[{"hash":"839722581059581790","title":"Immune regulation and epithelial remodeling","description":"The proteins show a blend of immune-related regulation (macrophage activation; regulatory T cell differentiation; negative regulation of T cell proliferation) with epithelial dynamics (keratinocyte migration; epithelial-to-mesenchymal transition; terminal web assembly), along with cytoskeletal and membrane remodeling signals (Rho signaling; phosphatidylcholine acyl-chain remodeling) and NO production. This suggests a coordinated role in immune modulation coupled to epithelial cell behavior, such as inflammation-driven tissue remodeling or wound healing.","confidence":"Medium","size":29,"edges":58,"triangles":76,"max_degree":15,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0043030","count":5},{"id":"GO:0036151","count":5},{"id":"GO:0002361","count":5},{"id":"GO:0042130","count":5},{"id":"GO:0008285","count":4}]},{"hash":"640084892794969163","title":"ER protein maturation and trafficking","description":"The top GO terms are dominated by endoplasmic reticulum processes: protein retention in ER lumen, protein folding in ER, GPI anchor biosynthesis, protein transport, and glycosylation, indicating a cluster of proteins involved in ER-based maturation and trafficking of secreted/membrane proteins. A few terms related to transcription or T cell\u2013associated processes appear but are less central to the cluster\u2019s primary theme.","confidence":"High","size":29,"edges":15,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006621","count":4},{"id":"GO:0018279","count":2},{"id":"GO:0034975","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0070231","count":2}]},{"hash":"240892011144949290","title":"MAPK/TCR Signaling Regulation in Neural Development","description":"These proteins cluster around regulation of MAPK/ERK signaling and T cell receptor pathways (negative regulation of TCR signaling and ERK cascade), with neural development associations such as Bergmann glial differentiation and cerebellar cortex formation, plus axon regeneration. The shared theme appears to be modulation of signaling pathways, linking immune signaling regulation to neural development processes. Confidence: Medium","confidence":"","size":29,"edges":298,"triangles":2097,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050860","count":22},{"id":"GO:0070373","count":22},{"id":"GO:0000200","count":22},{"id":"GO:0060020","count":18},{"id":"GO:0008285","count":18}]},{"hash":"1280708831916891259","title":"Embryonic Development and Morphogenesis","description":"The top GO terms point to broad embryonic development and tissue patterning, including endocrine system development, left-right pattern formation, heart-related EMT, cartilage and placenta formation, pancreatic development, and trophoblast differentiation. This suggests a cohesive theme of early development and organ morphogenesis across multiple tissues.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0060536","count":5}]},{"hash":"774161282276027212","title":"Dopaminergic Neural Signaling and Drug Response","description":"Based on the top GO terms, the cluster shows enrichment for dopaminergic synaptic transmission, responses to morphine and cocaine, visual perception/learning, and ERK signaling. These collectively point to neural signaling and behavioral regulation, including reward and sensory processing, rather than non-neural processes. Some terms like heart development or macrophage chemotaxis may be incidental or reflect multifunctional proteins, but the dominant theme is neural signaling and drug-response pathways.","confidence":"Medium","size":29,"edges":307,"triangles":1668,"max_degree":28,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":23},{"id":"GO:0019233","count":22},{"id":"GO:0048148","count":22},{"id":"GO:0071380","count":22},{"id":"GO:0070374","count":22}]},{"hash":"1556863595325680352","title":"B Cell Activation and Adaptive Immune Signaling","description":"This cluster shows enrichment for B cell receptor signaling, adaptive immune response, and endocytosis, with additional signals for cytoskeletal remodeling (lamellipodium assembly) and integrin-mediated signaling. The co-occurrence of innate and adaptive immune terms, plus regulators of Rho signaling and IL-2 production, suggests a module tied to B cell activation and immune cell trafficking/activation rather than a single canonical pathway. Overall, the proteins likely participate in antigen recognition, internalization, and activation of B cells within an immune response.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0006897","count":3},{"id":"GO:0030890","count":2},{"id":"GO:0035023","count":2}]},{"hash":"324633153305216937","title":"Kinase signaling and cell cycle regulators","description":"This cluster shows enrichment for regulation of kinase activity (serine/threonine), protein autophosphorylation, GTPase activity regulation, and mitotic processes (mitotic cell cycle, mitotic spindle assembly), plus transcription-related terms (DNA-templated transcription) and mRNA transport. The strongest common thread is proteins that modulate signaling pathways that drive cell cycle progression and transcriptional control, with some overlap into RNA processing. Therefore the label reflects the core themes of signaling regulation intertwined with mitosis and gene expression.