"hash":"1281663067698252536","title":"Growth and signaling regulation","description":"The terms co-occur around how cells coordinate growth, survival, metabolism, and tissue organization via signaling networks. Key themes include proliferation control (negative regulation), growth factor signaling (PDGF), development (cartilage growth), junction assembly, and metabolic cues (glucose response, cholesterol synthesis). Some terms touch on apoptosis and immune signaling, but overall the cluster centers on regulators of cellular growth and signaling rather than a single pathway, hence this label. ","confidence":"Medium","size":6,"edges":6,"triangles":2,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097194","count":5},{"id":"GO:0032633","count":5},{"id":"GO:0008285","count":5},{"id":"GO:0099557","count":5},{"id":"GO:0071333","count":5}]},{"hash":"84241641352110407","title":"Membrane Transport of Sugars, Ions, and Neurotransmitters","description":"The dominant GO terms describe transmembrane transport for multiple substrates (glucose, nitrate, phosphate, xenobiotics, organic cations) and related vesicular processes (neurotransmitter loading). This points to a cohesive cluster of membrane transporter proteins moving diverse substrates across membranes, including vesicular transport of neurotransmitters.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":3},{"id":"GO:0042149","count":2},{"id":"GO:0044381","count":2},{"id":"GO:0070715","count":2},{"id":"GO:0006855","count":2}]},{"hash":"182432883744841875","title":"Collagen synthesis and ECM remodeling","description":"The proteins show enrichment for collagen biosynthesis and fibril organization, proteolysis, and cell adhesion/integrin signaling, pointing to extracellular matrix production and remodeling and cell-ECM interactions. Reproductive (ovulation) and angiogenesis-related terms (endothelial morphogenesis) reflect ECM remodeling in tissue remodeling contexts, supporting a cohesive ECM-assembly/remodeling theme. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0007155","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0007338","count":2}]},{"hash":"192174174774122222","title":"Unknown","description":"This cluster shows a highly diverse set of GO annotations (neural differentiation, learning, signaling pathways, development in multiple tissues, telomere maintenance, chromosomal localization) with no shared process across the proteins and no edges connecting them. Because there is no coherent functional theme tying the terms together, there is no meaningful label beyond Unknown; confidence None.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":1},{"id":"GO:0021773","count":1},{"id":"GO:0043507","count":1},{"id":"GO:0060197","count":1},{"id":"GO:1904357","count":1}]},{"hash":"689978838724906692","title":"Developmental signaling and growth regulation","description":"These GO terms cluster around signaling pathways that control development and tissue growth (Wnt and PDGF signaling, chondrocyte growth in growth plates, regulation of proliferation). There are also supporting cues from metabolism and synaptic signaling, with apoptosis/immune terms likely secondary. Overall, the dominant theme is signaling-driven growth/development regulation.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097194","count":6},{"id":"GO:0032633","count":6},{"id":"GO:0008285","count":6},{"id":"GO:0099557","count":6},{"id":"GO:0071333","count":6}]},{"hash":"1647003821008770237","title":"GPCR Signaling and Neuromodulation","description":"The top GO terms point to G protein-coupled receptor signaling and its downstream effects, including adrenergic, histaminergic, and dopaminergic signaling, as well as GPCR-mediated T cell chemotaxis. Associated outcomes like heat generation, vasoconstriction, locomotion, and reproductive processes suggest a cohesive role in neuromodulatory signaling that bridges neural, immune, and hormonal regulation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010818","count":4},{"id":"GO:0071881","count":4},{"id":"GO:0031649","count":4},{"id":"GO:0001963","count":4},{"id":"GO:0001697","count":4}]},{"hash":"99567856464701414","title":"Cell Growth and Signaling Regulation","description":"These proteins are linked to a spectrum of signaling and growth-related processes: apoptosis execution, IL-4 production, negative regulation of proliferation, trans-synaptic signaling, glucose response, cholesterol biosynthesis, chondrocyte growth, Wnt pathway modulation, PDGF receptor signaling, and tight junction assembly. The common thread seems to be participation in diverse signaling networks that govern cell fate, proliferation, and tissue growth across multiple contexts. ","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097194","count":4},{"id":"GO:0032633","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0099557","count":4},{"id":"GO:0071333","count":4}]},{"hash":"409714481570023942","title":"Unknown","description":"The top GO terms span mitochondrial apoptosis regulation, innate immune signaling, RNA splicing and processing, and some developmental processes, with no single cohesive function tying all six proteins together. This diversity makes it unclear what a unifying label would be.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001836","count":1},{"id":"GO:0043154","count":1},{"id":"GO:2001240","count":1},{"id":"GO:0051902","count":1},{"id":"GO:0010204","count":1}]},{"hash":"209297210850908436","title":"Protein N-terminal and polyamine acetylation","description":"The cluster\u2019s GO terms are dominated by acetylation-related processes: multiple N-terminal acetylation variants and various polyamine acetylations (putrescine, spermidine, spermine), plus histone H4 acetylation and melatonin biosynthesis involving acetylation steps. This suggests a unifying theme around acetylation of proteins and polyamines, with related metabolic contexts like angiogenesis. Confidence in this label is High.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006041","count":6},{"id":"GO:0032919","count":6},{"id":"GO:0001525","count":6},{"id":"GO:0017198","count":6},{"id":"GO:0061606","count":6}]},{"hash":"105131890775186395","title":"Inflammasome-Driven Cytokine Production","description":"The top terms point to innate immune activation with production of IL-18 and IL-1\u03b2, and NLRP3 inflammasome assembly, plus interferon signaling, indicating a cohesive theme of inflammasome-mediated cytokine processing. Supporting terms on Golgi/ER organization and oligomerization reflect the cellular machinery required for cytokine maturation and trafficking.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072616","count":3},{"id":"GO:0016320","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0007030","count":3},{"id":"GO:0071346","count":3}]},{"hash":"1512734482937911948","title":"Mitochondrial Metabolite Transporters","description":"The top GO terms are dominated by transport activities, especially across mitochondrial membranes (ADP transport, deoxynucleotide transport, pyrimidine nucleotide import into mitochondrion, alpha-ketoglutarate transport, pyridoxal phosphate transport, magnesium ion export from mitochondrion). This points to a cohesive theme of mitochondrial metabolite and cofactor transport, rather than signaling or structural roles. The occasional unrelated terms (e.g., insulin response) do not alter the main pattern. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":3},{"id":"GO:0032869","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0015866","count":2},{"id":"GO:1990519","count":2}]},{"hash":"229485816109206165","title":"Neural signaling and synaptic development","description":"The top GO terms point to neural signaling and synaptic regulation, notably regulation of synaptic plasticity by receptor localization to the synapse and regulation of ephrin receptor signaling. While a few terms pertain to broader developmental processes (e.g., lateral line development, hatching behavior), the recurrent theme is neural communication and its modulation, suggesting a cluster centered on neural signaling and synaptic regulation. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900383","count":2},{"id":"GO:1901187","count":2},{"id":"GO:0048899","count":1},{"id":"GO:0035187","count":1},{"id":"GO:0007323","count":1}]},{"hash":"301075582438263047","title":"Integrin signaling and ECM remodeling","description":"This cluster centers on extracellular matrix interactions and remodeling, as indicated by integrin-mediated signaling, calcium-independent cell\u2013matrix adhesion, hyaluronan metabolism, and metallopeptidase activity. The presence of cartilage morphogenesis and VEGF receptor signaling terms further ties the proteins to development-related ECM organization and cell migration. A few peripheral terms (e.g., arginyl-tRNA aminoacylation) are distinct from the core theme but do not alter the overall ECM/adhesion focus.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":2},{"id":"GO:1905050","count":2},{"id":"GO:0030212","count":2},{"id":"GO:0007161","count":2},{"id":"GO:0035987","count":2}]},{"hash":"1741251339804215069","title":"Tissue Development and Differentiation","description":"Top GO terms point to developmental and differentiation processes across multiple tissues (heart, fat cells, forebrain neurons, male gonad) rather than a single unified function. While there are signaling pathways listed (bile acid receptor signaling, TLR9 signaling, Fc-epsilon receptor\u2013related mast cell activation), these may reflect broader developmental or immune signaling contexts rather than a specific pathway. Overall, the cluster seems to group proteins linked to broad developmental/differentiation activity across tissues, justifying this label.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0045444","count":3},{"id":"GO:1900625","count":2},{"id":"GO:0021872","count":2},{"id":"GO:0038185","count":2}]},{"hash":"1548441043261619229","title":"Proteoglycan biosynthesis and sulfation","description":"The top terms cluster around glycosaminoglycan biosynthesis and sulfation, with multiple entries for keratan sulfate, dermatan sulfate, and heparan sulfate proteoglycan biosynthetic processes, plus protein sulfation and sulfate assimilation. This points to a cohesive theme of extracellular matrix proteoglycan production and modification, rather than isolated metabolic or signaling roles; other terms like estrogen catabolism or angiotensin regulation are likely incidental. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006068","count":2},{"id":"GO:0018146","count":2},{"id":"GO:0030205","count":2},{"id":"GO:0030210","count":2},{"id":"GO:0002002","count":2}]},{"hash":"1188567392345801460","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0098869","count":2},{"id":"GO:0009089","count":1},{"id":"GO:0006096","count":1},{"id":"GO:0051402","count":1}]},{"hash":"481593403742892474","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0045944","count":2},{"id":"GO:0033184","count":2},{"id":"GO:0052889","count":2}]},{"hash":"1496691113391824166","title":"Lipid Biosynthesis and Retinoid Hormone Metabolism","description":"The cluster shows strong enrichment for fatty acid elongation, very long-chain fatty acid biosynthesis, sphingolipid biosynthesis, and retinol/retinoic acid and glucocorticoid biosynthesis, indicating a cohesive theme around lipid and steroid/hormone metabolism. Occasional terms like regulation of transcription and antibiotic response are present but appear unrelated to the dominant lipid-centric signals, which justifies a lipid/hormone metabolism interpretation with some noise.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0030497","count":3},{"id":"GO:0042761","count":3},{"id":"GO:0042376","count":3},{"id":"GO:0002138","count":3}]},{"hash":"683704150803166065","title":"Amino acid biosynthesis and sulfur metabolism","description":"These proteins are enriched for several amino acid biosynthetic processes (serine, threonine, tryptophan, cysteine, D-serine) and related sulfur metabolism (hydrogen sulfide biosynthesis, cyanide metabolic process). The clustering of these GO terms suggests a functional grouping around amino acid production and sulfur-containing metabolite pathways rather than a single isolated reaction.","confidence":"High","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042866","count":3},{"id":"GO:0019343","count":2},{"id":"GO:0000162","count":2},{"id":"GO:0006565","count":2},{"id":"GO:0009088","count":2}]},{"hash":"1192537066809350189","title":"Membrane Ion Transport and Metal Homeostasis","description":"The GO terms mostly describe transmembrane transport and homeostasis of various metal ions (calcium, cadmium, zinc, potassium) and related ion import, suggesting a shared role in moving and balancing ions across membranes. A few unrelated terms are present, but the dominant theme supports this label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":1},{"id":"GO:0070588","count":1},{"id":"GO:0061092","count":1},{"id":"GO:0070574","count":1},{"id":"GO:0050911","count":1}]},{"hash":"1473459572198634538","title":"Ribosome Biogenesis and Nucleolar RNA Processing","description":"The top GO terms overwhelmingly point to ribosome biogenesis (and subunit export) and RNA processing activities (tRNA modification), suggesting a nucleolar/ribosome assembly-focused cluster; a few additional terms touch on cell division and redox-related responses, but they are secondary to the ribosome/RNA metabolism theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903204","count":3},{"id":"GO:1902083","count":3},{"id":"GO:0071447","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0000055","count":2}]},{"hash":"1465482440340112921","title":"Cardiac development and outflow tract morphogenesis","description":"This cluster is strongly enriched for GO terms tied to heart formation, including cardiac right ventricle formation, ventricular morphogenesis, and cardiac neural crest\u2013driven outflow tract morphogenesis, plus axis specification and Notch signaling modulation, indicating a cohesive theme around cardiac development and morphogenesis.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":3},{"id":"GO:0001516","count":2},{"id":"GO:0007612","count":1},{"id":"GO:0042691","count":1},{"id":"GO:0019800","count":1}]},{"hash":"1700555349699480934","title":"Neurotransmitter Signaling and Autonomic Regulation","description":"The top GO terms cluster around nervous system signaling and autonomic control, including dopaminergic synaptic transmission and adrenergic receptor\u2013mediated pathways that influence adenylate cyclase activity and vasoconstriction. Additional terms touch on neuromodulation of immune response, gastric secretion, heat generation, and locomotory behavior, suggesting the proteins participate in broader neuroendocrine and systemic regulation rather than a single, narrow function. Confidence in this thematic grouping is moderate because some terms reflect peripheral or distinct processes, but a common thread of neurotransmitter-driven and autonomic signaling is evident.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010818","count":3},{"id":"GO:0071881","count":3},{"id":"GO:0031649","count":3},{"id":"GO:0001963","count":3},{"id":"GO:0001697","count":3}]},{"hash":"560077740141619369","title":"Proteoglycan Biosynthesis and Sulfation","description":"This cluster centers on glycosaminoglycan biosynthesis and protein sulfation: keratan sulfate and heparin proteoglycan biosynthetic processes, dermatan sulfate metabolism, and sulfate assimilation, plus protein sulfation. Together these terms suggest a shared theme of proteoglycan modification and extracellular matrix biosynthesis. Some terms like estrogen/ethanol catabolism and fat cell differentiation are less directly connected and may reflect broader cellular contexts.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006068","count":3},{"id":"GO:0018146","count":3},{"id":"GO:0030205","count":3},{"id":"GO:0030210","count":3},{"id":"GO:0002002","count":3}]},{"hash":"1839072315994785944","title":"Diverse Metabolic and Regulatory Processes","description":"This cluster includes GO terms spanning amino acid biosynthesis (diaminopimelate and lysine), multiple carbohydrate metabolic pathways (inositol catabolism, galactose metabolism, sorbitol biosynthesis), and heme catabolism, plus regulatory activities such as negative regulation of kinase activity and transcription by RNA Polymerase II. The variety suggests proteins participating in several distinct metabolic pathways and regulatory mechanisms rather than a single, cohesive function. It seems best described as a broad metabolic/regulatory group.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019877","count":2},{"id":"GO:0009089","count":2},{"id":"GO:0019310","count":2},{"id":"GO:0033673","count":2},{"id":"GO:0006012","count":2}]},{"hash":"381234653959738382","title":"Neural patterning and endocrine development","description":"The cluster centers on embryonic development of neural structures and endocrine organs: brain segmentation, rhombomere 5 development, and R3/R4 cell fate commitment point to neural patterning, while pituitary gland and embryonic placenta development, plus lactation regulation, indicate broader endocrine organogenesis. Transcription by RNA polymerase II and PERK-mediated unfolded protein response suggest general cellular regulation that supports these developmental processes, but the dominant signal is neural and endocrine organ development.","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":3},{"id":"GO:0036499","count":3},{"id":"GO:0035284","count":2},{"id":"GO:0021571","count":2},{"id":"GO:0021983","count":2}]},{"hash":"513754309148223470","title":"Glycosaminoglycan Proteoglycan Biosynthesis and Sulfation","description":"The proteins here are strongly tied to glycosaminoglycan (GAG) and proteoglycan biosynthesis, with multiple GO terms for heparan, chondroitin, and keratan sulfate biosynthesis and proteoglycan sulfation (including peptidyl-tyrosine sulfation and protein sulfation), indicating a cohesive module for proteoglycan assembly and modification rather than unrelated processes.","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":4},{"id":"GO:0030206","count":4},{"id":"GO:0006478","count":3},{"id":"GO:0006068","count":3},{"id":"GO:0018146","count":3}]},{"hash":"1830044613037995650","title":"Ubiquitin-Mediated Protein Quality Control","description":"Top GO terms point to protein deubiquitination, ubiquitin-dependent ERAD, and aggresome assembly, indicating a core function in ubiquitin-mediated proteostasis. Heat acclimation and apoptotic processes further support a stress-response angle tied to handling misfolded or damaged proteins. Some annotations like T cell receptor signaling or transcription/translation are broad or incidental, but the dominant signal is ubiquitin-driven quality control and protein degradation pathways.","confidence":"High","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":3},{"id":"GO:0050852","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0010286","count":2},{"id":"GO:0030433","count":2}]},{"hash":"2219401387401663594","title":"Unknown","description":"The top GO terms are a scattered mix (telomere maintenance, mRNA processing, fat cell differentiation, VEGF signaling, elastic fiber assembly, muscle stretch response, budding growth) with no evident common function tying the proteins together, and there are no edges linking any proteins in this cluster. This makes it unclear what cohesive function, if any, unites them, so the label is Unknown with no confidence.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904355","count":2},{"id":"GO:0007118","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0045736","count":2}]},{"hash":"1102542068463111298","title":"Unknown","description":"The terms span diverse biological processes (DNA repair and replication, SOS response, transcription initiation, antiviral signaling, and development) with no clear single function tying the proteins together, suggesting the cluster lacks a cohesive theme.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000717","count":1},{"id":"GO:0009432","count":1},{"id":"GO:0006367","count":1},{"id":"GO:0039530","count":1},{"id":"GO:0048568","count":1}]},{"hash":"65004728094654906","title":"Cell migration and immune signaling","description":"This cluster centers on movement and adhesion through substrates (substrate-dependent migration, integrin signaling) and tissue traversal (extravasation), with support from ECM remodeling (metallopeptidase activity) and protein turnover (proteasome assembly). Immune context is evident in T cell activation and complement activation terms, suggesting coordinated immune signaling alongside migration. Developmental terms like chondrocyte morphogenesis and stamen formation reflect broader tissue remodeling contexts that share these adhesion/migration processes. Overall, the proteins appear tied to dynamic cell\u2013environment interactions with immune involvement.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006929","count":2},{"id":"GO:0007229","count":2},{"id":"GO:1905050","count":2},{"id":"GO:0003429","count":2},{"id":"GO:0070208","count":2}]},{"hash":"1503132891932256304","title":"Cell division and protein quality control","description":"This cluster centers on cell-cycle\u2013related processes (cell division, centriole elongation, mitotic DNA replication checkpoint signaling) together with protein quality control and degradation (aggresome assembly, ubiquitin-dependent ERAD pathway, protein catabolic processes), suggesting a theme of maintaining proteostasis during cell division, with transcripts potentially coordinating transcriptional regulation as a secondary layer.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0072389","count":2},{"id":"GO:0019941","count":2},{"id":"GO:0045899","count":2},{"id":"GO:0033314","count":2}]},{"hash":"1337821786605050276","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0045041","count":1},{"id":"GO:0022417","count":1},{"id":"GO:0051084","count":1}]},{"hash":"2187790034139364317","title":"Neural Crest Migration and Axon Guidance","description":"The top GO terms are dominated by embryonic development and neural crest\u2013related processes: neural crest cell migration, sympathetic neuron projection guidance, craniofacial morphogenesis, growth plate cartilage development, and broader multicellular organism development. While a couple of terms touch on transport or leukocyte migration, the strongest signals point to neural crest\u2013driven morphogenesis and axon guidance as the core theme of this cluster.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":2},{"id":"GO:0050900","count":1},{"id":"GO:0048846","count":1},{"id":"GO:0097094","count":1},{"id":"GO:0061549","count":1}]},{"hash":"1205568846278075917","title":"DNA replication and chromatin dynamics","description":"These five proteins cluster around genome maintenance and chromatin organization: DNA unwinding and topology changes are core for replication; heterochromatin formation and histone dynamics point to chromatin remodeling; centrosome cycle and meiotic recombination terms suggest links to chromosome segregation and cell division. Some terms are outdated annotations, but the dominant theme is chromatin structure and DNA replication/regulation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006268","count":4},{"id":"GO:0007131","count":3},{"id":"GO:0006265","count":3},{"id":"GO:0032079","count":3},{"id":"GO:0001208","count":3}]},{"hash":"1312145627947017391","title":"Innate immune cytokine signaling cluster","description":"The GO terms show a clear tilt toward innate immune and cytokine signaling activities, including interleukin-12 response, interleukin-1 signaling, TLR9 signaling, and chemokine production. While there are some unrelated terms (cell cycle, telomere regulation, reproductive development, thermoception), the dominant theme is inflammatory/immune signaling, justifying a label centered on innate immune cytokine pathways.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0070671","count":2},{"id":"GO:0050955","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0071901","count":2}]},{"hash":"475834503319842449","title":"DNA Damage Response and Repair","description":"The GO terms point to DNA strand displacement/invasion, interstrand cross-link repair, and reciprocal meiotic recombination, plus t-circle formation, all characteristic of homologous recombination and DNA repair. The accompanying cellular responses to DNA-damaging agents (gamma radiation, hydroxyurea, cisplatin, camptothecin) and regulation of protein phosphorylation indicate a signaling network coordinating repair. Together, these suggest a DNA damage response and repair cluster.","confidence":"High","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0000732","count":4},{"id":"GO:0042148","count":4},{"id":"GO:0007131","count":4},{"id":"GO:0090656","count":4},{"id":"GO:0001932","count":4}]},{"hash":"1770177302469106636","title":"Vesicle trafficking and immune signaling","description":"This cluster centers on vesicle fusion and receptor signaling in immune cells (B cell signaling, follicular B cell differentiation, phagocytosis), with supporting roles for Rho GTPase regulation and IP3/calcium signaling; while brain development and PI3K/insulin pathway terms appear, the shared thread is vesicle-mediated signal transduction in immune contexts.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0038028","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0032959","count":2},{"id":"GO:0009395","count":2}]},{"hash":"435833872101131862","title":"Unknown","description":"The top GO terms are broad and fragmented, including immune-related processes (T cell activation, cellular extravasation, integrin signaling) alongside unrelated terms (plant stamen formation, cartilage morphogenesis, proteasome assembly, metallopeptidase activity). With only 1 edge among 5 proteins and no clear single theme connecting the terms, there isn\u2019t a coherent function to capture, so Unknown is the prudent label.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042135","count":2},{"id":"GO:0006929","count":1},{"id":"GO:0007229","count":1},{"id":"GO:1905050","count":1},{"id":"GO:0003429","count":1}]},{"hash":"322379676960005528","title":"Unknown","description":"The GO terms show highly diverse functions\u2014from protein folding (peptidyl-prolyl isomerization) to neuron apoptosis regulation, innate immune response, cell division, lipid biosynthesis regulation, fat pad development, GPCR signaling regulation, and even plant cytokinin signaling and male sex differentiation. With no clear shared pathway or coherent biological theme and no network edges to tie the proteins together, there isn\u2019t a single representative function for this cluster to name beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0000413","count":5},{"id":"GO:0043525","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0051301","count":4},{"id":"GO:2000531","count":4}]},{"hash":"876456192779439450","title":"NF-kB\u2013driven innate immune signaling","description":"Top terms center on NF-kappaB transcription factor activity regulation and canonical NF-kappaB signaling, together with innate immune response and LPS-mediated signaling. These point to a cluster enriched for inflammatory signaling and immune communication. Neuronal terms (excitatory postsynaptic potential, axon extension) are present but likely reflect broader roles of NF-kB in neurons or incidental associations; overall the data support a NF-kB\u2013driven immune signaling theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0043123","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0035372","count":3},{"id":"GO:0060079","count":3}]},{"hash":"1724212811548763684","title":"Post-transcriptional RNA Regulation","description":"This cluster centers on RNA-level control after transcription, including spliceosome-mediated and alternative splicing regulation, mRNA stability and stabilization, RNA silencing by ncRNAs/miRNAs, and RNA modifications affecting translation, such as IRES-dependent initiation. The shared theme is post-transcriptional gene expression regulation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0010610","count":4},{"id":"GO:0000381","count":3},{"id":"GO:1903586","count":3}]},{"hash":"789180428673715295","title":"Calcium signaling and vesicle dynamics","description":"Core theme is calcium-driven signaling affecting vesicle dynamics and secretion: calcium transport and cellular response to calcium are prominent; vesicle trafficking terms include regulation of synaptic vesicle endocytosis and platelet degranulation; phosphatidylinositol-mediated signaling and calcineurin-NFAT regulation point to downstream Ca2+-dependent pathways; a memory-associated term hints at calcium's role in synaptic plasticity.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":2},{"id":"GO:0071277","count":2},{"id":"GO:0072286","count":2},{"id":"GO:0002576","count":2},{"id":"GO:1900242","count":2}]},{"hash":"2244994197471582419","title":"Developmental Morphogenesis and Signaling","description":"These terms point to processes involved in tissue morphogenesis, development, and maturation across organs (kidney tubule formation, lymph vessel formation, neural crest migration, nerve development, BMP pathway regulation, wound healing). The shared theme is developmental remodeling across systems rather than a single function, so the label Developmental Morphogenesis and Signaling captures the cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072237","count":2},{"id":"GO:0036303","count":2},{"id":"GO:0006910","count":2},{"id":"GO:0072287","count":2},{"id":"GO:0002318","count":2}]},{"hash":"2120799925269178946","title":"Unknown","description":"The top GO terms are highly diverse (lymphangiogenesis, spindle-kinetochore attachment, glycogen regulation, lipid/sphingolipid metabolism, NFAT and glucocorticoid signaling, lipid A biosynthesis, lead response, etc.), with no single cohesive function connecting them. This spread suggests no clear shared biological theme for the cluster, so the label Unknown with None confidence is appropriate.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001946","count":3},{"id":"GO:1900490","count":3},{"id":"GO:0051315","count":3},{"id":"GO:0005979","count":3},{"id":"GO:0006685","count":3}]},{"hash":"1661789592243624693","title":"MAPK signaling in morphogenesis and axon guidance","description":"The top GO terms cluster around MAPK signaling (MAPKK activation, ERK1/ERK2 cascade, phosphorylation) and axon guidance (semaphorin-plexin signaling, branchiomotor neuron guidance, facial nerve organization), with additional links to branching morphogenesis and cell-matrix adhesion. This suggests proteins in this cluster participate in MAPK-driven signaling that coordinates developmental morphogenesis and neural pathfinding.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000186","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0010800","count":2},{"id":"GO:0070371","count":2},{"id":"GO:0060444","count":2}]},{"hash":"1770872401200330745","title":"Neuronal development and synaptic signaling","description":"The proteins are enriched for neural development and synaptic-related processes: nervous system development, positive regulation of synapse assembly, and response to cocaine, plus PI3K/AKT signaling regulation and cell migration. These together point to roles in neuron formation, migration, and synaptic connectivity, with signaling crosstalk (Wnt inhibition and PI3K/AKT activation) shaping neuronal survival and synapse formation.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":3},{"id":"GO:0090090","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0046827","count":2}]},{"hash":"795742779461047912","title":"Virus-host replication and latency mediators","description":"The top GO terms point to proviral latency establishment, viral release, RNA-templated DNA biosynthesis, and host-mediated activation of viral genome replication, which are core aspects of viral life cycles and virus-host interactions. Additional terms involve lipid droplet organization and protein folding, processes frequently co-opted during viral assembly and replication. Leukocyte migration and UV-A response reflect host immune and stress responses to infection, supporting a cohesive theme of viral lifecycle control by host\u2013virus interaction proteins.","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":"protein folding","top_go_terms":[{"id":"GO:0075713","count":3},{"id":"GO:0050900","count":3},{"id":"GO:0019076","count":3},{"id":"GO:0034389","count":3},{"id":"GO:0000413","count":3}]},{"hash":"502671077809579389","title":"Potassium Ion Homeostasis and Membrane Potential Regulation","description":"The GO terms clustered here are dominated by ion homeostasis and membrane excitability, with multiple entries for intracellular potassium ion homeostasis, potassium ion transmembrane transport, and stabilization/regulation of resting membrane potential, plus membrane repolarization during cardiac action potentials. This points to a cohesive functional module centered on potassium balance and membrane potential control. Other terms (T cell homeostasis, hypoxia response, apoptotic signaling, mechanosensation, ubiquitin-proteasome quality control) appear less central and may reflect broader or context-specific roles rather than core features of the cluster.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0008627","count":2},{"id":"GO:0098914","count":2},{"id":"GO:0030322","count":2}]},{"hash":"1976684556496305919","title":"Inflammatory signaling and leukocyte recruitment","description":"The GO terms cluster around NF-\u03baB\u2013mediated inflammatory signaling, IL-1 signaling, chemokine production, and cytokine production, coupled with neutrophil extravasation, cell migration, and actin remodeling. Together these suggest a module governing immune activation and leukocyte trafficking across vessels, with barrier and polarity aspects supporting migration. This is a cohesive theme rather than a single enzymatic function, though some terms (polarity, barrier establishment) add contextual nuance.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:2000661","count":2},{"id":"GO:0032689","count":2},{"id":"GO:2000391","count":2},{"id":"GO:0090557","count":2}]},{"hash":"971671097362539991","title":"LDL receptor pathway regulation","description":"The top GO terms are dominated by LDL receptor\u2013related processes (LDL particle receptor catabolic and related regulatory steps, including negative regulation of receptor recycling), pointing to a cohesive theme around LDL receptor pathway modulation. Other terms in the set (embryo axis determination, nerve growth factor production, insulin processing, peptide maturation) are heterogeneous and less connected to LDL receptor biology, so the strongest, most representative signal is the LDL receptor regulatory theme. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905596","count":5},{"id":"GO:0032805","count":5},{"id":"GO:0007354","count":5},{"id":"GO:0032802","count":5},{"id":"GO:1905598","count":5}]},{"hash":"1721888630661630022","title":"Organelle Dynamics and Metabolic Signaling","description":"The GO terms point to intracellular membrane trafficking and organelle organization (Golgi localization, vesicle endocytosis, phospholipid homeostasis) combined with metabolic signaling pathways (TORC2, CAMKK-AMPK) and organelle dynamics (mitochondrial fission). Some terms hint at broader physiological responses (hormonal signaling), suggesting an integrated network where organelle dynamics coordinate with metabolic signaling. The outlier about sorocarp development likely represents noise. ","confidence":"Medium","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000042","count":5},{"id":"GO:1904515","count":4},{"id":"GO:0099139","count":4},{"id":"GO:0055091","count":4},{"id":"GO:1900242","count":4}]},{"hash":"1459904574815539365","title":"Unknown","description":"The top GO terms show a mix of neuronal development and signaling (vestibular morphogenesis, paranode axon localization, trans-synaptic signaling) alongside immune signaling (TLR9/MyD88 pathways) and other disparate processes, with no clear shared function across the cluster. With zero edges and only single-term associations, there isn\u2019t a coherent theme to label the cluster confidently.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060116","count":1},{"id":"GO:0034162","count":1},{"id":"GO:0019800","count":1},{"id":"GO:0051901","count":1},{"id":"GO:0002175","count":1}]},{"hash":"1693986510344397631","title":"Lipid signaling and energy regulation","description":"The Top Terms cluster around lipid/phospholipid homeostasis and energy-sensing signaling (TORC2, CAMKK-AMPK), with supporting roles in apolipoprotein signaling and broader cellular signaling. Although there are a few noisy or unrelated annotations (e.g., development-specific or toxin-related terms), the prevailing pattern points to coordinated signaling pathways that regulate lipid metabolism and cellular energy status, with some connections to membrane dynamics and polarity.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1904515","count":5},{"id":"GO:0099139","count":5},{"id":"GO:0055091","count":5},{"id":"GO:1900242","count":5},{"id":"GO:1905289","count":5}]},{"hash":"1670529342479128050","title":"Chaperone-driven protein folding and trafficking under stress","description":"The prevalent terms center on protein folding (GO:0006457), chaperone-mediated assembly (GO:0051131), and regulation of proteasomal degradation, pointing to a protein quality-control module. Additional terms touch on protein localization to the cell surface or nucleus and responses to salt stress, suggesting coordinated trafficking and stress responses. The presence of immune and virion-related terms indicates broader cellular context, but the core signal is chaperone-assisted folding and controlled turnover, hence this label.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2000010","count":2},{"id":"GO:0033160","count":2},{"id":"GO:0019062","count":2},{"id":"GO:0009651","count":2},{"id":"GO:0006457","count":2}]},{"hash":"22605842728602313","title":"ER-Golgi vesicle trafficking (COPI)","description":"Most top GO terms describe ER to Golgi transport, COPI-coated vesicle budding/coating, Golgi ribbon formation, and protein retention/exit from the ER, pointing to a cohesive role in COPI-mediated ER-Golgi trafficking. A few reproduction-related terms appear as potential pleiotropic annotations, but the dominant theme is vesicle transport between the ER and Golgi.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0090161","count":3},{"id":"GO:0070863","count":2},{"id":"GO:0002121","count":2},{"id":"GO:0001893","count":2}]},{"hash":"826852100910115891","title":"Cellular stress response and apoptosis","description":"These proteins cluster around cellular stress signaling and response pathways, including redox/homeostasis, xenobiotic response, phosphatidylinositol and cAMP signaling, and apoptotic regulation, with ties to cell cycle control and neuron development. The label captures the core themes of stress response and programmed cell death, with some involvement in signaling pathways and development.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0046856","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0071320","count":2}]},{"hash":"1333801485027963533","title":"Plant Root Development and Cell Cycle Regulation","description":"The cluster centers on plant cell division and development: mitotic cytokinesis, regulation of the cell cycle, and centromeric cohesion, coupled with root development and cytoskeletal/adhesion remodeling. Transcription-associated chromatin remodeling and auxin-related signaling terms further support a role in coordinated growth while cross-species Wnt pathway regulation hints at broader signaling control during tissue development.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000281","count":4},{"id":"GO:0048364","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0070602","count":4},{"id":"GO:0071681","count":4}]},{"hash":"1820520991755298729","title":"Neural and Retinal Development","description":"The cluster shows strong signals for neural and eye formation: retina development, amacrine cell differentiation, Purkinje cell differentiation, and cerebral cortex regionalization, pointing to neural and retinal lineage specification. While a few terms reference other embryonic processes (heart, limb, gonad development, osteoblasts), the dominant pattern centers on neural/retinal development, suggesting the proteins participate in brain and eye formation pathways. Confidence is moderate due to some non-neural terms present, but the core signal is clear.