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070208","count":9},{"id":"GO:0043588","count":8},{"id":"GO:0031954","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0051028","count":7}]},{"hash":"750706814589852760","title":"Notch-driven keratinocyte differentiation","description":"The cluster is enriched for terms related to Notch signaling (negative regulation of Notch signaling pathway; Notch receptor processing) and keratinocyte differentiation, suggesting a cohesive role in Notch-regulated epidermal differentiation. Additional terms about inflammatory response and oxidative stress are present but appear secondary, reinforcing a focus on skin cell signaling and differentiation via Notch. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0098869","count":6},{"id":"GO:0017000","count":5},{"id":"GO:0042619","count":5},{"id":"GO:0045746","count":4}]},{"hash":"19530610955156422","title":"Ubiquitination-Driven Degradation and NF-kB Signaling","description":"The cluster is led by ubiquitin-related processes: ERAD, ubiquitin-dependent protein catabolic process, autoubiquitination, and K63-linked ubiquitination, indicating a strong emphasis on protein turnover via ubiquitination. NF-kappaB signaling components (activation kinase, regulation of NF-kB transcription factor activity) and a JNK cascade regulator term further suggest coordinated signaling pathways linked to ubiquitin-mediated degradation. A spliceosome-related term is present but does not define the primary theme.","confidence":"High","size":29,"edges":4,"triangles":0,"max_degree":4,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":11},{"id":"GO:0085020","count":10},{"id":"GO:0051865","count":10},{"id":"GO:0042787","count":10},{"id":"GO:0051092","count":9}]},{"hash":"799040861769272267","title":"Core cellular biosynthesis and gene expression","description":"The GO terms point to foundational cellular activities: biosynthesis (serine and lipopolysaccharide), transcription and translation initiation, RNA modification, and fundamental transport and homeostasis (ion transport, vesicle trafficking, lipid processing). This suggests a cluster of proteins involved in essential housekeeping processes rather than a single pathway, warranting a broad yet specific label.","confidence":"Medium","size":29,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006564","count":4},{"id":"GO:0009103","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0001731","count":4}]},{"hash":"37894954939499443","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by translation-related GO terms: translation, cytoplasmic translation, translational termination, and ribosomal subunit export from the nucleus, as well as ribosomal large subunit assembly, indicating a core role in ribosome biogenesis and protein synthesis. Additional terms touch on transcription regulation and apoptosis, suggesting broader cellular regulation, but the strongest signal centers on ribosome formation and translation.","confidence":"High","size":29,"edges":267,"triangles":1445,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0006351","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0002184","count":2},{"id":"GO:0000056","count":2}]},{"hash":"2020236513719726793","title":"Immune Activation and Cell Adhesion","description":"The cluster shows strong representation of immune-related processes (complement activation, T cell activation, blood coagulation) along with terms tied to cell movement and adhesion (extravasation, cell migration, cell-matrix adhesion). This points to a theme of immune signaling interacting with tissue movement and adhesion. The presence of plant-specific terms (chlorophyll biosynthetic process, stamen formation) likely reflects cross-species annotations or multifunction proteins; overall the cluster appears to center on immune activation and related cell adhesion/migration.","confidence":"Medium","size":29,"edges":172,"triangles":507,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006956","count":7},{"id":"GO:0002291","count":7},{"id":"GO:0070208","count":7},{"id":"GO:0045123","count":7},{"id":"GO:0007161","count":7}]},{"hash":"767234697977745655","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":373,"triangles":2882,"max_degree":28,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":19},{"id":"GO:0031047","count":18},{"id":"GO:1901407","count":15},{"id":"GO:0016973","count":11},{"id":"GO:1990120","count":10}]},{"hash":"1803353753673359370","title":"DNA replication and mitosis regulators","description":"The top GO terms are overwhelmingly related to DNA replication and cell cycle control (DNA replication, positive