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":5},{"id":"GO:0002076","count":5},{"id":"GO:0002087","count":5},{"id":"GO:1902871","count":3},{"id":"GO:0003168","count":3}]},{"hash":"2204270833937523855","title":"Ubiquitin-Dependent Proteolysis and NF-\u03baB Signaling","description":"The cluster is dominated by GO terms for protein ubiquitination, ubiquitin-dependent protein catabolic processes, histone ubiquitination, and NF-\u03baB pathway regulation (I-kappaB phosphorylation and NIK activity), indicating a shared theme of protein turnover and NF-\u03baB signaling with a possible link to chromatin modification via histone ubiquitination. The V(D)J recombination term is present but not central to the core theme.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033151","count":4},{"id":"GO:0036205","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0007250","count":4}]},{"hash":"1089291696366471686","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0031018","count":2},{"id":"GO:0090190","count":2},{"id":"GO:0048557","count":2},{"id":"GO:0001755","count":2}]},{"hash":"630985606180809028","title":"Embryonic neural and craniofacial morphogenesis","description":"The cluster is dominated by GO terms for brain region development (hypothalamus, habenula), neural crest cell migration, and craniofacial structures (roof of mouth, odontogenesis), indicating a common role in neural and craniofacial morphogenesis during embryogenesis. While there are also broader embryonic development terms (pancreas/digestive tract), the strongest signal ties to neural and craniofacial formation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021854","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0021979","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0031018","count":2}]},{"hash":"1583684480865610200","title":"Molybdenum cofactor biosynthesis","description":"The cluster is dominated by GO terms for molybdenum cofactor biosynthesis and incorporation (molybdopterin cofactor biosynthetic process, Mo-molybdopterin biosynthetic process, and molybdenum incorporation into the molybdenum-molybdopterin complex), suggesting proteins involved in Moco assembly. The gamma-aminobutyric acid receptor clustering and glycine receptor clustering terms likely reflect annotation noise or unrelated overlaps, so the core signal points to Moco biosynthesis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032324","count":2},{"id":"GO:0097112","count":2},{"id":"GO:0006777","count":2},{"id":"GO:0072579","count":2},{"id":"GO:0018315","count":2}]},{"hash":"577253378317861350","title":"GPCR-driven neural and autonomic signaling","description":"The top GO terms cluster around GPCR-mediated signaling affecting neural transmission and autonomic responses (dopaminergic transmission, adrenergic signaling, vasoconstriction, histamine secretion) with related processes like chemotaxis and locomotion, suggesting a broad GPCR/signaling theme rather than a single pathway.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010818","count":1},{"id":"GO:0071881","count":1},{"id":"GO:0031649","count":1},{"id":"GO:0001963","count":1},{"id":"GO:0001697","count":1}]},{"hash":"349910570120315512","title":"Angiogenesis and endothelial signaling","description":"Top terms cluster around vascular development and endothelial signaling: angiogenesis, regulation of endothelial cell migration, and Tie signaling, with exocytosis potentially supporting secretion of angiogenic factors; osteoblast-related and complement terms are more peripheral.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":2},{"id":"GO:0033689","count":1},{"id":"GO:0045921","count":1},{"id":"GO:1905240","count":1},{"id":"GO:0001525","count":1}]},{"hash":"1978189649816306525","title":"Ubiquitination and SUMO-mediated protein regulation","description":"GO terms point to ubiquitin- and SUMO-dependent processes (sumoylation, K48-linked ubiquitination, ubiquitin-dependent protein catabolic process) and related signaling (NF-kappaB activation), with supporting chromatin turnover (histone catabolic process) and some development/immune-related terms (V(D)J recombination, placental morphogenesis). This suggests a cohesive theme of post-translational modification driving protein turnover and chromatin regulation, rather than a single discrete pathway.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":2},{"id":"GO:0033151","count":2},{"id":"GO:0036205","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0045869","count":2}]},{"hash":"568151986159065221","title":"Unknown","description":"The GO terms are highly diverse, including neural development, signaling pathways (EGFR and PI3K/AKT), sensory perception, phagocytosis, and germ cell development, with no single cohesive function tying all proteins together.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0007173","count":2},{"id":"GO:0014065","count":2},{"id":"GO:0043491","count":2},{"id":"GO:0006909","count":2}]},{"hash":"175936465013327627","title":"Cardiac muscle development and sarcomere organization","description":"The top GO terms strongly point to heart/muscle biology, notably sarcomere organization and cardiac muscle cell proliferation, with related references to multicellular development and transcription. A few terms (dopamine response, pain) are less directly tied to muscle function and may reflect broader or pleiotropic roles. Overall, the cluster is best characterized as muscle/heart development with sarcomere organization.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0006351","count":5},{"id":"GO:1903351","count":4}]},{"hash":"303542658468061004","title":"Mitochondrial Complex II Function and Assembly","description":"Top terms point to succinate metabolism and mitochondrial electron transport, especially complex II (succinate dehydrogenase) assembly and FAD-dependent flavinylation, indicating a coherent focus on mitochondrial respiration via Complex II. Some RNA processing/translation annotations appear incidental and do not define the core theme.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0017013","count":1},{"id":"GO:0018293","count":1},{"id":"GO:0006105","count":1},{"id":"GO:0006121","count":1},{"id":"GO:0034553","count":1}]},{"hash":"1695921184346165572","title":"Post-transcriptional RNA processing and translation control","description":"This cluster centers on RNA metabolism and regulation of protein synthesis, combining spliceosome/processome activity (alternative splicing) with multiple layers of translational control (preinitiation complex formation, translation initiation, IRES-driven initiation) and mRNA regulation (stabilization, modification, and miRNA-mediated silencing).","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:1903586","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0075522","count":2}]},{"hash":"425284962348047386","title":"Global Negative Regulation of Signaling and Proliferation","description":"The cluster\u2019s GO terms are dominated by multiple instances of negative regulation across signaling pathways (e.g., EGFR, ERK/JNK cascades), control of cell cycle and proliferation, and related processes, plus a note on ubiquitin-mediated protein turnover via multivesicular body sorting. This pattern points to inhibitors or dampeners of signaling and growth rather than activators, suggesting a theme of broad downregulation of signaling and cell growth in the cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010633","count":1},{"id":"GO:0060116","count":1},{"id":"GO:0042059","count":1},{"id":"GO:1902227","count":1},{"id":"GO:0008285","count":1}]},{"hash":"151496667791130291","title":"Ribosome biogenesis and translation","description":"Based on the enrichment of ribosome-related terms\u2014ribosomal subunit biogenesis (large and small), ribosome biogenesis, translation, tRNA modification, and ribosomal subunit export from the nucleus\u2014the cluster seems to encompass proteins involved in ribosome assembly and protein synthesis. A few cell cycle terms are present but less dominant, so the principal theme is ribosome biology.","confidence":"High","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0000055","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0042254","count":2}]},{"hash":"1544525511852856095","title":"Ubiquitin-Proteasome Regulation of DNA Repair and Cell Cycle","description":"These proteins are enriched in ubiquitin-/proteasome-related processes (neddylation, K11/K27 ubiquitination, SCF-mediated degradation, protein quality control) and in DNA damage response (homologous recombination) and mitotic exit, suggesting a module coordinating proteostasis with DDR and cell-cycle control.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045116","count":5},{"id":"GO:0031146","count":5},{"id":"GO:0000724","count":5},{"id":"GO:0010458","count":5},{"id":"GO:0009737","count":5}]},{"hash":"644651096673285646","title":"Immune signaling and cell migration","description":"The cluster is dominated by immune-related processes (interleukin-4 production, NK T cell differentiation, B cell affinity maturation, cellular response to interleukin-7) with strong links to cell motility (integrin-mediated signaling, lamellipodium assembly, cell migration). While a few terms touch on development or nervous system processes, the prevailing pattern ties immune signaling to cellular movement and adhesion.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007229","count":4},{"id":"GO:0032633","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0001865","count":4},{"id":"GO:0008286","count":4}]},{"hash":"1129200370773145177","title":"Proteoglycan Biosynthesis and ECM Remodeling","description":"The GO terms center on keratan sulfate proteoglycan biosynthesis and proteoglycan metabolic process, pointing to a proteoglycan/ECM\u2013related function. Additional terms about angiogenesis, wound healing, and epithelial proliferation fit the ECM\u2013driven development and tissue repair theme. Some terms touch broader contexts (e.g., zona pellucida penetration, acrosome regulation), but overall the cluster appears to reflect proteoglycan/ECM biology rather than a single tissue-specific role.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":2},{"id":"GO:0018146","count":2},{"id":"GO:0060055","count":2},{"id":"GO:0060058","count":2},{"id":"GO:0006029","count":2}]},{"hash":"265312172538310329","title":"NF-kB-driven inflammatory signaling and autophagy regulation","description":"The top GO terms point to regulation of NF-kappaB signaling, JNK cascade, ubiquitination, and autophagy, along with repression of necroptosis and chemokine production. This combination suggests a cluster focused on inflammatory signaling and cell fate control (survival vs death) mediated by ubiquitin regulation and autophagy, rather than a single isolated function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0045869","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0072089","count":2}]},{"hash":"909749921983640321","title":"Mitotic spindle and cytokinesis machinery","description":"The proteins are enriched for GO terms centered on mitosis and microtubule dynamics\u2014cell division, mitotic cytokinesis, spindle midzone assembly, microtubule organization and nucleation, and related cytokinesis processes. The inclusion of FtsZ-dependent cytokinesis and spindle-associated terms further supports a core role in mitotic machinery, with the neuron migration term likely reflecting shared cytoskeletal mechanisms. Overall, the cluster aligns with mitotic spindle function and cytokinesis.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902408","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0031122","count":2},{"id":"GO:0001764","count":2},{"id":"GO:0051256","count":2}]},{"hash":"742310808495611909","title":"RNA processing and surveillance","description":"This cluster is dominated by RNA processing and RNA quality-control terms: regulatory ncRNA-mediated gene silencing, mRNA splicing via the spliceosome, and TRAMP-dependent tRNA surveillance. While a few terms relate to DNA metabolism (e.g., homologous recombination repair, DNA topological change), the strongest signal is RNA processing and surveillance, implying these proteins function in RNA maturation and quality control rather than DNA repair per se.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0000732","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0000398","count":1}]},{"hash":"2097258640252364671","title":"RNA processing and translation initiation","description":"The top GO terms center on alternative splicing regulation, mRNA stability/modification, and initiation of translation (including preinitiation complex formation and IRES-dependent initiation), suggesting a cluster of proteins involved in RNA processing and control of translation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":1},{"id":"GO:1903586","count":1},{"id":"GO:0048255","count":1},{"id":"GO:0035278","count":1},{"id":"GO:0075522","count":1}]},{"hash":"388933382036279518","title":"Autonomic Neurotransmission and Signaling","description":"The top GO terms cluster around neural and hormonal signaling: dopaminergic synaptic transmission, adrenergic receptor signaling with inhibition of adenylate cyclase, and norepinephrine/epinephrine\u2013driven vasoconstriction, plus locomotory behavior. Although some terms touch immune or gastrointestinal processes, the shared theme is GPCR-mediated signaling governing nervous and endocrine responses.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010818","count":4},{"id":"GO:0071881","count":4},{"id":"GO:0031649","count":4},{"id":"GO:0001963","count":4},{"id":"GO:0001697","count":4}]},{"hash":"2090052376371085102","title":"Systemic physiological regulation","description":"This cluster's top GO terms span broad organismal functions\u2014blood coagulation, adrenergic/dopaminergic signaling, vasoconstriction, immune cell movement, heat generation, gastric secretion, reproduction, and locomotion\u2014indicating involvement in general systemic regulation rather than a single pathway. The label should reflect organism-wide physiological regulation rather than a narrowly defined function.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":5},{"id":"GO:0010818","count":4},{"id":"GO:0071881","count":4},{"id":"GO:0031649","count":4},{"id":"GO:0001963","count":4}]},{"hash":"199092590867791180","title":"Unknown","description":"The Top Terms are a mix of unrelated processes (neutrophil clearance, keratinocyte differentiation, actin cytoskeleton reorganization, sperm capacitation, salt stress response, apoptosis, IL-4 production, regulation of cell proliferation, trans-synaptic signaling, and glucose response). There is no clear shared function linking these proteins, and the network is sparse, so a cohesive functional label cannot be assigned.","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097350","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0048240","count":2},{"id":"GO:0009651","count":2}]},{"hash":"1083100208993716119","title":"Notch-Wnt Development Signaling","description":"The top GO terms show notable enrichment for Notch signaling and canonical Wnt signaling, suggesting the proteins cluster around developmental signaling pathways. Additional terms hint at broader transcriptional regulation and cell cycle processes during development, indicating these proteins may participate in developmental signaling and transcriptional control more generally.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007219","count":2},{"id":"GO:0051301","count":1},{"id":"GO:0060070","count":1},{"id":"GO:0007129","count":1},{"id":"GO:0035186","count":1}]},{"hash":"639845479675673982","title":"Dopaminergic PI3K/AKT signaling and glycation response","description":"This cluster combines dopaminergic synaptic transmission with PI3K/AKT pathway activation and glycation/deglycation stress responses, plus modulation of phosphorylation and ubiquitination, and inflammatory cytokine regulation, indicating a neuronal signaling module linked to proteostasis and immune signaling.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:0036471","count":2},{"id":"GO:0033234","count":2},{"id":"GO:0036529","count":2},{"id":"GO:0032148","count":2}]},{"hash":"169394454672509702","title":"LDL Receptor Regulation and Peptide Processing","description":"The top GO terms cluster around LDL receptor binding and receptor catabolic processes, including negative/positive regulation of LDL receptor activity and receptor recycling, suggesting a cohesive focus on lipoprotein receptor pathways. A secondary signal involves peptide hormone and neuropeptide maturation (insulin, enkephalin, pheromones), indicating concurrent processing roles. Overall, the dominant theme is LDL receptor regulation with a secondary peptide-processing theme.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1905596","count":2},{"id":"GO:0032805","count":2},{"id":"GO:0007354","count":2},{"id":"GO:0032802","count":2},{"id":"GO:1905598","count":2}]},{"hash":"673175865241295770","title":"Unknown","description":"The terms are scattered across mitochondria-related processes (protein import into mitochondrial matrix, regulation of mitochondrial membrane permeability) and various unrelated areas (lipid biosynthesis, cell cycle regulation, glycan biosynthesis, insect development), including several obsolete annotations. With a small cluster and no consistent shared function, there is no defining theme to name it beyond Unknown.","confidence":"","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010867","count":1},{"id":"GO:1903740","count":1},{"id":"GO:0030150","count":1},{"id":"GO:2000134","count":1},{"id":"GO:0070940","count":1}]},{"hash":"395444380887469808","title":"Environmental Stress Response","description":"The GO terms cluster around responses to environmental stimuli and oxidative stress (arsenic-containing substances, hydrogen peroxide, light intensity) with an additional metabolic and protein-assembly note (triglyceride metabolism, protein homotetramerization). Although the terms are diverse and the network shows no interactions, the common thread is involvement in broad stress or stimulus responses rather than a single pathway, making Environmental Stress Response a reasonable label.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0052046","count":1},{"id":"GO:0046685","count":1},{"id":"GO:0035335","count":1},{"id":"GO:0042542","count":1},{"id":"GO:0006641","count":1}]},{"hash":"512578551153466092","title":"Ubiquitin-Proteasome Regulation","description":"The top GO terms cluster around ubiquitination and its regulation (protein ubiquitination; negative regulation of deubiquitination; ubiquitin-dependent ERAD), indicating a shared function in ubiquitin-mediated protein turnover and quality control. While a few terms touch on signaling or metabolism, the dominant theme is ubiquitin-proteasome\u2013related regulation, justifying this label.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:1903094","count":2},{"id":"GO:0060546","count":2},{"id":"GO:2000157","count":2},{"id":"GO:0016567","count":2}]},{"hash":"1001669755646476729","title":"Innate immune signaling and stress response","description":"The top terms include Toll-like receptor 9 signaling and MyD88-dependent TLR signaling, indicating a central innate immune signaling theme. Additional terms point to stress-related signaling (cortisol response, pain) and signaling regulation (AMPK/CAMKK) that may accompany immune functions, suggesting the cluster is primarily about TLR-mediated signaling with associated stress responses. ","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048846","count":3},{"id":"GO:0034162","count":2},{"id":"GO:0019800","count":2},{"id":"GO:0051901","count":2},{"id":"GO:0002755","count":2}]},{"hash":"1193937443971357633","title":"Calcium Signaling in Neural and Astrocyte Function","description":"This cluster is dominated by GO terms tied to calcium transport and calcium-responsive signaling (calcium ion transport, cellular response to calcium), plus neural/glial-related processes (short-term memory, astrocyte activation) and NFAT/calcium signaling pathways. While an outlier term about metanephric tubule development appears, the prevailing pattern points to calcium-dependent signaling in neural and astrocyte contexts.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070588","count":4},{"id":"GO:0071277","count":4},{"id":"GO:0072286","count":4},{"id":"GO:0051091","count":4},{"id":"GO:0006491","count":4}]},{"hash":"2152577855219914598","title":"GABAergic Signaling in Locomotion","description":"The GO terms center on GABA signaling and receptor clustering, together with locomotory behavior and righting reflex, pointing to inhibitory synaptic signaling shaping movement and reflex responses. Additional terms for innervation, circadian sleep regulation, and drug response suggest a broader neuronal network influencing locomotion and arousal, supporting a label around GABAergic control of movement.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":3},{"id":"GO:0007214","count":3},{"id":"GO:0060013","count":3},{"id":"GO:0097112","count":3},{"id":"GO:2001023","count":3}]},{"hash":"1512065370477729157","title":"Unknown","description":"The top GO terms span apoptosis, immune signaling, growth and development, metabolism, and cell adhesion with no single cohesive function; the terms are too diverse to define a specific common theme for this cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097194","count":5},{"id":"GO:0032633","count":5},{"id":"GO:0008285","count":5},{"id":"GO:0099557","count":5},{"id":"GO:0071333","count":5}]},{"hash":"731226494823584816","title":"Calcium-Driven Signaling and Vesicle Regulation","description":"The cluster's top GO terms cluster around calcium ion transport and calcium-responsive signaling (e.g., calcium transport and cellular response to calcium), along with phosphatidylinositol signaling and synaptic vesicle endocytosis, suggesting a calcium-dependent regulation of vesicle trafficking and neuronal signaling. The presence of short-term memory as a term supports a neural relevance, though other terms like N-glycan processing and platelet degranulation may reflect broader calcium-related roles or annotation noise. Overall, the theme is calcium-mediated signaling linked to vesicle regulation and memory-related processes.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070588","count":4},{"id":"GO:0071277","count":4},{"id":"GO:0072286","count":4},{"id":"GO:0051091","count":4},{"id":"GO:0006491","count":4}]},{"hash":"2034858532005782565","title":"Multitissue embryonic development","description":"The proteins map to diverse developmental processes across neural differentiation (amacrine, Purkinje cells, cerebral cortex regionalization), limb formation, heart tube patterning, cartilage and gonad development, indicating a broad embryonic development theme rather than a single specific function.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902871","count":5},{"id":"GO:0003168","count":5},{"id":"GO:0021796","count":5},{"id":"GO:0021920","count":5},{"id":"GO:0008584","count":5}]},{"hash":"215469475566207830","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0030042","count":1},{"id":"GO:0033184","count":1},{"id":"GO:0006554","count":1},{"id":"GO:0052889","count":1}]},{"hash":"1956733774158782972","title":"GABAergic Synaptic Signaling and Behavior","description":"The top GO terms point to GABAergic neurotransmission (GABA signaling pathway, receptor clustering) and several behavior-related processes (righting reflex, locomotory behavior, conditioned taste aversion, sleep/wake regulation). Additional terms like EPSP and negative regulation of action potential reflect how GABAergic signaling modulates neuronal excitability to influence motor and behavioral outcomes. This cohesive theme justifies labeling the cluster as GABAergic signaling linked to behavioral regulation.","confidence":"High","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":5},{"id":"GO:0060013","count":5},{"id":"GO:0097112","count":5},{"id":"GO:2001023","count":5},{"id":"GO:0001661","count":5}]},{"hash":"1216501538594726295","title":"Developmental Apoptosis Regulation","description":"The cluster is enriched for development terms (multicellular organism development, forebrain development) and apoptosis-related terms (execution phase of apoptosis, negative regulation of mitochondrial membrane permeability involved in apoptotic process, apoptotic process involved in development), suggesting proteins that participate in developmental processes with tightly regulated cell death. Peripheral signals (IL-12 response, TGF-beta, dexamethasone, GPCR signaling) may reflect broader signaling context but do not redefine the core theme. ","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070671","count":1},{"id":"GO:1902109","count":1}]},{"hash":"2171111620707560638","title":"Cellular responses to diverse chemical stimuli","description":"This cluster\u2019s top GO terms center on cellular responses to a variety of chemical and ion stimuli (copper, histamine, heparin, antibiotics, azide, etc.), along with related metabolic catabolic processes. There isn\u2019t a single cohesive pathway, but a common theme of adapting to diverse chemical challenges, suggesting a label that captures broad chemical responsiveness. Protoxylem development appears as a distant hint rather than a unifying function. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015898","count":2},{"id":"GO:0090059","count":2},{"id":"GO:0071420","count":2},{"id":"GO:0071280","count":2},{"id":"GO:0071504","count":2}]},{"hash":"392035968705071775","title":"Organ development and morphogenesis","description":"The terms converge on developmental differentiation and morphogenesis across multiple tissues (pancreatic development, coronary artery morphogenesis, cerebellar cortex morphogenesis, cardiac muscle proliferation) with a secondary nod to transcriptional regulation during development, suggesting a general developmental/morphogenetic theme rather than a single pathway. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003309","count":1},{"id":"GO:0060287","count":1},{"id":"GO:0006357","count":1},{"id":"GO:0060982","count":1},{"id":"GO:0021914","count":1}]},{"hash":"505019696627524056","title":"Plant hormone biosynthesis and catabolic processes","description":"The top GO terms include multiple hormone-related biosynthetic and catabolic processes (salicylic acid, auxin, gibberellin, ethylene) and related secondary metabolism (proanthocyanidin), along with a stress-related ROS/PCD term. Although there are a couple of general DNA replication/recombination terms, the dominant signal is plant hormone metabolism and associated secondary metabolism/stress responses, suggesting this cluster centers on hormone biosynthesis and turnover.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0010421","count":1},{"id":"GO:0010023","count":1},{"id":"GO:0046244","count":1}]},{"hash":"1088072812164663853","title":"Multisystem organogenesis","description":"These proteins cluster around broad embryonic development and tissue morphogenesis across many organ systems\u2014heart, eye, placenta, limb, gonads, and neural structures\u2014rather than a single specific pathway. The shared theme is organogenesis and morphogenesis across multiple tissues, indicating a general developmental role. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":3},{"id":"GO:0035116","count":3},{"id":"GO:0060527","count":3},{"id":"GO:2000288","count":3},{"id":"GO:0003148","count":3}]},{"hash":"1199115276284247676","title":"Diverse Metabolic and Signaling Pathways","description":"Top GO terms indicate a mix of metabolic biosynthetic processes (cobalamin, fatty acids, oxaloacetate, sphingomyelin, kynurenic acid) and signaling pathways (Notch, insulin response, salicylic acid signaling). This diversity suggests the cluster does not reflect a single cohesive function but rather a set of proteins involved in multiple metabolic routes and signaling cascades, hence a broad, representative label.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009236","count":3},{"id":"GO:0055089","count":3},{"id":"GO:0007219","count":3},{"id":"GO:0019441","count":3},{"id":"GO:0034276","count":3}]},{"hash":"611110611528556775","title":"Developmental transcriptional regulation","description":"The top terms combine transcriptional control (negative regulation of RNA polymerase II transcription, chromatin remodeling) with multiple embryonic morphogenesis processes (pancreas development, ureteric bud branching, digestive tract morphogenesis, neural crest migration, brain region development), suggesting these proteins act as regulators of gene expression during development. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0031018","count":2},{"id":"GO:0090190","count":2},{"id":"GO:0048557","count":2},{"id":"GO:0001755","count":2}]},{"hash":"428432222777444077","title":"Isoprenoid Biosynthesis","description":"The terms show strong emphasis on terpenoid/isoprenoid production (farnesyl and geranylgeranyl diphosphate biosynthesis, monoterpene, cholesterol), suggesting a cluster centered on isoprenoid metabolism and prenyl-chain formation. Some other terms (cell division, stress responses) are less connected and may reflect broader cellular roles.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0071276","count":2},{"id":"GO:0033386","count":1},{"id":"GO:0033384","count":1}]},{"hash":"1615643102338288697","title":"DNA replication and repair proteins","description":"Based on the GO terms, the cluster is strongly associated with DNA metabolism, especially DNA replication (GO:0006260) and DNA recombination (GO:0006310), with a supporting DNA alkylation repair term (GO:0006307). Some additional terms like response to folic acid may relate to nucleotide synthesis needed for DNA and are less central. A few other terms are likely incidental annotations. Overall, the dominant theme is DNA replication and repair machinery.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006307","count":1},{"id":"GO:0051593","count":1},{"id":"GO:1902800","count":1}]},{"hash":"1618814635781648198","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":1},{"id":"GO:0046711","count":1},{"id":"GO:0090162","count":1},{"id":"GO:1903286","count":1},{"id":"GO:0016310","count":1}]},{"hash":"971084096490880107","title":"Neuronal Actin Dynamics and Signaling","description":"The dominant GO terms center on actin cytoskeleton regulation (barbed-end capping, actin cortical patches), GTPase signaling, integrin pathways, calcium transport, and neuronal differentiation, suggesting a module where actin remodeling drives signal transduction and neuronal maturation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":3},{"id":"GO:0051016","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0021773","count":2}]},{"hash":"667716236264467944","title":"Isoprenoid biosynthesis","description":"The top GO terms cluster around the synthesis of isoprenoid units such as geranyl, farnesyl, and geranylgeranyl diphosphates, plus related monoterpene and cholesterol biosynthesis. This points to a primary function in terpenoid/isoprenoid biosynthesis, with a few additional terms (ribosome biogenesis/ export, protein transport) likely representing incidental annotations or secondary roles. Overall, the dominant signal supports isoprenoid biosynthesis as the defining theme of this cluster.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033386","count":1},{"id":"GO:0033384","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0043693","count":1},{"id":"GO:0006695","count":1}]},{"hash":"1738167754599801231","title":"Transmembrane Amino Acid and GABA Transport","description":"Predominant GO terms describe transmembrane transport and import of several amino acids (D-aspartate, serine, glutamate, threonine) and amino acid transport in general, suggesting these proteins function as amino acid transporters with possible involvement in GABA-related pathways. A small number of cell-division-related terms appear but are not defining for the cluster. ","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070779","count":2},{"id":"GO:0009449","count":2},{"id":"GO:0032329","count":2},{"id":"GO:0055085","count":2},{"id":"GO:0051938","count":2}]},{"hash":"963015433388621694","title":"Lung morphogenesis and planar cell polarity","description":"Based on the Top Terms, the cluster centers on lung branching morphogenesis and planar polarity signals, including planar subdivision and orientation, as well as cell\u2013cell adhesion and receptor clustering that support coordinated epithelial morphogenesis. While a few terms are neuronal, the dominant pattern links development of lung structure and planar cell polarity, suggesting the proteins participate in PCP-guided tissue patterning and adhesion during morphogenesis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":3},{"id":"GO:0060488","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0043113","count":3},{"id":"GO:0060490","count":3}]},{"hash":"1617639612046986634","title":"Proteostasis and Heat Stress Response","description":"The cluster shows a strong tilt toward protein quality control and stress adaptation, with terms like aggresome assembly, ubiquitin-dependent ERAD pathway, chaperone-related refolding, and heat acclimation indicating proteostasis and heat response processes. While there are a few cell cycle-related terms (cell division, centriole elongation) present, they are less represented and do not dominate the function, so the primary theme is protein quality control and cellular stress response.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0072389","count":2},{"id":"GO:0045899","count":2},{"id":"GO:0033314","count":2}]},{"hash":"193566998399083461","title":"Sulfur-containing amino acid biosynthesis","description":"This cluster\u2019s GO terms cluster around the biosynthesis of several amino acids\u2014cysteine, serine, threonine, and tryptophan\u2014and include hydrogen sulfide metabolism, all of which point to amino acid biosynthetic pathways with a focus on sulfur-containing amino acids. Although some terms are obsolete, the shared theme of amino acid production and sulfur metabolism supports a coherent functional label. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019343","count":1},{"id":"GO:0000162","count":1},{"id":"GO:0006565","count":1},{"id":"GO:0009088","count":1},{"id":"GO:0019499","count":1}]},{"hash":"1000281205891832952","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":1},{"id":"GO:1904570","count":1},{"id":"GO:0071038","count":1},{"id":"GO:0006265","count":1},{"id":"GO:1903241","count":1}]},{"hash":"970476777154145061","title":"Clathrin-mediated vesicle trafficking","description":"The top GO terms converge on clathrin coat assembly and vesicle transport between endosomes and the Golgi, cargo loading, and regulation of endocytosis, indicating a module centered on clathrin-dependent trafficking and receptor handling.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048268","count":1},{"id":"GO:1902963","count":1},{"id":"GO:0045742","count":1},{"id":"GO:0015032","count":1},{"id":"GO:0098711","count":1}]},{"hash":"503585289857498918","title":"RNA splicing and post-transcriptional regulation in oogenesis","description":"The top GO terms cluster around alternative splicing regulation, spliceosome-associated splicing, mRNA stabilization/modification, and miRNA-mediated silencing, indicating post-transcriptional control; the presence of oocyte/ovarian axis specification terms suggests this regulation occurs in oocyte development.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:1903586","count":2},{"id":"GO:0008069","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0035278","count":2}]},{"hash":"333309461687484676","title":"Protein Turnover and Complex Assembly","description":"The top GO terms are dominated by proteostasis-related processes: proteasome assembly and ubiquitin-dependent protein catabolic process, along with protein complex formation (heterotrimerization) and metallopeptidase activity. These points suggest a unifying theme around protein turnover and assembly. Some terms (stamen formation, chlorophyll biosynthetic process, integrin signaling, T cell activation) appear as outliers across different systems, indicating the cluster may span diverse functionalities, but the prominent signals still center on protein processing and complex assembly.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048455","count":2},{"id":"GO:0043248","count":2},{"id":"GO:0015995","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0006929","count":1}]},{"hash":"1204981523017635142","title":"Cell adhesion and migration with immune signaling","description":"The cluster centers on processes related to cell movement and adhesion (substrate-dependent migration, integrin signaling, extravasation) and immune interactions (T cell activation, complement), with additional hints of matrix remodeling and development. This suggests a cohesive theme around cell trafficking and immune communication rather than a single metabolic function.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006929","count":1},{"id":"GO:0007229","count":1},{"id":"GO:1905050","count":1},{"id":"GO:0003429","count":1},{"id":"GO:0070208","count":1}]},{"hash":"1217114868505082697","title":"Calcium-driven signaling and vesicle trafficking","description":"The dominant GO terms point to calcium-dependent processes: calcium ion transport and cellular response to calcium, alongside signaling and vesicle dynamics such as phosphatidylinositol signaling, NFAT pathway regulation, synaptic vesicle endocytosis, and platelet degranulation. A few terms (kidney development, glycan processing, memory) may be ancillary or annotation noise, but the core theme appears to be calcium-related signaling and membrane trafficking.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070588","count":4},{"id":"GO:0071277","count":4},{"id":"GO:0072286","count":4},{"id":"GO:0051091","count":4},{"id":"GO:0006491","count":4}]},{"hash":"137163862775555405","title":"Unknown","description":"Reason: The GO terms cover metal transport (Cu, Zn, Cd), lipid and phospholipid metabolism, hormone response, epoxygenase P450 activity, and amino acid biosynthesis, with no clear, shared function linking all members.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":2},{"id":"GO:0006825","count":2},{"id":"GO:0070574","count":2},{"id":"GO:0033574","count":2},{"id":"GO:0019373","count":2}]},{"hash":"567608411037935629","title":"Splicing and translation initiation regulation","description":"The cluster includes GO terms tied to spliceosome-regulated alternative splicing, mRNA processing/stabilization, mRNA modification, and multiple aspects of translational initiation (including formation of the preinitiation complex and IRES-dependent initiation), plus miRNA-mediated silencing. This suggests a shared theme of coordinating RNA processing with control of translation. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:1903586","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0075522","count":2}]},{"hash":"2220818020072088471","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903206","count":2},{"id":"GO:0071630","count":1},{"id":"GO:0080058","count":1},{"id":"GO:0006458","count":1},{"id":"GO:0030433","count":1}]},{"hash":"666198706080553400","title":"Calcium signaling and Ca2+-dependent processes","description":"Top GO terms repeatedly point to calcium-related signaling and responses (calcium ion transport, cellular response to calcium ion, regulation of calcineurin-NFAT signaling, phosphatidylinositol-mediated signaling, and calcium-dependent processes like platelet degranulation and synaptic vesicle endocytosis). Although a couple terms reference kidney development and N-glycan processing that are not calcium-specific, the strongest and most cohesive theme across this cluster is calcium signaling and Ca2+-dependent cellular regulation, which supports a concise label focused on calcium signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":2},{"id":"GO:0071277","count":2},{"id":"GO:0072286","count":2},{"id":"GO:0051091","count":2},{"id":"GO:0006491","count":2}]},{"hash":"1484206504155842670","title":"Embryonic organ morphogenesis","description":"The top GO terms cluster around development and morphogenesis of multiple organs and epithelia (prostate gland epithelium differentiation, ureter development, floor plate and thymus epithelium morphogenesis, diencephalon cell migration) with related differentiation and morphogenesis processes, suggesting a unifying theme of embryonic tissue morphogenesis across organs rather than a single pathway.