regulation of nuclear cell cycle DNA replication, centrosome cycle, mitotic sister chromatid biorientation). This indicates a cluster of proteins involved in initiating and regulating DNA synthesis and chromosome segregation during cell division. Some developmental terms appear (neuron development, cranial skeleton morphogenesis), but their presence likely reflects shared regulatory roles rather than a cohesive developmental program. Thus the core theme is cell-cycle and DNA-replication regulation.","confidence":"High","size":29,"edges":82,"triangles":76,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":29},{"id":"GO:0010571","count":29},{"id":"GO:0048701","count":29},{"id":"GO:0007098","count":29},{"id":"GO:0046638","count":28}]},{"hash":"106838226255876037","title":"Cell cycle control and developmental gene regulation","description":"The cluster centers on cell-cycle control and transcriptional regulation linked to development, as shown by terms for mitotic regulation, DNA-templated transcription, and heart/cartilage development. Some stress-related terms (innate immune response, cadmium exposure) likely reflect general stress signaling that intersects with these core regulatory processes.","confidence":"Medium","size":29,"edges":6,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051436","count":12},{"id":"GO:0046827","count":12},{"id":"GO:0006351","count":12},{"id":"GO:0031571","count":12},{"id":"GO:0045087","count":12}]},{"hash":"96509553434142329","title":"ER stress response and innate immunity","description":"The cluster is enriched for ER stress\u2013related processes (positive regulation of translation initiation in response to ER stress; response to unfolded protein) and innate immune pathways (innate immune response; cellular response to exogenous dsRNA; defense-related regulation). This suggests a core function in stress signaling and antiviral defense, with a few terms like photosynthesis and cilium assembly appearing less central or due to annotation crossovers. Overall, it represents a stress/immune signaling module rather than a single metabolic pathway.","confidence":"Medium","size":29,"edges":14,"triangles":3,"max_degree":8,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0051291","count":8},{"id":"GO:0015979","count":7},{"id":"GO:1905515","count":6},{"id":"GO:0036494","count":6}]},{"hash":"382227861012058984","title":"Fatty acid beta-oxidation and transport","description":"The terms cluster around fatty acid handling and metabolism: long-chain fatty acid transport, carnitine metabolism, beta-oxidation via acyl-CoA oxidase, and regulation of fatty acid oxidation, suggesting a unit focused on lipid mobilization and energy production. Some reproductive/hormonal processes appear but are secondary to the lipid metabolism theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006972","count":3},{"id":"GO:0001547","count":3},{"id":"GO:0015909","count":3},{"id":"GO:0051791","count":3},{"id":"GO:0019254","count":3}]},{"hash":"2207890065941575603","title":"Embryonic organogenesis and morphogenesis","description":"The GO terms strongly point to embryonic development and tissue/organ formation, with palate development, left/right patterning, endocrine system development, EMT in heart cushion formation, cartilage morphogenesis, pancreatic cell development, placental/trophoblast differentiation, etc. Together these indicate a coherent theme of developmental morphogenesis and organogenesis, with some terms reflecting transcriptional regulation during these processes. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":11},{"id":"GO:0060972","count":10},{"id":"GO:0035270","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0060806","count":9}]},{"hash":"1302134646022064972","title":"Developmental signaling and cytoskeletal remodeling","description":"Top GO terms point to developmental processes (placenta, heart, gonad) and key signaling pathways (Rho, insulin receptor) with cytoskeletal remodeling (lamellipodium assembly) and transcriptional control, indicating a cluster of proteins involved in developmental signaling and cytoskeletal dynamics.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001893","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0007266","count":4}]},{"hash":"1763187385358784270","title":"Actin dynamics in migration and neural development","description":"Top GO terms point to actin cytoskeleton organization, filopodium assembly, and cell migration, with ARF-related trafficking supporting cytoskeletal changes. Neural and immune contexts (midbrain morphogenesis, T cell activation) reflect actin-dependent processes in development and signaling. Overall, the cluster centers on actin-driven cytoskeletal remodeling that underpins movement and morphogenesis.