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019101","count":4},{"id":"GO:0060743","count":4},{"id":"GO:0061381","count":4},{"id":"GO:0060678","count":4},{"id":"GO:0002924","count":4}]},{"hash":"1172885325101330542","title":"Cell signaling and membrane dynamics","description":"The Top Terms point to intracellular signaling cascades (TORC2, CAMKK-AMPK) and membrane-related processes (phospholipid homeostasis, mitochondrial fission, vesicle endocytosis) along with aspects of cell shape/polarity and even tissue-level functions like heart contraction. This suggests a theme centered on regulation of signaling networks together with membrane and trafficking dynamics, rather than a single narrow function.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1904515","count":4},{"id":"GO:0099139","count":4},{"id":"GO:0055091","count":4},{"id":"GO:1900242","count":4},{"id":"GO:1905289","count":4}]},{"hash":"1472209240146575266","title":"Ubiquitin-Regulated Immune and Stress Signaling","description":"This cluster's terms center on protein ubiquitination and regulation of stress-activated JNK signaling, with concurrent themes in immune modulation (Th1 response, IL-23 production) and apoptosis, plus ancillary roles in cell cycle, epithelial polarity, and response to mechanical stimuli. The diverse, non-connected set suggests a broad regulatory hub rather than a single, cohesive pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0046330","count":3},{"id":"GO:2000171","count":3},{"id":"GO:0042088","count":3},{"id":"GO:0097284","count":3}]},{"hash":"1801089358697048048","title":"Actin remodeling and cell junction organization","description":"The top GO terms point to cytoskeletal dynamics (actin filament branching, podosome assembly) and cell\u2013cell adhesion structures (adherens junction organization), with a note on cellular response to mechanical stimulus. While other signaling pathways (T cell receptor, EGFR, Wnt) appear, the dominant theme across terms is actin-based remodeling linked to junctional organization. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000266","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0007173","count":3}]},{"hash":"1210625430788100992","title":"Cranial nerve axon guidance and paranodal organization","description":"The Top Terms are dominated by axon guidance, including commissural and branchiomotor neuron guidance, facial nerve structure, and paranodal junction/ paranode region assembly, plus related cranial placode development and ECM remodeling. This points to a coherent theme of cranial nerve development and axon pathfinding rather than broad vascular signaling. Confidence: High","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048010","count":4},{"id":"GO:0002175","count":3},{"id":"GO:0014909","count":2},{"id":"GO:0090091","count":2},{"id":"GO:0030913","count":2}]},{"hash":"1648739311132043032","title":"Energy-sensing signaling and lipid homeostasis","description":"Top GO terms point to energy metabolism and signaling\u2014negative regulation of oxidative phosphorylation, TORC2 signaling, and CAMKK-AMPK signaling\u2014along with phospholipid homeostasis and membrane/cytoskeletal processes like vesicle endocytosis and cell polarity. Though a few terms seem unrelated (e.g., sorocarp development, toxin transport), the dominant theme is coordination of cellular energy sensing with membrane dynamics and polarity. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090324","count":4},{"id":"GO:1904515","count":3},{"id":"GO:0099139","count":3},{"id":"GO:0055091","count":3},{"id":"GO:1900242","count":3}]},{"hash":"131340403064937737","title":"Neural development and signaling","description":"This cluster centers on brain development, neural tube patterning, and learning, with supporting processes in signaling (GTPase activity, TORC1) and vesicle trafficking/exocytosis, suggesting a cohesive role in neural development and neuronal signaling.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0051301","count":2},{"id":"GO:1904263","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0006888","count":2}]},{"hash":"1400106708014364442","title":"Cardiac and Skeletal Muscle Development","description":"The top terms cluster around heart lineage differentiation (cardioblasts, right ventricle formation, outflow tract morphogenesis) and skeletal muscle differentiation, with supporting neuroendocrine and organ-differentiation terms, suggesting a shared theme of embryonic muscle/heart development.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0003326","count":4},{"id":"GO:0003219","count":4},{"id":"GO:0061309","count":4},{"id":"GO:0061102","count":4},{"id":"GO:0035914","count":4}]},{"hash":"1673312572062040690","title":"Actin-driven cell polarization and migration","description":"This cluster is dominated by GO terms tied to actin cytoskeleton dynamics and cell movement, including polymerization and branching of actin filaments, ruffle and podosome assembly, and regulation of fibroblast migration and cell shape polarity. Additional terms related to phagocytic engulfment and immune signaling (T cell receptor pathway) reflect cytoskeletal remodeling during immune activation. Together these suggest proteins that coordinate actin remodeling to drive polarity and migration.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071963","count":4},{"id":"GO:0030838","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0043652","count":4},{"id":"GO:0090263","count":4}]},{"hash":"1072320707690667176","title":"Organogenesis and tissue differentiation","description":"The top GO terms cluster around developmental processes across multiple organs\u2014gonad and urogenital system development, endodermal fate, enterocyte differentiation, aortic valve morphogenesis, and cardiac tissue regeneration\u2014pointing to a broad organogenesis and lineage specification program. Immune signaling terms appear but seem ancillary to the main developmental theme. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":4},{"id":"GO:0072602","count":4},{"id":"GO:1903703","count":4},{"id":"GO:0001655","count":4},{"id":"GO:2000617","count":4}]},{"hash":"253465746942980420","title":"Ribosome Biogenesis and rRNA Processing","description":"Dominant terms relate to rRNA maturation (SSU/LSU) and ribosomal subunit biogenesis, with one term for mRNA splicing and a few unrelated biosynthetic terms. This points to a ribosome biogenesis/rRNA processing cluster.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0000466","count":2}]},{"hash":"2163079046760860586","title":"Mitophagy and Proteostasis Regulation","description":"The Top Terms converge on mitochondrial turnover and proteostasis: mitophagy, aggrosome assembly, and negative regulation of mitochondrial fusion point to mitochondrial quality control; ubiquitin-related processes (ubiquitin-dependent ERAD, protein autoubiquitination) indicate proteasomal regulation of protein homeostasis; negative regulation of vesicle formation and response to toxic substances further support a network of stress-responsive quality-control pathways.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1904049","count":3},{"id":"GO:0030433","count":3},{"id":"GO:1902283","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0033132","count":3}]},{"hash":"1966542788716154692","title":"Unknown","description":"The top GO terms span inner ear development (semicircular canal morphogenesis, vestibular reflex) and immune signaling (mast cell activation, monocyte aggregation, cytokine production), plus general cellular processes (cell division, ribosomal export, tRNA modification). The cluster shows no singular, cohesive function linking all proteins, and several terms are obsolete; with no edges connecting functions, a concise Unknown label with None confidence is appropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900625","count":1},{"id":"GO:0038097","count":1},{"id":"GO:0060005","count":1},{"id":"GO:0009444","count":1},{"id":"GO:0048752","count":1}]},{"hash":"2168899116748602288","title":"Wnt-regulated neural and sensory organ development","description":"The Top Terms cluster include regulation of the Wnt signaling pathway (2) and various neural/sensory organ morphogenesis terms (cochlea morphogenesis, amacrine cell differentiation, Purkinje cell differentiation, cerebral cortex regionalization). This suggests a theme of developmental processes in neural and sensory tissues governed by Wnt signaling. Other non-neural terms (embryonic heart/limb morphogenesis, gonad development) may reflect broader embryonic expression, but the strongest common thread among the most frequent terms is Wnt-mediated neural/sensory tissue development.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030111","count":2},{"id":"GO:0090103","count":2},{"id":"GO:1902871","count":1},{"id":"GO:0003168","count":1},{"id":"GO:0021796","count":1}]},{"hash":"1001868408640788935","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034474","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0030423","count":2}]},{"hash":"2232810977492254411","title":"RNA processing and translation regulation","description":"The dominant terms relate to RNA processing and translation (SSU-rRNA maturation, intron/splicing, RNA folding, translation and translational fidelity), with fewer terms tied to apoptosis and cytokine production. This suggests a cluster centered on RNA processing and protein synthesis control, hence the name. The lack of network edges reduces certainty.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0000462","count":1},{"id":"GO:0000372","count":1},{"id":"GO:0034337","count":1},{"id":"GO:0033120","count":1}]},{"hash":"1598367370258467357","title":"Unknown","description":"The GO terms cover kidney and duct development, lymphatic morphogenesis, cartilage condensation, basophil activation, Fc-gamma receptor signaling, and adhesion-related processes. There isn\u2019t a single cohesive function tying all four proteins together, indicating heterogeneous roles across development and immune signaling rather than one shared function.","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060355","count":3},{"id":"GO:0072218","count":3},{"id":"GO:0090238","count":3},{"id":"GO:0038094","count":3},{"id":"GO:0051873","count":3}]},{"hash":"667022007644948664","title":"Broad organ development and immune differentiation","description":"Top terms point to multicellular organism development across several organs (forebrain, heart, kidney, prostate gland) and to immune cell differentiation (gamma-delta T cells) and cytokine production (IL-4). The lack of a single, dominant function suggests a general developmental theme rather than a specific pathway, so a broad label best captures the cluster.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060528","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0042691","count":2},{"id":"GO:0003219","count":2}]},{"hash":"1159254034535612761","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000480","count":2}]},{"hash":"116170375008552122","title":"Nuclear transport and mitotic chromosome dynamics","description":"The GO terms show a clear emphasis on nuclear transport of ribosomal components (import/export) and on mitotic chromosome behaviors (alignment and movement during mitosis), suggesting a cluster of proteins involved in nuclear-cargo transport tied to cell division processes. Other transport-related terms (splicing factor import, intraciliary transport) reinforce a broader transport-related theme, but the combination with mitotic chromosome dynamics best characterizes the cluster.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0035048","count":3},{"id":"GO:0007080","count":3},{"id":"GO:0035735","count":3},{"id":"GO:0045465","count":3}]},{"hash":"1110408614625419271","title":"Cell Cycle Regulation and Proteostasis","description":"This cluster centers on mitosis and protein turnover, with strong signals for mitotic cell cycle, anaphase-promoting complex-dependent catabolic process, and K11-linked ubiquitination, suggesting coordinated regulation of protein degradation during cell division. Other terms like RNA splicing and responses to cadmium or metabolic regulation are present but appear peripheral to the core theme, which supports a label focused on cell-cycle control and proteostasis.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090526","count":2},{"id":"GO:0008380","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0070979","count":2}]},{"hash":"2240755264084850342","title":"Ribosome Biogenesis and Translation","description":"The GO terms show maturation of SSU rRNA, biogenesis and assembly of both small and large ribosomal subunits, and translation, indicating proteins focused on ribosome assembly and protein synthesis.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0042273","count":1},{"id":"GO:0042274","count":1},{"id":"GO:0000028","count":1},{"id":"GO:0006412","count":1}]},{"hash":"1910733975220319249","title":"GPCR-Mediated Signaling Across Systems","description":"The top GO terms cluster around G protein-coupled receptor signaling and downstream cAMP regulation, spanning adrenergic, dopaminergic, histaminergic, and chemokine-related pathways. This includes T cell chemotaxis, dopaminergic synaptic transmission, vasoconstriction, thermogenesis, and negative regulation of adenylate cyclase, all pointing to GPCR-driven signaling as the unifying theme.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010818","count":4},{"id":"GO:0071881","count":4},{"id":"GO:0031649","count":4},{"id":"GO:0001963","count":4},{"id":"GO:0001697","count":4}]},{"hash":"1196570327518705943","title":"Neural development and synaptic signaling","description":"The cluster is enriched for neural-related terms: learning, striatal medium spiny neuron differentiation, and trans-synaptic signaling with modulated synaptic transmission. Additional terms touch on neuronal differentiation, transcription regulation, and apoptosis, suggesting a neuronal development/synaptic function theme with some outliers.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0007612","count":1},{"id":"GO:0021773","count":1},{"id":"GO:0043507","count":1}]},{"hash":"941658158746356834","title":"Neuronal GPCR\u2013cAMP signaling","description":"The top GO terms point to a cohesive pattern of G protein-coupled receptor signaling (dopamine, adenosine, adrenergic) with modulation of adenylyl cyclase and cAMP, plus behavioral associations (locomotion, conditioned taste aversion) and prostaglandin-driven responses. This suggests a neuronal signaling cluster centered on GPCR pathways controlling cAMP dynamics, with neuromodulatory roles across behaviors.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0007195","count":2},{"id":"GO:0071380","count":2},{"id":"GO:0007190","count":2},{"id":"GO:0007191","count":2}]},{"hash":"1639036136644438733","title":"Autonomic Nervous System Signaling","description":"This cluster centers on neural and autonomic signaling, highlighted by adrenergic receptor pathways, norepinephrine/epinephrine\u2013related vasoconstriction, dopaminergic synaptic transmission, and negative regulation of adenylyl cyclase. Heat generation and locomotory/behavioral terms align with sympathetic nervous system effects, while a few outliers like T cell chemotaxis can be linked to GPCR-mediated signaling in broader physiological contexts. Overall, the proteins seem tied to autonomic GPCR signaling and neural regulation of physiology.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010818","count":2},{"id":"GO:0071881","count":2},{"id":"GO:0031649","count":2},{"id":"GO:0001963","count":2},{"id":"GO:0001697","count":2}]},{"hash":"2285057574577145745","title":"Unknown","description":"The four proteins show a mix of GO terms across innate immunity, cell division, metabolic and developmental signaling, and post-translational modification, with no clear shared pathway or functional theme and no detectable interactions. This lack of cohesion makes it impractical to assign a concise, representative label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0051301","count":4},{"id":"GO:2000531","count":4},{"id":"GO:0060613","count":4},{"id":"GO:0009736","count":4}]},{"hash":"233860573334580045","title":"Unknown","description":"The top GO terms span innate immune response, cell division, photosynthesis, hormone signaling, and other processes, with no single unifying function. There are no reported interactions among the proteins (edges 0), so the cluster lacks a cohesive biological theme. Therefore a precise, representative label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0051301","count":2},{"id":"GO:2000531","count":2},{"id":"GO:0009736","count":2},{"id":"GO:0046661","count":2}]},{"hash":"698166168864233472","title":"DNA replication and cell cycle progression","description":"The top GO terms cluster DNA replication (and initiation), cell division, exit from mitosis, and regulation of mitotic spindle assembly, indicating a core focus on genome duplication and mitotic control. Additional terms related to chromatin dynamics (histone ubiquitination) and ubiquitin-dependent protein catabolism during ribosome-associated processes support a broader theme of protein turnover and chromatin regulation during replication/mitosis. Some peripheral terms (peroxisomal import, ER fusion) may reflect auxiliary or housekeeping connections rather than core function. Overall, the cluster is best described as genes involved in DNA replication and cell cycle progression with supportive roles in chromatin regulation and proteostasis.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034599","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006270","count":2},{"id":"GO:0016558","count":2},{"id":"GO:0051301","count":2}]},{"hash":"902623874523331885","title":"Unknown","description":"The terms span triglyceride and cholesterol metabolism, methylation, development (female gonad development, maternal parturition), xenobiotic and copper ion responses, cell cycle regulation, and various catabolic processes. This broad and heterogeneous mix lacks a single coherent function or pathway tying all proteins together, and there are no edges to reinforce a specific theme. Therefore, a precise functional label cannot be confidently assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006641","count":3},{"id":"GO:0032259","count":3},{"id":"GO:0008585","count":3},{"id":"GO:0006707","count":3},{"id":"GO:0019341","count":3}]},{"hash":"2122091796865078502","title":"Glucose and Ion Transport Membrane Proteins","description":"The top GO terms point to transmembrane transport activities across multiple substrates: glucose transport (and glucose starvation response), sodium-dependent organic cation transport, phosphate and nitrate transmembrane transport, xenobiotic transmembrane transport, and even neurotransmitter loading into vesicles. This pattern suggests a cluster of membrane transporter proteins specialized in moving sugars, ions, and related metabolites (and associated vesicular transport), rather than a single narrow function. The collection is coherent around membrane transport roles, despite diverse substrate types.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":4},{"id":"GO:0044381","count":4},{"id":"GO:0070715","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0015706","count":4}]},{"hash":"2086350834795275913","title":"Multisystem Organogenesis and Development","description":"The cluster\u2019s terms point to developmental processes across several organ systems (heart morphogenesis, bone ossification, metanephric development, multicellular organism development) with additional hints of neural/muscular function (neurotransmitter secretion, memory, diaphragm contraction). N-glycan processing also aligns with protein maturation during development. While the signals are diverse, the common thread is broad developmental and organogenesis activity across tissues, rather than a single focused function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006491","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0007613","count":2},{"id":"GO:0072221","count":2},{"id":"GO:0007269","count":2}]},{"hash":"110505688564328527","title":"Unknown","description":"This cluster's GO terms are highly heterogeneous, spanning vitamin D response, triglyceride and cholesterol metabolism, multiple xenobiotic catabolic processes (camphor, dioxin), methylation, and a few development or regulatory terms, with no obvious shared biological function or molecular activity; the absence of edges and the dispersed terms suggest no cohesive theme.