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1903526","count":20},{"id":"GO:0007605","count":19},{"id":"GO:0016477","count":19},{"id":"GO:0051489","count":19},{"id":"GO:0030036","count":19}]},{"hash":"1841030604967840825","title":"Developmental Morphogenesis and Transcription Regulation","description":"This cluster shows enrichment across various developmental processes (retina, heart, osteoblast, habenula, digestive tract morphogenesis, ureteric bud branching) together with transcriptional regulation by RNA polymerase II, suggesting a group of proteins involved in broad developmental programs and transcription control.","confidence":"Medium","size":29,"edges":318,"triangles":1838,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002087","count":16},{"id":"GO:0060041","count":16},{"id":"GO:0006366","count":16},{"id":"GO:0002076","count":16},{"id":"GO:0007507","count":15}]},{"hash":"1868293658439542193","title":"Apoptosis signaling and oxidative stress response","description":"This cluster is dominated by GO terms related to apoptosis regulation (both intrinsic and extrinsic pathways, and necroptosis regulation) as well as responses to oxidative stress and hypoxia, suggesting a cohesive theme of stress-induced cell death signaling. Some terms appear obsolete or unrelated (e.g., certain development terms), likely representing annotation noise, but the core signal centers on apoptotic and ROS-responsive processes.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"cytokinesis","top_go_terms":[{"id":"GO:0070584","count":5},{"id":"GO:0060546","count":4},{"id":"GO:1903378","count":4},{"id":"GO:0097192","count":4},{"id":"GO:0010046","count":4}]},{"hash":"91807340963398631","title":"Neural Development and JNK/Rho Signaling","description":"Most terms point to neural development (neural tube and brain development) and signaling pathways (JNK cascade, Rho signaling), suggesting a module in neuronal differentiation and regulation. A few singleton terms relate to tRNA modification and antibiotic biosynthesis and are likely incidental noise; the core theme remains neural development and associated signaling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021915","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0007254","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0010906","count":1}]},{"hash":"1550703127110786088","title":"Mesodermal and cardiovascular development with angiogenesis","description":"This cluster is dominated by terms related to mesoderm-derived development, including paraxial mesoderm development, heart development, and angiogenesis (plus ossification indicating bone maturation). Rho signaling regulation may support morphogenesis and cytoskeletal dynamics, while innate immune signaling appears less central. Overall, the shared theme is mesodermal differentiation toward cardiovascular and vascular/bone formation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0010765","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0061000","count":4}]},{"hash":"1878501308391768636","title":"Sensory perception and neuronal membrane excitability","description":"The cluster is dominated by GO terms related to sensory modalities (pain, temperature, touch) and membrane excitability (hyperpolarization, repolarization, potassium transport), pointing to a core function in sensory signaling and ion-channel\u2013mediated neuronal activity. While a few terms (skin development, infection-structure formation) appear, they are not central to the dominant theme here.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0060081","count":6},{"id":"GO:0075015","count":5}]},{"hash":"2041920274656896105","title":"Glycinergic signaling and neural development","description":"The top GO terms point to glycine transport and secretion, glycinergic synaptic transmission, and neural structure development (thalamus, perineurial glia), with additional neurotransmitter turnover terms (serotonin uptake, dopamine catabolic process) that together suggest a focus on glycine-mediated synaptic signaling in neural development contexts. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0042066","count":10},{"id":"GO:1903346","count":10},{"id":"GO:0021984","count":10},{"id":"GO:0051610","count":10},{"id":"GO:0060092","count":10}]},{"hash":"1370031639884267037","title":"Rho-Driven Filopodium and Cytoskeleton Remodeling","description":"This cluster centers on Rho family GTPase signaling, including regulation of Rho signaling and small GTPase-mediated pathways, with links to filopodium assembly and actin cytoskeleton reorganization. Additional terms related to cell polarity, adhesion-dependent spreading, and cytoskeletal functions at synapses support a cohesive theme of actin dynamics governing cell shape and protrusions, consistent with Rho-regulated cytoskeletal remodeling. Overall, the proteins appear to function together in actin-driven protrusions and cytoskeletal organization.