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0006641","count":1},{"id":"GO:0032259","count":1},{"id":"GO:0008585","count":1},{"id":"GO:0006707","count":1}]},{"hash":"1195805162511026473","title":"Sterol and sphingolipid metabolism","description":"The top GO terms cluster around lipid biosynthesis and sterol/sphingolipid pathways: unsaturated fatty acid biosynthesis, regulation of ergosterol biosynthetic process, and mannosyl-inositol phosphorylceramide metabolic process suggest a lipid/sterol metabolism theme. Some other terms (nitric oxide, nitrate assimilation, etc.) appear as noise or multifunctional annotations, but the core signal points to sterol and sphingolipid metabolism, possibly fungal-related given ergosterol involvement.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006809","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0001949","count":2},{"id":"GO:0006636","count":2},{"id":"GO:0000001","count":2}]},{"hash":"2033653204915537609","title":"Unknown","description":"The GO terms here span neural processes (learning, neuron differentiation, trans-synaptic signaling) as well as broad developmental and cellular functions (eye cone differentiation, cloacal septation, urogenital system development, keratinocyte proliferation, telomere-related regulation), with no clear unifying function or pathway. Because there isn\u2019t a cohesive theme linking these terms to a specific, concise biological function, a singular informative label cannot be confidently assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":1},{"id":"GO:0021773","count":1},{"id":"GO:0043507","count":1},{"id":"GO:0060197","count":1},{"id":"GO:1904357","count":1}]},{"hash":"578850827349850247","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":2},{"id":"GO:0006396","count":2},{"id":"GO:0000381","count":1},{"id":"GO:1903586","count":1},{"id":"GO:0000389","count":1}]},{"hash":"263218986506930332","title":"LDLR-Associated Lipid Uptake and Peptide Processing","description":"This cluster shows a strong signal for LDL receptor\u2013related processes, including positive regulation of LDL particle receptor catabolic process, LDL receptor activity, and receptor recycling, pointing to a core function in LDL receptor\u2013mediated lipid uptake. There are also terms tied to peptide hormone processing (insulin processing, enkephalin processing, peptide pheromone maturation), which may reflect shared proteolytic processing activities in the same protein family. A few terms (e.g., zygotic axis determination) are less connected and could reflect annotation noise or broader developmental roles. Overall, the LDL receptor\u2013related lipid handling theme is the strongest, with peptide processing as a secondary supporting signal.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1905596","count":2},{"id":"GO:0032805","count":2},{"id":"GO:0007354","count":2},{"id":"GO:0032802","count":2},{"id":"GO:1905598","count":2}]},{"hash":"1978109223289920994","title":"Histone acetylation and heterochromatin regulation","description":"The top GO terms cluster around histone modification and chromatin state control, notably acetylation of histones H2A, H3, and H4, and the regulation of heterochromatin formation. This suggests proteins in the cluster are involved in chromatin remodeling and epigenetic regulation rather than cytoskeletal or signaling processes. Some terms are obsolete or peripheral (germline division, DNA damage response), but the core theme remains chromatin state control.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061188","count":1},{"id":"GO:0043968","count":1},{"id":"GO:0048133","count":1},{"id":"GO:0006978","count":1},{"id":"GO:0008285","count":1}]},{"hash":"1321042199813749536","title":"Embryonic development and neural differentiation","description":"The top GO terms point to neural differentiation (amacrine and Purkinje cells, cortical regionalization, spinal cord neuron specification) as well as broad embryonic morphogenesis (hindlimb, heart tube patterning, cartilage, gonad development), suggesting a theme of developmental patterning and tissue specification rather than a single specific function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902871","count":1},{"id":"GO:0003168","count":1},{"id":"GO:0021796","count":1},{"id":"GO:0021920","count":1},{"id":"GO:0008584","count":1}]},{"hash":"1467472489557733","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090090","count":2},{"id":"GO:0007158","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0048254","count":1},{"id":"GO:0000472","count":1}]},{"hash":"699037619941219894","title":"MAPK signaling in angiogenesis and synaptic modulation","description":"This cluster is dominated by GO terms pointing to signaling pathways, notably ERK1/ERK2 cascade and angiogenesis, alongside neuronal signaling processes (long-term potentiation and trans-synaptic signaling). While there are some diverse terms (apoptosis, IL-4 production), the shared theme appears to be MAPK/ERK\u2013mediated signaling that can coordinate vascular growth and synaptic function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0060291","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0014068","count":3}]},{"hash":"1125543367398771680","title":"Actin Dynamics in Development","description":"The top GO terms cluster around actin cytoskeleton regulation (Arp2/3-mediated nucleation, actin filament organization, phosphorylation), developmental processes (multicellular organism development, heart development, visual perception), and cell cycle control (mitotic cell cycle, G2/M transition), indicating a group of proteins coordinating cytoskeletal remodeling with development and division.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0000278","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0007121","count":2},{"id":"GO:0043065","count":2}]},{"hash":"1749859405240996410","title":"Vacuolar Metal and Xenobiotic Transport","description":"This cluster centers on membrane transport and vesicle trafficking into vacuoles, highlighted by cadmium and phytochelatin import, cysteine and xenobiotic transport, and vesicle docking; some outlier terms (MHC I antigen processing, bacteriocin immunity) appear but do not define the main theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036249","count":2},{"id":"GO:0032782","count":2},{"id":"GO:0046689","count":2},{"id":"GO:0042883","count":2},{"id":"GO:0006904","count":2}]},{"hash":"1252454953573558484","title":"Integrin signaling and adhesion regulation","description":"The cluster shows strong enrichment for integrin-mediated signaling and regulation of adhesion, with additional terms related to receptor clustering, synapse localization, and cytoskeletal remodeling (stress fiber assembly) and axon regeneration. This suggests a cohesive role in integrin-driven adhesion signaling coordinating cytoskeletal dynamics and polarity.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0033628","count":3},{"id":"GO:0035418","count":3},{"id":"GO:0043113","count":3}]},{"hash":"1186790402975834964","title":"Unknown","description":"The top GO terms are scattered across metabolism (coenzyme A biosynthesis), signaling (peptide hormone response), cell-cycle regulation (G1/S transition), redox balance, and various obsolete terms, with no single cohesive function tying all four proteins together; the lack of network structure and the heterogeneity of terms support labeling this cluster Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":2},{"id":"GO:0071375","count":1},{"id":"GO:1900087","count":1},{"id":"GO:0045454","count":1},{"id":"GO:0080111","count":1}]},{"hash":"428111787633137743","title":"Innate Immune Response and Regulation","description":"The top GO terms cluster around innate immunity (innate immune response, opsonization, response to yeast) and inflammatory control (negative regulation of acute inflammatory response, regulation of reactive oxygen species), suggesting a shared immune-related function despite some heterogeneity in the terms.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008355","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0044871","count":1},{"id":"GO:0032930","count":1},{"id":"GO:0097756","count":1}]},{"hash":"1670306454738631867","title":"Cajal body organization proteins","description":"This cluster is labeled based on the GO term GO:0030576 (Cajal body organization), suggesting a link to nuclear Cajal body assembly/maintenance. Although only one member carries that term and there are no interaction data, the shared functional theme points to Cajal body biology as a tentative grouping.","confidence":"Low","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030576","count":1}]},{"hash":"1533725041043579755","title":"RNA Pol II Transcription Regulation and Neurodevelopment","description":"This cluster shows a strong emphasis on RNA polymerase II\u2013driven transcription initiation and regulation, with several neural differentiation terms (amacrine and Purkinje cell differentiation, cerebral cortex regionalization, spinal cord neuron specification) also present. The combination suggests proteins involved in transcription control that are linked to neurodevelopmental processes; the presence of a few non-neural differentiation terms broadens the context but does not contradict the overall theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006367","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0042795","count":1},{"id":"GO:1902871","count":1},{"id":"GO:0003168","count":1}]},{"hash":"579625329858406005","title":"Transmembrane nutrient and ion transport","description":"This cluster is enriched for GO terms involving transmembrane transport of glucose, phosphate, nitrate, xenobiotics, and organic cations, plus glucose-related starvation response and vesicle-associated neurotransmitter loading. The unifying theme is membrane transport and nutrient/ion handling, suggesting a group of transporter-related proteins. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":4},{"id":"GO:0044381","count":4},{"id":"GO:0070715","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0015706","count":4}]},{"hash":"666995815883808412","title":"Multisystem Development and Differentiation","description":"The GO terms show a broad theme of developmental processes across multiple tissues, notably cardiac development (right ventricle formation, outflow tract morphogenesis, ventricular trabecula morphogenesis) and neural crest involvement, with additional organogenesis terms (auditory receptor cell fate, metanephric development). Immune differentiation terms (IL-4 production, gamma-delta T cell differentiation) and general multicellular organism development further support a role in broad differentiation pathways rather than a single process. This justifies a label centered on multisystem development and differentiation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0042691","count":3},{"id":"GO:0003219","count":3},{"id":"GO:0061309","count":3},{"id":"GO:0003222","count":3}]},{"hash":"1642160728560871670","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006541","count":2},{"id":"GO:0019240","count":1},{"id":"GO:1903718","count":1},{"id":"GO:0032868","count":1},{"id":"GO:0006177","count":1}]},{"hash":"1678279183949491058","title":"GABAergic signaling and locomotor behavior","description":"GO terms point to GABAergic neurotransmission (GABA signaling, GABA receptor clustering) and associated neuronal excitability (calcium ion import, excitatory postsynaptic potential), alongside behavioral phenotypes like startle response, locomotory behavior, righting reflex, and circadian sleep regulation. This suggests proteins involved in inhibitory signaling that modulates movement and circadian-linked behaviors, hence the name.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098703","count":3},{"id":"GO:0001964","count":3},{"id":"GO:0045188","count":3},{"id":"GO:0007214","count":2},{"id":"GO:0060013","count":2}]},{"hash":"613666756127287601","title":"Unknown","description":"The terms include developmental fate in eye and wing tissues, immune regulation, unfolded protein response, EGFR ligand maturation, spermatid differentiation, ER-to-cytosol proteolysis, nitrogen and ammonium transport, and growth under glucose limitation, with no shared process or network; no edges or triangles reinforce a lack of cohesion. Therefore no coherent label can be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042676","count":1},{"id":"GO:0035311","count":1},{"id":"GO:0032815","count":1},{"id":"GO:0034620","count":1},{"id":"GO:0038005","count":1}]},{"hash":"510705166305745836","title":"T cell activation and cytoskeletal remodeling","description":"This cluster centers on immune signaling terms such as T cell activation via TCR\u2013MHC, antigen receptor\u2013mediated signaling, and IL-4 production, suggesting adaptive immune responsiveness. The presence of terms related to cell motility and cytoskeletal dynamics (positive regulation of fibroblast migration, regulation of filopodium assembly) alongside hyaluronan metabolism points to coordinated immune signaling with cell movement and extracellular matrix remodeling. While some terms are more general (mitotic cytokinesis, apoptosis), the dominant theme appears to be T cell\u2013driven signaling coupled with cytoskeletal rearrangements and migration.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010763","count":2},{"id":"GO:0010748","count":2},{"id":"GO:0030212","count":2},{"id":"GO:0002291","count":2},{"id":"GO:0000281","count":1}]},{"hash":"1147842723243634477","title":"Unknown","description":"The GO terms span several distinct themes (Notch signaling, various amino acid/katabolic/metabolic processes, cobalamin biosynthesis, fatty acid homeostasis, insulin signaling, and plant immune signaling) with no single unifying function. Given the small cluster size and low connectivity, there isn\u2019t a coherent biological label that meaningfully represents all proteins in this cluster.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007219","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0097053","count":2},{"id":"GO:0009236","count":1},{"id":"GO:0055089","count":1}]},{"hash":"1126499623598698869","title":"Unknown","description":"The GO terms across this cluster span oxidation-reduction, immune cell chemotaxis, neural stem cell maintenance, hair follicle and pollen-related development, and various biosynthetic processes (lipids, waxes, phenylpropanoids, O antigens). With no edges among the three proteins and no clear shared pathway, there is no cohesive function to label; thus Unknown with no confidence. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0035754","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0001942","count":1},{"id":"GO:0008611","count":1}]},{"hash":"1067877630123190533","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":1},{"id":"GO:2001059","count":1},{"id":"GO:0044209","count":1},{"id":"GO:0006169","count":1},{"id":"GO:0009744","count":1}]},{"hash":"1576660194277981208","title":"Amino acid biosynthesis and metabolism","description":"Proteins in this cluster are linked to several amino acid\u2013related processes (cysteine, threonine, D-serine, homocysteine, hydrogen sulfide) and related central carbon metabolism (pyruvate). Some terms shown (e.g., phosphorylation, morphine response) are more general or incidental, but the dominant theme is amino acid biosynthesis and metabolism, suggesting these proteins function in related metabolic pathways.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019343","count":1},{"id":"GO:0070689","count":1},{"id":"GO:0019499","count":1},{"id":"GO:0070179","count":1},{"id":"GO:0042866","count":1}]},{"hash":"326063421308523877","title":"Unknown","description":"The top GO terms are very heterogeneous (skin differentiation, vision, placental morphogenesis, GPCR signaling, immune regulation, fibrinolysis), with no dominant shared function among the proteins. Because there is no cohesive biological theme, a specific label is not warranted.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097211","count":1},{"id":"GO:0043031","count":1},{"id":"GO:0043129","count":1},{"id":"GO:0030216","count":1},{"id":"GO:0007601","count":1}]},{"hash":"1765401256538602797","title":"Unknown","description":"The top GO terms are highly heterogeneous and include several obsolete annotations, with no clear unifying function across the three proteins. Metabolic, redox, splicing, and catabolic processes appear without a coherent theme to tie them together, so a specific label cannot be reliably assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006103","count":1},{"id":"GO:0045654","count":1},{"id":"GO:0006214","count":1},{"id":"GO:0051573","count":1}]},{"hash":"1402100811338698171","title":"Bacterial secondary metabolism and lipid pathways","description":"The GO terms cluster around production pathways typical of bacteria, including siderophore biosynthesis, menaquinone biosynthesis, nonribosomal peptide biosynthesis (NRPS-related activation), and various fatty acid metabolic processes. While some terms (like seed coat development) seem discordant, the dominant themes point to microbial specialized metabolism and lipid-related biosynthesis, supporting a label focused on bacterial secondary metabolism and lipid pathways.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":2},{"id":"GO:0044539","count":2},{"id":"GO:0043041","count":2},{"id":"GO:0000038","count":2},{"id":"GO:0008218","count":2}]},{"hash":"2103935009644550293","title":"Small-Molecule Metabolism and Stress Response","description":"The GO terms show metabolism of various small molecules (retinoic acid, fructose, xylitol, ethanol, fatty acids) alongside redox processes and cellular stress responses (nitrosative/osmotic stress, response to antineoplastic agents). This points to a cluster centered on diverse metabolic processing with associated stress regulation, rather than a single, tight pathway. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042573","count":2},{"id":"GO:1900116","count":2},{"id":"GO:0097327","count":2},{"id":"GO:0051409","count":2},{"id":"GO:0046370","count":2}]},{"hash":"1975132353622115984","title":"Unknown","description":"The top GO terms show a mix of lipid metabolism, xenobiotic and other catabolic processes, development-related terms, and cell-cycle/response terms, with no clear shared function linking the proteins. Therefore, a single cohesive label cannot be confidently assigned.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006641","count":2},{"id":"GO:0032259","count":2},{"id":"GO:0008585","count":2},{"id":"GO:0006707","count":2},{"id":"GO:0019341","count":2}]},{"hash":"451946157332920061","title":"Proteoglycan biosynthesis and protein tyrosine sulfation","description":"The set is dominated by proteoglycan biosynthesis terms (keratan sulfate and heparin proteoglycan biosynthetic processes) and peptidyl-tyrosine sulfation, suggesting a focus on extracellular matrix component production and a specific post-translational modification pathway; the other metabolic terms (lactate/ethanol catabolism, etc.) seem less cohesive with this theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006478","count":2},{"id":"GO:0015945","count":1},{"id":"GO:0019516","count":1},{"id":"GO:1903457","count":1},{"id":"GO:0008611","count":1}]},{"hash":"250925093921086827","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090727","count":2},{"id":"GO:0044205","count":2},{"id":"GO:0019647","count":2},{"id":"GO:0006207","count":2},{"id":"GO:0019854","count":2}]},{"hash":"727442309443797136","title":"Proteoglycan Biosynthesis and Sulfation","description":"The top GO terms cluster around biosynthesis of proteoglycans (keratan sulfate, dermatan sulfate, heparin/heparan sulfate) and related sulfation/modification processes (protein sulfation, sulfate assimilation), indicating a shared function in assembling and modifying proteoglycans. A few terms like estrogen or ethanol catabolic processes appear incidental and do not define the core theme.