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0046847","count":7},{"id":"GO:0007264","count":7},{"id":"GO:0031532","count":6},{"id":"GO:0051932","count":6}]},{"hash":"1750511943669752193","title":"Neural Sensory Perception and Behavior","description":"The cluster is enriched for neural and sensory terms (pain, visual perception/learning) and brain signaling processes (positive regulation of GTPase activity, prostaglandin stimulus, brain renin-angiotensin system), pointing to proteins involved in brain-mediated sensory processing and behavioral modulation. While there is an outlier term on heart development, the dominant signal centers on neural perception and behavior.","confidence":"Medium","size":28,"edges":320,"triangles":1999,"max_degree":26,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0002024","count":15},{"id":"GO:0071502","count":15},{"id":"GO:0008542","count":14},{"id":"GO:0048148","count":14}]},{"hash":"645346994410471548","title":"Embryogenesis and organogenesis","description":"GO terms center on embryonic development and tissue/organ formation, including palate development, mesoderm formation, left-right patterning, endocardial cushion EMT, cartilage morphogenesis, and endocrine system development, with some transcriptional regulation. This combination indicates a coherent theme of developmental processes and organogenesis among the cluster proteins.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0060021","count":7},{"id":"GO:0003323","count":7},{"id":"GO:0007498","count":6},{"id":"GO:0060972","count":6}]},{"hash":"1379003410678385061","title":"Post-transcriptional RNA processing and translation control","description":"The cluster centers on post-transcriptional gene expression steps, including mRNA splicing (cis-splicing and regulation of alternative splicing), mRNA stability regulation, and control of translation initiation and reinitiation, indicating a cohesive role in post-transcriptional regulation.","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":19},{"id":"GO:1901407","count":14},{"id":"GO:0006378","count":14},{"id":"GO:0045292","count":13},{"id":"GO:0000381","count":13}]},{"hash":"1717529572778862116","title":"DNA Replication and Cell Cycle Regulation","description":"This cluster is dominated by GO terms for DNA-templated transcription, DNA repair, DNA replication, and the mitotic cell cycle, indicating a core theme of nuclear DNA maintenance and progression through cell division. While some terms like T cell receptor signaling, GM-CSF response, and receptor clustering appear among the top terms, they are less central to the primary pattern, which centers on DNA replication/repair and cell-cycle control.","confidence":"High","size":28,"edges":36,"triangles":17,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":22},{"id":"GO:0006281","count":20},{"id":"GO:0006260","count":20},{"id":"GO:0000278","count":20},{"id":"GO:0050852","count":19}]},{"hash":"128061249776281270","title":"Mitochondrial Translation and Electron Transport","description":"Top GO terms are dominated by mitochondrial function: mitochondrial translation and translation, and mitochondrial electron transport (NADH to ubiquinone), with supporting protein folding. These indicate a cluster enriched for mitochondrial protein synthesis and energy-generation processes, fitting a cohesive theme around mitochondrial translation and respiration. Developmental signaling terms appear less central to the core function of the proteins in this group. ","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0032543","count":2},{"id":"GO:0006457","count":2},{"id":"GO:0006120","count":2}]},{"hash":"666498680828512535","title":"Brain Signaling and Sensory Perception","description":"This cluster is dominated by neural functions: visual and dopaminergic synaptic transmission, visual learning, sensory perceptions (vision and pain), and behavioral responses to cocaine, plus ERK signaling regulation, all pointing to brain signaling and perceptual/behavioral processes. A couple of terms (heart development, brain renin-angiotensin system) appear peripheral, but the primary signal is neural. ","confidence":"High","size":28,"edges":307,"triangles":1806,"max_degree":27,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":23},{"id":"GO:0019233","count":22},{"id":"GO:0007601","count":22},{"id":"GO:0048148","count":21},{"id":"GO:0071380","count":21}]},{"hash":"1611981512717098260","title":"Mitotic Cell Cycle Control and DNA Replication","description":"The cluster is dominated by terms related to cell cycle progression and DNA replication, including G1/S and G2/M transitions, DNA replication, chromosome condensation, and spindle dynamics. While there are tissue- or signaling-related terms (mammary epithelial proliferation and insulin signaling regulation), the core connection is mitotic entry/exit and the replication program driving cell division, indicating a coherent cell cycle\u2013regulation module.","confidence":"High","size":28,"edges":15,"triangles":8,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":17},{"id":"GO:0000086","count":17},{"id":"GO:2000775","count":16},{"id":"GO:0000082","count":16},{"id":"GO:0033598","count":16}]},{"hash":"354886155029953806","title":"Cardiovascular development and calcium signaling","description":"The cluster includes terms tied to heart signaling (regulation of SA node action potential) and calcium release into the cytosol, plus endothelial differentiation and cell migration relevant to vascular development; broader GO terms on GPCR signaling, GTPase activity, and development support a connective signaling/vascular theme. Some terms are obsolete or broad, but the core pattern points to cardiovascular development with calcium-dependent signaling.