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006068","count":2},{"id":"GO:0018146","count":2},{"id":"GO:0030205","count":2},{"id":"GO:0030210","count":2},{"id":"GO:0002002","count":2}]},{"hash":"1016501564895893938","title":"Actin Cytoskeleton Remodeling and Muscle Contraction","description":"Based on the dominant GO terms, the cluster centers on actin filament dynamics (depolymerization, contractile ring assembly, microspike assembly) and regulation of muscle contraction, with supporting roles in cell shape, adhesion, and exocytosis. These collectively point to cytoskeletal remodeling and contractile processes governing movement and cellular organization, despite some terms being peripheral. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035626","count":1},{"id":"GO:0030042","count":1},{"id":"GO:1990735","count":1},{"id":"GO:1903477","count":1},{"id":"GO:1900024","count":1}]},{"hash":"2245489041134427453","title":"Cytokine Production and Immunoglobulin Switching","description":"This cluster is driven by immune-related GO terms, notably positive regulation of IL-6 and TNF production and isotype switching to IgG, indicating inflammatory signaling and antibody maturation processes. Other terms (cell division, Cajal body localization) are less cohesive with the main immune theme, suggesting additional, but secondary, functions. Overall, the strongest signal is immune cytokine regulation, so this label is a reasonable summary, albeit with some uncertainty due to the small size and mixed terms.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:2000778","count":3},{"id":"GO:0052212","count":3},{"id":"GO:1904874","count":3},{"id":"GO:1901998","count":3}]},{"hash":"1525902664928604909","title":"ER stress and protein folding regulation","description":"This cluster centers on responses to unfolded proteins and ER-associated protein targeting, pointing to roles in protein quality control during ER stress and maintenance of proteostasis. The presence of negative regulation of protein aggregation and ER-stress\u2013related apoptosis terms supports a focus on protein folding stress management, though iron-sulfur cluster assembly appears less central. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016226","count":3},{"id":"GO:0034620","count":3},{"id":"GO:0090084","count":3},{"id":"GO:1902037","count":3},{"id":"GO:1903382","count":3}]},{"hash":"1985601999712117494","title":"Microtubule-Driven Mitosis and Transport","description":"The top GO terms are dominated by microtubule-dependent processes: mitotic centrosome separation, mitotic metaphase chromosome alignment, plus-end-directed vesicle transport along microtubules, and nuclear migration along microtubules, with related actomyosin ring assembly during cytokinesis. While a few terms touch broader developmental processes, the common thread is microtubule-based organization and movement driving cell division and intracellular transport, suggesting this cluster represents microtubule-driven mitosis and trafficking functions.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":1},{"id":"GO:0072092","count":1},{"id":"GO:0007080","count":1},{"id":"GO:0072383","count":1},{"id":"GO:0048364","count":1}]},{"hash":"866605810422504621","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042068","count":2},{"id":"GO:0048235","count":2},{"id":"GO:0003382","count":2},{"id":"GO:2001046","count":2},{"id":"GO:0061158","count":2}]},{"hash":"1841839606909363111","title":"Nuclear RNA Processing and Quality Control","description":"The terms cluster around rRNA maturation, snoRNA release, mRNA splicing, and nuclear RNA surveillance/decay, pointing to a shared function in nuclear RNA maturation and quality control.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014070","count":2},{"id":"GO:0000462","count":1},{"id":"GO:1990417","count":1},{"id":"GO:0071042","count":1},{"id":"GO:0001111","count":1}]},{"hash":"1810026078513671837","title":"Calcium-Dependent Signaling and Vesicle Dynamics","description":"A set of terms centers on calcium signaling\u2014calcium ion transport, response to calcium, and calcineurin-NFAT signaling\u2014and membrane/vesicle-related processes (phosphatidylinositol signaling, synaptic vesicle endocytosis). While a couple of terms touch other contexts (kidney development, caffeine response), the dominant pattern points to calcium-driven signaling and vesicle trafficking across cell types, suggesting a cohesive theme for the cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":1},{"id":"GO:0071277","count":1},{"id":"GO:0072286","count":1},{"id":"GO:0071313","count":1},{"id":"GO:0002576","count":1}]},{"hash":"750638112719659957","title":"Endosome-Golgi-Vacuole Trafficking","description":"The top GO terms point strongly to intracellular vesicle transport within the endomembrane system, including endocytosis, Golgi-to-endosome and endosome-to-vacuole pathways, and multivesicular body sorting. This suggests a cohesive role in vesicle trafficking and sorting toward the vacuole/lysosome, with actin patch assembly supporting endocytic machinery. Some developmental terms appear incidental and do not define the cluster\u2019s primary function. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006623","count":2},{"id":"GO:0009997","count":2},{"id":"GO:0007565","count":2},{"id":"GO:0032511","count":2},{"id":"GO:0015032","count":2}]},{"hash":"120789898685097431","title":"Cell cycle progression and transcription regulation","description":"The proteins are predominantly annotated with terms related to cell division, regulation of cyclin-dependent kinases, kinase activation, transcriptional regulation during DNA-templated processes, and mitotic transitions (with occasional references to meiosis and development). This supports a cohesive theme of coordinating cell cycle progression with transcriptional control, making a label like \u201cCell cycle progression and transcription regulation\u201d appropriate. While there are some development-related terms, the dominant signal is cell division control.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":1},{"id":"GO:0045737","count":1},{"id":"GO:0060303","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0045893","count":1}]},{"hash":"1765388178325624874","title":"Integrin signaling and ECM adhesion","description":"The cluster\u2019s top GO terms are dominated by integrin-mediated signaling and cell-matrix adhesion, including calcium-independent adhesion and hyaluronan metabolism, pointing to extracellular matrix interactions. Developmental processes like cartilage morphogenesis and endodermal differentiation, plus ECM-related remodeling terms, suggest a role in tissue development and repair, with occasional inflammation-related terms (complement activation, coagulation) that can accompany wound healing. Overall, the core theme appears to be ECM engagement and integrin-driven adhesion signaling.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":2},{"id":"GO:0006956","count":1},{"id":"GO:0035987","count":1},{"id":"GO:0007596","count":1},{"id":"GO:0006929","count":1}]},{"hash":"388183942196915218","title":"Membrane trafficking and lipid homeostasis","description":"The top terms emphasize ER-to-Golgi vesicle transport and COPII coating, plus vesicle endocytosis and phospholipid homeostasis, with mitochondrial fission also tying to membrane remodeling; together these point to a membrane trafficking and lipid regulation theme, though a few terms reflect broader signaling or tissue-specific functions.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0003400","count":3},{"id":"GO:1904515","count":2},{"id":"GO:0099139","count":2},{"id":"GO:0055091","count":2}]},{"hash":"210040751383949332","title":"Cortical neuron migration and glutamate receptor signaling","description":"The terms point to cortical development and neuronal migration (cerebral cortex tangential migration, layer formation, ventral spinal cord development, lateral motor column neuron migration) together with synaptic glutamate signaling and receptor organization (Reelin-mediated signaling, NMDA/AMPA receptor activity, and receptor clustering). This suggests a coherent module where migrating neurons also engage in glutamatergic synapse formation/regulation, including Reelin signaling that guides cortical layering. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021800","count":1},{"id":"GO:1902078","count":1},{"id":"GO:2000310","count":1},{"id":"GO:0097114","count":1},{"id":"GO:0021517","count":1}]},{"hash":"1476932305406877082","title":"Lipid biosynthesis and membrane trafficking","description":"The GO terms point mainly to lipid metabolism (phosphatidylglycerol and phosphatidylcholine biosynthesis, vitamin E metabolism) and membrane trafficking (Golgi to plasma membrane transport, lysosome organization). A few terms about development are less cohesive, but the core signal across the cluster is lipid homeostasis and vesicle transport.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051452","count":1},{"id":"GO:1901352","count":1},{"id":"GO:0001892","count":1},{"id":"GO:0007584","count":1},{"id":"GO:0007040","count":1}]},{"hash":"1073114689873036736","title":"Cell Polarity and Exocytosis Regulation","description":"This cluster is driven by GO terms about establishing and maintaining cell polarity (neuroblast polarity, epithelial planar polarity, epithelial polarity) and by exocytosis and its regulation, suggesting a cohesive theme around polarized cell organization and secretion processes. Some unrelated terms appear, but the polarity/exocytosis axis is the most representative signal.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045196","count":1},{"id":"GO:0016334","count":1},{"id":"GO:0032878","count":1},{"id":"GO:0048919","count":1},{"id":"GO:0035212","count":1}]},{"hash":"952898271654191494","title":"Thermoception and Temperature Sensing","description":"The dominant GO terms are thermoception (GO:0050955) and detection of temperature stimulus involved in thermoception (GO:0050960), pointing to a shared role in temperature sensing. While other terms touch on development or general cellular processes, the temperature-related annotations form the core signal for this cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050955","count":1},{"id":"GO:0071901","count":1},{"id":"GO:2000340","count":1},{"id":"GO:0060743","count":1},{"id":"GO:1904357","count":1}]},{"hash":"1702962680644407070","title":"Neuronal development and synaptic signaling","description":"This cluster centers on nervous system development and neural connectivity, with terms like CNS development, vestibular receptor morphogenesis, trans-synaptic signaling, and axonogenesis, plus hedgehog/Smoothened pathway involvement, suggesting roles in neuronal growth, differentiation, and synaptic communication.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060116","count":3},{"id":"GO:0002175","count":3},{"id":"GO:0030336","count":3},{"id":"GO:0099557","count":3},{"id":"GO:0030513","count":3}]},{"hash":"1777744875381111324","title":"Neuronal development and synaptic vesicle trafficking","description":"This cluster combines GO terms tied to nervous system development (neural tube patterning, nervous system development, learning) with vesicle-related processes (synaptic vesicle budding, calcium ion-dependent exocytosis, Golgi to plasma membrane transport, endosome to lysosome transport), suggesting a core role in neuronal differentiation and neurotransmitter release, with vesicle trafficking as a unifying mechanism. Some cell cycle/polarity terms may reflect general cellular logistics in neural progenitors but do not override the neuronal emphasis.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021532","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007612","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0045956","count":2}]},{"hash":"1376720399322604478","title":"Vesicle trafficking and cytoskeleton dynamics","description":"The top GO terms cluster around intracellular transport (retrograde Golgi\u2013ER transport, intracellular protein transport, melanosome transport) and actin/cytoskeleton remodeling (ruffle assembly, TORC2 signaling related to actin dynamics), with developmental and cell-cycle related terms appearing as secondary themes. This supports a core characterization of vesicle trafficking coupled with cytoskeletal dynamics as the cluster\u2019s main function.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":3},{"id":"GO:0090316","count":3},{"id":"GO:0003382","count":2},{"id":"GO:0032402","count":2},{"id":"GO:0097178","count":2}]},{"hash":"1452866821045358357","title":"Unknown","description":"The top GO terms cover immune regulation (T cell homeostasis, negative regulation of activated T cell proliferation), stress and metabolic responses (response to hydrogen peroxide, response to glucose, response to glucocorticoid), autophagy and apoptosis (regulation of macroautophagy, execution phase of apoptosis), and development-related processes (metamorphosis, wound healing, ectopic germ cell programmed cell death). This broad spread suggests no single cohesive function links the three proteins, so an Unknown label is most appropriate.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":2},{"id":"GO:0042542","count":1},{"id":"GO:0051384","count":1},{"id":"GO:0016241","count":1},{"id":"GO:0009749","count":1}]},{"hash":"52094215740701649","title":"Unknown","description":"The top terms span diverse biology (development in nervous system, heart, and skeletal tissue; Rho signaling; calcium-dependent exocytosis; stress responses and apoptosis; immune cytokine production; and proliferation regulation), and there are no edges connecting the proteins, making it unclear what cohesive function ties them together. Therefore a specific, representative label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007124","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0034198","count":2}]},{"hash":"574957424156721021","title":"Stress-responsive protein quality control and translation","description":"This cluster groups proteostasis-related terms (heat acclimation, aggresome assembly, ubiquitin-dependent ERAD, autophagy regulation) with core gene expression processes (translation, ribosomal subunit assembly, rRNA maturation) and transcription regulation, suggesting a theme of maintaining protein homeostasis while supporting protein synthesis under stress.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010286","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0070842","count":2},{"id":"GO:0006357","count":2},{"id":"GO:0035186","count":2}]},{"hash":"1502162450866946526","title":"Unknown","description":"The GO terms spread across innate immune signaling (MyD88-dependent TLR, TLR2 signaling, IL-12 response, CXCL1 production) and cell cycle/development processes (cell cycle regulation, mitotic cytokinesis, centromeric cohesion, root development). Because there is no single unifying function tying the proteins together, a specific, representative label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":2},{"id":"GO:0000281","count":1},{"id":"GO:0070671","count":1},{"id":"GO:2000340","count":1},{"id":"GO:0048364","count":1}]},{"hash":"167516143554474933","title":"Endosomal trafficking and cell polarity","description":"This cluster's GO terms mainly point to endosomal transport (early to Golgi/late endosome), phosphatidylinositol signaling, and regulation of GTPase activity, together suggesting vesicle trafficking and cell polarity coordination; a few terms on bone/adipose development are less directly connected but may reflect broader signaling roles.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000281","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0045022","count":1},{"id":"GO:0034498","count":1},{"id":"GO:0060348","count":1}]},{"hash":"2017273122955059513","title":"Signaling and Cytoskeletal Adhesion Dynamics","description":"This cluster centers on diverse signaling pathways (TCR, EGFR, ephrin, NF-kappaB/ERK) that converge on cytoskeletal remodeling and adhesion processes, including actin branching, podosome/adherens junction organization, and responses to mechanical cues, suggesting a common theme of signaling-driven cytoskeletal adhesion dynamics.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0071803","count":2},{"id":"GO:0007173","count":2}]},{"hash":"1258347692582976066","title":"Cranial nerve development and axon guidance","description":"Most GO terms center on neural development and axon pathfinding, including commissural and branchiomotor neuron axon guidance, axon extension in guidance, facial nerve organization, and otic placode/hair cell differentiation\u2014points to a coherent theme of cranial nerve formation and neural wiring. A few terms (e.g., complement activation) are peripheral noise and do not alter the primary signal.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":2},{"id":"GO:1905040","count":1},{"id":"GO:0071679","count":1},{"id":"GO:0048843","count":1},{"id":"GO:0021785","count":1}]},{"hash":"1150061496209149134","title":"Growth and Signaling Regulation","description":"This cluster\u2019s GO terms span apoptosis, immune signaling, proliferation control, neuronal signaling, metabolic responses, lipid synthesis, cartilage growth, Wnt and PDGF signaling regulation, and tight junction assembly. While diverse, they all center on how cells regulate signaling pathways and growth, suggesting a broad regulatory signaling cluster rather than a single, cohesive pathway. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097194","count":3},{"id":"GO:0032633","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0099557","count":3},{"id":"GO:0071333","count":3}]},{"hash":"840503186029961778","title":"Unknown","description":"The top GO terms are highly diverse (development, ion transport, signaling, polarity, immune and endothelial processes) with no clear shared function across the three proteins. This scattered set makes it impossible to assign a concise, representative label with confidence.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055113","count":1},{"id":"GO:0070588","count":1},{"id":"GO:0007214","count":1},{"id":"GO:0046711","count":1},{"id":"GO:0090162","count":1}]},{"hash":"60515827872032864","title":"Ribosome Biogenesis and Translation","description":"Dominant GO terms cluster around translation and ribosome assembly/biogenesis (translation, cytoplasmic translation, ribosomal large subunit assembly, ribosome biogenesis) and SRP-dependent cotranslational targeting to membrane, suggesting these proteins are core components of the protein synthesis machinery. The interleukin-4 response term appears incidental. ","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0042254","count":1},{"id":"GO:0071353","count":1},{"id":"GO:0002181","count":1}]},{"hash":"621936936435825767","title":"Developmental Signaling and Metabolism Regulation","description":"The top GO terms span apoptosis, immune regulation, growth control, synaptic signaling, metabolic responses, cholesterol biosynthesis, cartilage development, Wnt and PDGF signaling, and tight junction regulation. This spread suggests a cluster centered on regulatory signaling pathways that coordinate development, metabolism, and tissue architecture rather than a single function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0097194","count":3},{"id":"GO:0032633","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0099557","count":3},{"id":"GO:0071333","count":3}]},{"hash":"243908902119876720","title":"Renal tubule morphogenesis","description":"Dominant GO terms reflect metanephric kidney development and tubule morphogenesis (proximal/distal tubules, ascending limb), indicating a cluster of proteins involved in renal tubule formation; a few unrelated terms appear as noise but do not override the kidney development theme.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072237","count":2},{"id":"GO:0036303","count":2},{"id":"GO:0072287","count":2},{"id":"GO:1904378","count":2},{"id":"GO:0060355","count":1}]},{"hash":"1243662113719491909","title":"Organ development and morphogenesis","description":"The top GO terms point to developmental and morphogenetic processes across multiple tissues (kidney structures, cartilage, lymphatic vessels), suggesting a broad theme of organogenesis rather than a single function. Immune signaling terms appear but do not redefine the cluster\u2019s primary focus, which is tissue formation and morphogenesis. This supports labeling as a developmental/morphogenesis cluster rather than a specific pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060355","count":3},{"id":"GO:0072218","count":3},{"id":"GO:0090238","count":3},{"id":"GO:0038094","count":3},{"id":"GO:0051873","count":3}]},{"hash":"871923076371009600","title":"Immune cell trafficking and activation","description":"The top GO terms point to cell movement and immune signaling, including substrate-dependent cell migration, integrin-mediated signaling, cellular extravasation, T cell activation, and complement activation. Additional terms for metallopeptidase activity and proteasome assembly suggest remodeling and protein turnover that accompany migration and immune responses. Some terms (stamen formation, chondrocyte morphogenesis) seem less directly related, but the dominant theme is movement of cells in an immune context.