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":8},{"id":"GO:0098907","count":8},{"id":"GO:0043547","count":7},{"id":"GO:0033280","count":7},{"id":"GO:0007275","count":6}]},{"hash":"1149383175271915496","title":"Embryonic Organogenesis and Patterning","description":"This cluster is strongly associated with embryonic development and organogenesis, evidenced by cartilage morphogenesis, endocrine system development, left-right pattern formation, and differentiation events in heart, placenta, and pancreas. The convergence on morphogenesis and lineage specification suggests these proteins cofunction in embryonic tissue formation, despite a few general cellular terms present.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":19},{"id":"GO:0035270","count":19},{"id":"GO:0003198","count":19},{"id":"GO:0060806","count":19},{"id":"GO:0060972","count":19}]},{"hash":"1331875825451073948","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms tied to ubiquitin-dependent protein catabolic processes (including ERAD), autoubiquitination, and specific ubiquitin linkages (K6, K63), pointing to ubiquitin-mediated proteolysis and protein quality control as the central function. Additional terms like histone catabolic process and TNF signaling intersect with ubiquitin signaling, reinforcing a theme around ubiquitin-driven degradation and turnover.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":21},{"id":"GO:0030433","count":19},{"id":"GO:0051865","count":19},{"id":"GO:0036205","count":18},{"id":"GO:1903265","count":18}]},{"hash":"1330654609528499349","title":"Fatty acid oxidation and transport","description":"GO terms are dominated by fatty acid metabolism: beta-oxidation, transport of long- and medium-chain fatty acids, and carnitine metabolism, suggesting a fatty acid oxidation/transport module. A few unrelated terms (DNA transposition, mitochondrial apoptotic changes, ovarian follicle growth) are present but less representative.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":3},{"id":"GO:0032000","count":3},{"id":"GO:0008637","count":3},{"id":"GO:0060546","count":3},{"id":"GO:0001935","count":2}]},{"hash":"819290372515423505","title":"Embryonic development and tissue morphogenesis","description":"This cluster\u2019s top GO terms point to a broad set of embryonic developmental processes and tissue morphogenesis across multiple lineages (endocrine, mesoderm, cartilage, hair follicle, placenta/trophoblast), including patterning and differentiation. The unifying theme is embryogenesis and organ/tissue formation rather than a single pathway, so a concise label focusing on embryonic development and morphogenesis is appropriate.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060536","count":3}]},{"hash":"2100907818115651695","title":"Cell Adhesion and Skeletal Development Proteins","description":"This cluster is dominated by GO terms for cell-cell adhesion (both heterophilic and homophilic), and for ossification and skeletal system development, pointing to a network of adhesion molecules involved in bone formation and skeletal tissue patterning. The inclusion of a mechanosensory term related to hearing suggests a link to mechanotransduction in auditory tissues, while other terms (synapse assembly, smooth muscle proliferation) hint at broader developmental signaling roles. A few terms (like host cell entry or classical complement activation) may be peripheral noise rather than defining features. Overall, the core theme appears to be adhesion-related processes guiding skeletal and sensory tissue development.","confidence":"Medium","size":28,"edges":6,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":17},{"id":"GO:0043931","count":13},{"id":"GO:0007156","count":12},{"id":"GO:0050910","count":12},{"id":"GO:0001501","count":12}]},{"hash":"1712859392362750659","title":"Nucleocytoplasmic Transport & Nuclear Export","description":"This cluster is dominated by GO terms related to moving RNA and ribonucleoproteins out of the nucleus (ribosomal subunit export, mRNA export, protein export) and by nuclear pore complex assembly, with additional signals for transcription regulation and kinetochore/centrosome\u2013related nuclear functions. The recurring theme is nucleocytoplasmic transport and nuclear export machinery.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0000055","count":5},{"id":"GO:0000056","count":5},{"id":"GO:0006406","count":5},{"id":"GO:0043547","count":4}]},{"hash":"1046155403355095294","title":"Multisystem organogenesis","description":"The top GO terms point to a broad developmental theme across multiple tissues (kidney, dentin/odontogenesis, bone ossification, lung mesenchyme, salivary gland branching) as well as hematopoietic-related development, rather than a single pathway. Coupled with regulatory processes like protein autophosphorylation and mRNA processing, this suggests proteins involved in general organogenesis and tissue differentiation across systems, hence a multisystem development label.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0046777","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0035855","count":3}]},{"hash":"898979405018376285","title":"B cell receptor signaling and differentiation","description":"The top GO terms are dominated by B cell\u2013related processes (B cell receptor signaling pathway, follicular B cell differentiation, adaptive immune response) with supporting signals of cellular defense and lamellipodium assembly, suggesting roles in B cell activation, signaling, and differentiation within adaptive immunity. Some terms are broader (growth, miRNA silencing), but the core theme centers on B cell\u2013mediated immune signaling and development.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":3},{"id":"GO:0038028","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0031648","count":2},{"id":"GO:0006968","count":2}]},{"hash":"1808194811997485507","title":"Glycosylation-Driven ECM and Cell Wall Biosynthesis","description":"The top GO terms cluster around glycosylation processes (O-linked glycosylation, GalNAc-linked, proteoglycan biosynthesis) and extracellular matrix/cell wall organization (plant secondary cell wall biosynthesis, glucuronoxylan biosynthesis, chondroitin sulfate proteoglycan biosynthesis), with related roles in cell adhesion and epithelial polarity. This suggests a coherent theme of sugar modification and ECM/cell wall assembly across organisms, rather than a single, narrow function. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":7},{"id":"GO:0006486","count":6},{"id":"GO:0042248","count":5},{"id":"GO:0007299","count":5},{"id":"GO:0001744","count":5}]},{"hash":"1673716392130325998","title":"Immune signaling and metabolism","description":"This cluster shows a mix of immune-related signaling terms (innate immune response, T cell receptor signaling, ERK cascade regulation, Wnt signaling regulation) alongside metabolic processes (UMP salvage, CoA biosynthetic process), plus cytoskeletal and cell fate processes (actin filament assembly, proteolysis, apoptotic process). The diverse but overlapping functions suggest proteins that participate in coordinating signaling with metabolic and structural regulation rather than a single, cohesive pathway.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":5},{"id":"GO:0044206","count":4},{"id":"GO:0006508","count":3},{"id":"GO:0015937","count":3},{"id":"GO:0070373","count":2}]},{"hash":"1750934615580938215","title":"Neuronal Ion Transport and Synaptic Signaling","description":"The cluster centers on neural ion transport (potassium, sodium, calcium) and synaptic processes, including GABA signaling and excitatory postsynaptic potentials, alongside behavior-related GO terms (startle, locomotion, conditioned taste aversion, circadian regulation). This pattern suggests a cohesive role in neuronal signaling circuits that govern sensory processing and behavior rather than a non-specific mixture of functions.","confidence":"High","size":27,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":19},{"id":"GO:0060079","count":16},{"id":"GO:0035725","count":15},{"id":"GO:0001661","count":15},{"id":"GO:0007626","count":15}]},{"hash":"476518091450166394","title":"Developmental signaling and actin cytoskeleton regulation","description":"The top GO terms cluster around regulation of signaling pathways (GTPase activity, kinase activity, autophosphorylation), cytoskeletal dynamics (Arp2/3-mediated actin nucleation), and developmental processes (skin and multicellular organism development). The inclusion of hypoxia response and mRNA transport suggests broader cellular regulation during development, supporting a label focused on developmental signaling coupled to cytoskeletal control.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":10},{"id":"GO:0031954","count":8},{"id":"GO:0051028","count":8},{"id":"GO:0071456","count":8},{"id":"GO:0034316","count":8}]},{"hash":"1021330899859430544","title":"ER protein folding and redox homeostasis","description":"The cluster is dominated by GO terms related to protein folding in the endoplasmic reticulum, ER stress response, and redox/oxidative stress management (ER proteostasis and detoxification of oxidants). While a few terms (viral process, transcription regulation) are peripheral, the core theme ties protein folding in the ER to maintaining redox balance under stress.","confidence":"High","size":27,"edges":97,"triangles":178,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":14},{"id":"GO:0034975","count":13},{"id":"GO:0055114","count":12},{"id":"GO:0098869","count":10},{"id":"GO:0034976","count":9}]},{"hash":"1445305406582008879","title":"Embryonic development and organ morphogenesis","description":"This cluster is enriched for GO terms centered on embryogenesis and tissue formation: cartilage morphogenesis, endocrine system development, left-right pattern formation, placental development, and endocardial cushion EMT, which collectively point to roles in developmental morphogenesis. A couple of terms related to RNA processing suggest general cellular machinery supporting development but do not negate the developmental theme. Overall, the proteins appear linked to embryonic development and organ morphogenesis.