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006929","count":2},{"id":"GO:0007229","count":2},{"id":"GO:1905050","count":2},{"id":"GO:0003429","count":2},{"id":"GO:0070208","count":2}]},{"hash":"1053849460364228556","title":"Osteoblast differentiation and angiogenesis signaling","description":"The top GO terms cohere around bone biology and blood vessel formation: regulation of osteoblast proliferation and Wnt signaling in osteoblast differentiation, angiogenesis, endothelial cell migration, and Tie signaling. While an adaptive immune term appears, the dominant pattern points to bone formation coupled with vascular regulation, justifying this label. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":2},{"id":"GO:0033689","count":1},{"id":"GO:0045921","count":1},{"id":"GO:1905240","count":1},{"id":"GO:0001525","count":1}]},{"hash":"1121423350277904810","title":"Unknown","description":"The terms cover diverse developmental and immune processes across different tissues (kidney structures, cartilage, lymph vessels, basophils, Fc signaling) with no common function and no interactions linking the proteins, so no cohesive theme emerges for a single label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060355","count":1},{"id":"GO:0072218","count":1},{"id":"GO:0090238","count":1},{"id":"GO:0038094","count":1},{"id":"GO:0051873","count":1}]},{"hash":"972495713955312740","title":"Plant development: cell cycle and chromatin remodeling","description":"The cluster\u2019s terms cluster around nuclear import, mitotic cytokinesis, centromeric cohesion, and transcription-coupled chromatin remodeling, with links to root development and developmental signaling (negative regulation of Wnt signaling). Also, positive regulation of GTPase activity and regulation of protein catabolic processes suggest signaling modulation and protein turnover during growth. Together, these terms point to a cohesive module coordinating cell division, chromatin state, and developmental signaling in plants.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0042176","count":3},{"id":"GO:0006607","count":3},{"id":"GO:0000281","count":2},{"id":"GO:0048364","count":2}]},{"hash":"524385434531496806","title":"RNA Splicing and Translation Regulation","description":"The top terms are dominated by post-transcriptional processes: alternative mRNA splicing via spliceosome, mRNA stabilization, and various forms of translation control (miRNA-mediated silencing and IRES-dependent initiation). A couple of calcium signaling terms appear, but they do not cohere into a single strong pathway, so the cluster seems best characterized by RNA processing and translational regulation rather than calcium signaling alone.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032237","count":1},{"id":"GO:0035988","count":1},{"id":"GO:0035584","count":1},{"id":"GO:0051533","count":1},{"id":"GO:0000381","count":1}]},{"hash":"1822861957555286165","title":"Regulators of signaling and metabolism","description":"The GO terms show a mix of positive and negative regulation across diverse processes (ERK signaling, gluconeogenesis, fatty acid oxidation, cholesterol efflux, cell adhesion, differentiation, and synapse maintenance), suggesting these proteins act as regulators that modulate multiple signaling and metabolic pathways rather than a single function.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030853","count":1},{"id":"GO:0099558","count":1},{"id":"GO:0010875","count":1},{"id":"GO:0045721","count":1},{"id":"GO:0034115","count":1}]},{"hash":"1740644771455247360","title":"Translation Initiation and Reinitiation","description":"The proteins map to multiple GO terms centered on translation initiation and reinitiation, including preinitiation complex formation and IRES-dependent viral initiation, suggesting a shared role in initiating protein synthesis. The presence of both general and viral-specific initiation terms supports a cohesive function in translation control rather than unrelated processes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0075525","count":2}]},{"hash":"1794979117416862617","title":"Unknown","description":"These terms come from very different biological contexts (hormonal response, neural signaling, metabolism, development) and there is no single shared process evident for all proteins in the cluster. Each term is represented by only one protein, and there are no edges or co-occurrence signals to tie them into a common function. As a result, there is no clear functional theme to name the cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051384","count":1},{"id":"GO:0007612","count":1},{"id":"GO:0090122","count":1},{"id":"GO:0098942","count":1},{"id":"GO:0051593","count":1}]},{"hash":"1764104865423596348","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"This cluster is dominated by GO terms for ubiquitin-dependent proteolysis, SCF- and K11-linked ubiquitination, and proteasomal degradation, which together point to a set of proteins involved in targeted protein turnover that drives mitotic progression and G1/S checkpoint control. Development-related terms appear but are secondary, with the core signal centered on ubiquitin-mediated degradation governing cell cycle transitions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0030853","count":1},{"id":"GO:0031146","count":1}]},{"hash":"1438493442779598618","title":"Unknown","description":"The top GO terms span apoptosis, interleukin-4 production, generic proliferation regulation, trans-synaptic signaling, glucose response, cholesterol biosynthesis, cartilage growth, Wnt pathway regulation, PDGF signaling, and tight junction assembly. This broad mix does not point to a single coherent function or pathway for the cluster, suggesting the proteins are involved in diverse, unrelated processes rather than one shared theme.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097194","count":2},{"id":"GO:0032633","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0099557","count":2},{"id":"GO:0071333","count":2}]},{"hash":"929812027511428893","title":"Unknown","description":"The top GO terms are heterogeneous, including cellular glucose response, dsRNA response, apoptosis, IL-4 production, growth signaling (PDGF, Wnt), cartilage growth, cholesterol biosynthesis, trans-synaptic signaling, and general proliferation regulation. There is no single coherent function tying these together, so a specific, representative label cannot be assigned.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":2},{"id":"GO:0043330","count":2},{"id":"GO:0097194","count":1},{"id":"GO:0032633","count":1},{"id":"GO:0008285","count":1}]},{"hash":"529904365177981781","title":"Vesicle trafficking and exocytosis","description":"The terms converge on vesicle handling and fusion with the plasma membrane: SNARE complex assembly, synaptic vesicle exocytosis, Golgi-to-plasma membrane transport, and related exocytic processes, including neurotransmitter receptor insertion. While a couple of terms touch broader signaling such as insulin response, the core cluster centers on vesicle trafficking and exocytosis mechanisms, especially in the Golgi-to-membrane pathway, justifying a single coherent label.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043134","count":1},{"id":"GO:0042144","count":1},{"id":"GO:0035493","count":1},{"id":"GO:0016079","count":1},{"id":"GO:1900483","count":1}]},{"hash":"583960359859810029","title":"AMPA receptor regulation and synaptic plasticity","description":"This cluster is dominated by GO terms related to synaptic signaling, notably regulation of short-term neuronal synaptic plasticity and regulation of AMPA receptor activity, pointing to a core function in modulating synaptic strength and receptor signaling. The additional terms on p53-mediated apoptotic signaling and negative regulation of FGFR signaling suggest broader signaling or stress-response roles, but the strongest and most cohesive theme across the terms is synaptic receptor regulation and plasticity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":1},{"id":"GO:2000311","count":1},{"id":"GO:0042771","count":1},{"id":"GO:0040037","count":1}]},{"hash":"1100973847585981496","title":"Transmembrane Transport of Metabolites","description":"The top GO terms are dominated by various transmembrane transport activities (glucose, nitrate, phosphate, organic cations, xenobiotics) and vesicle loading, pointing to a cohesive theme of membrane transport and handling of metabolites/ions across membranes. This makes \u201cTransmembrane Transport of Metabolites\u201d a concise, representative label for the cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":3},{"id":"GO:0044381","count":3},{"id":"GO:0070715","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0015706","count":3}]},{"hash":"967577493969995416","title":"Unknown","description":"The top terms span a wide and unrelated set of processes (cobalamin biosynthesis, fatty acid homeostasis, Notch signaling, kynurenic acid biosynthesis, oxaloacetate metabolism, salicylic acid\u2013mediated defense, insulin response, sphingomyelin biosynthesis), and there are no edges or coherent functional connections tying them together. Therefore, a single representative function for this cluster cannot be inferred.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":1},{"id":"GO:0055089","count":1},{"id":"GO:0007219","count":1},{"id":"GO:0019441","count":1},{"id":"GO:0034276","count":1}]},{"hash":"1438451768181853378","title":"Mitochondrial Metabolite Transporters","description":"Based on the GO terms, the proteins are annotated with diverse transport roles for metabolites and nucleotides, many tied to mitochondria (e.g., ADP, deoxynucleotides, alpha-ketoglutarate, pyridoxal phosphate, magnesium export). This coherent pattern points to a shared function as mitochondrial metabolite transporters, with a peripheral insulin response term not altering the overall theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0032869","count":1},{"id":"GO:0015866","count":1},{"id":"GO:0097274","count":1},{"id":"GO:1990519","count":1}]},{"hash":"1186983243989183855","title":"Ubiquitin-dependent protein degradation","description":"Most top GO terms point to ubiquitination and ubiquitin-mediated proteolysis (GO:0042787, GO:0000209). The presence of histone catabolic process, ERAD pathway, and regulatory terms for transcription and cell cycle suggests this cluster centers on ubiquitin-driven protein turnover and its downstream control of cellular processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0033151","count":1},{"id":"GO:0036205","count":1},{"id":"GO:1902364","count":1}]},{"hash":"409254563985668857","title":"Unknown","description":"This cluster's top GO terms span lipid metabolism, methylation, various xenobiotic/copper response processes, reproductive development, and cell-cycle regulation, with no obvious unifying function and no edges connecting the members; the terms are too heterogeneous to define a single cohesive label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006641","count":3},{"id":"GO:0032259","count":3},{"id":"GO:0008585","count":3},{"id":"GO:0006707","count":3},{"id":"GO:0019341","count":3}]},{"hash":"992485525670344950","title":"Mitochondrial-apoptosis Regulation","description":"Dominant terms are related to apoptosis and mitochondrial involvement (mitochondrial fragmentation in apoptotic process, positive regulation of apoptotic process, intrinsic apoptotic signaling). While there are some transcription-related terms present, the strongest signal across the cluster is apoptosis regulation with mitochondrial emphasis.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043653","count":1},{"id":"GO:0042752","count":1},{"id":"GO:0010587","count":1},{"id":"GO:1904780","count":1},{"id":"GO:0032435","count":1}]},{"hash":"1328587975282190566","title":"Multisubstrate membrane transporters","description":"The top GO terms point to a collection of membrane transport processes across many substrates (xenobiotics, vitamins, nitrates, phosphate, sodium-coupled cation transport, glucose, and even neurotransmitter loading into vesicles). This suggests the cluster is composed of diverse transporter proteins with broad substrate specificity, rather than a single-substrate transporter family.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0042149","count":2},{"id":"GO:0044381","count":2}]},{"hash":"1203637454579817737","title":"RNA Cap Methylation and Protein Methylation","description":"The top GO terms are dominated by RNA cap methylation (guanine-N7 methylation and 7-methylguanosine capping) and several protein methylation processes (peptidyl-serine dimethylation, peptidyl-lysine monomethylation, histone methylation), indicating a shared theme of methyltransferase\u2013mediated methylation on RNA and proteins. Some unrelated terms appear, suggesting incidental annotations, but the primary signal is methylation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":3},{"id":"GO:0006370","count":3},{"id":"GO:0010243","count":2},{"id":"GO:0031100","count":2},{"id":"GO:0042418","count":2}]},{"hash":"66597933502496400","title":"Unknown","description":"The top terms span several disparate processes (development of placenta, thymus, and skeletal system) as well as immune signaling, stress responses, apoptosis, and neuronal signaling, with only a single connection among many diverse terms. This heterogeneity makes it hard to assign a single, representative function to the cluster, so a precise label isn\u2019t supported.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001890","count":3},{"id":"GO:0048538","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0000187","count":3},{"id":"GO:0071276","count":3}]},{"hash":"295217976253390101","title":"Unknown","description":"The annotated terms are diverse and span plant-specific cell-wall and plasmodesmata processes as well as animal extracellular matrix, neural development, and reproduction. With only 3 proteins and no clear shared function, there isn\u2019t a cohesive theme to define a meaningful label.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009663","count":1},{"id":"GO:2001009","count":1},{"id":"GO:0009831","count":1},{"id":"GO:0008542","count":1},{"id":"GO:0018146","count":1}]},{"hash":"1434740023646673417","title":"Reproductive development and ECM remodeling","description":"This cluster\u2019s terms cluster around development in reproductive and glandular contexts (mammary gland development, zona pellucida penetration, regulation of acrosome reaction) and extracellular matrix biology (proteoglycan metabolic and keratan sulfate biosynthesis). Additional terms on tissue remodeling and development (angiogenesis in wound healing, Purkinje cell layer development) support a broader theme of developmental processes tied to ECM components. Overall, the common thread is development and ECM/proteoglycan\u2013related signaling across tissues, justifying this label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":1},{"id":"GO:0018146","count":1},{"id":"GO:0060055","count":1},{"id":"GO:0060058","count":1},{"id":"GO:0006029","count":1}]},{"hash":"962703426639590838","title":"Calcium-Dependent Neuronal Signaling","description":"Most terms relate to calcium ion transport/response and downstream signaling (NFAT/calcineurin), plus calcium-regulated processes like caffeine response and synaptic vesicle endocytosis, with short-term memory suggesting neuronal function. A few outliers (kidney development, N-glycan processing, platelet degranulation) seem less connected noise.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070588","count":3},{"id":"GO:0071277","count":3},{"id":"GO:0072286","count":3},{"id":"GO:0051091","count":3},{"id":"GO:0071313","count":3}]},{"hash":"223062410322943122","title":"Growth Factor Signaling and Differentiation","description":"Based on the GO terms, this cluster centers on positive regulation of growth factor\u2013related signaling pathways (PDGF receptor signaling and PI3K/AKT), with concomitant promotion of differentiation programs (brown fat cell differentiation, keratinocyte differentiation) and cell\u2013matrix adhesion. The presence of synapse assembly and nociception terms suggests broader signaling contexts, but the dominant theme is upregulation of signaling that drives differentiation and cellular interactions.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010641","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0051897","count":2}]},{"hash":"695145001670952119","title":"Macrophage lipid metabolism and cholesterol efflux regulation","description":"The top GO terms cluster around lipid handling in macrophages: positive regulation of fatty acid oxidation, positive regulation of cholesterol efflux, and negative regulation of foam cell differentiation. This points to a shared function in lipid homeostasis and cholesterol management within macrophages, with some other terms (neural development or signaling) likely noise or broader pathway links, but the lipid-centric terms are the strongest signal for the cluster\u2019s theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046321","count":2},{"id":"GO:0010745","count":2},{"id":"GO:0010875","count":2},{"id":"GO:1900625","count":1},{"id":"GO:0021872","count":1}]},{"hash":"2038613614579873298","title":"Unknown","description":"The top GO terms form a heterogeneous mix (DNA-templated transcription, mRNA processing) with separate signals for deubiquitination and aggresome assembly, plus a few unrelated terms (righting reflex, GPCR signaling regulation, kinase activation, protein tetramerization). With no clear single function tying the proteins together and no edges among them, there isn't a cohesive theme to label the cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0001824","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0051289","count":1}]},{"hash":"1062216782740696404","title":"Neural development and axon guidance","description":"The top GO terms point to neuronal patterning and axon guidance: positive regulation of axonogenesis, vagus nerve morphogenesis, and semaphorin-plexin signaling related to axon guidance. While there is also a carbohydrate metabolism term and some broad development terms, the recurrent axonogenesis/nerve morphogenesis signals suggest a neural development theme for this cluster, with some annotation noise (obsolete terms). ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005975","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0061419","count":2},{"id":"GO:1900220","count":2},{"id":"GO:0050772","count":2}]},{"hash":"1270676205200476066","title":"Transmembrane Solute Transporters","description":"The proteins show enrichment for diverse transmembrane transport GO terms (glucose, phosphate, nitrate, xenobiotics, organic cations) and related vesicular loading, indicating a cluster of membrane transporter proteins with broad substrate specificity rather than a single pathway.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042149","count":3},{"id":"GO:0044381","count":3},{"id":"GO:0070715","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0015706","count":3}]},{"hash":"1483503548375325807","title":"Protein acetylation (N-terminal and polyamine)","description":"This cluster centers on acetylation-related processes: various N-terminal acetylations, spermidine/spermine/putrescine acetylation, and histone H4 acetylation, pointing to post-translational modifications by acetyl groups. Broader terms like angiogenesis and melatonin biosynthesis may be linked contexts where acetylation plays a role, but the core signal is acetylation mechanisms.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006041","count":3},{"id":"GO:0032919","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0017198","count":3},{"id":"GO:0061606","count":3}]}]