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060536","count":10},{"id":"GO:0003323","count":10},{"id":"GO:0035270","count":10},{"id":"GO:0003198","count":10},{"id":"GO:0060806","count":10}]},{"hash":"2199473925851927377","title":"Organogenesis and Developmental Signaling","description":"This cluster centers on GO terms tied to organ and tissue development (cranial skeletal system development, multicellular organism development, synapse assembly) and on key signaling pathways (ERK/MAPK, IGF receptor, NF-kappaB), with additional notes on cardiac action potential regulation and neural connectivity. The combination suggests a theme of organogenesis coordinated by diverse signaling and developmental processes, with supporting roles for autophagy and immune regulation in development. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":4},{"id":"GO:0043569","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0070374","count":3},{"id":"GO:1904888","count":3}]},{"hash":"542397295089293756","title":"Immune signaling and TGF-beta regulation","description":"This cluster centers on immune function, with terms covering innate and adaptive immunity (innate immune response, T cell receptor signaling, defense against Gram-positive bacteria) and modulation of TGF-beta signaling/stimulus, plus related signaling processes. The combination suggests a cohesive theme of immune signaling with regulation via TGF-beta pathways.","confidence":"High","size":27,"edges":117,"triangles":293,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":9},{"id":"GO:0050830","count":7},{"id":"GO:0030512","count":7},{"id":"GO:0000173","count":7},{"id":"GO:0035970","count":7}]},{"hash":"427460703698403288","title":"Angiogenesis and ECM remodeling in development","description":"This cluster is dominated by angiogenesis and collagen-related processes, including collagen fibril organization, collagen biosynthetic process, and glomerular basement membrane development, with kidney development and pregnancy as contextual terms. Together they suggest a developmental vascular-ECM program, aided by ERK signaling and platelet regulation pathways.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001525","count":8},{"id":"GO:0030199","count":7},{"id":"GO:0007565","count":5},{"id":"GO:0090331","count":5},{"id":"GO:0001822","count":4}]},{"hash":"1552082011674143230","title":"Developmental signaling and cytoskeletal dynamics","description":"The cluster gathers GO terms pointing to signaling pathways that regulate the cytoskeleton (Rho signaling, actin reorganization) and downstream transcriptional programs, plus developmental processes in heart and Schwann cells, neural morphogenesis, chemotaxis, and immune signaling (B cell homeostasis, NFAT/Ca2+ signaling). This suggests a cohesive theme of cytoskeletal regulation linked to developmental and differentiation signaling across multiple tissues.","confidence":"Medium","size":27,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0001922","count":5},{"id":"GO:0050774","count":5},{"id":"GO:0051531","count":5},{"id":"GO:0031532","count":4}]},{"hash":"218476035671353068","title":"Transcription-driven developmental differentiation","description":"This cluster centers on DNA-templated transcription and RNA polymerase II transcription, with numerous terms for differentiation across tissues, including skeletal muscle, melanocytes, pancreas, oligodendrocyte fate, bronchioles, and cortical interneurons. The proteins likely act as broad transcriptional regulators steering multiple developmental differentiation programs rather than a single tissue-specific pathway.","confidence":"Medium","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":14},{"id":"GO:0006366","count":13},{"id":"GO:2001016","count":12},{"id":"GO:0035914","count":11},{"id":"GO:0030318","count":10}]},{"hash":"804831382069350704","title":"Muscle signaling and cytoskeletal dynamics","description":"This cluster centers on signaling pathways that regulate muscle development and movement (calcineurin-NFAT, ERK/JNK cascades, small GTPases) and cytoskeletal remodeling (lamellipodium assembly), plus ubiquitination, which together point to coordinated muscle physiology and cell migration. Mitochondrial fission and energy-related terms align with the energetic demands of muscle function, including heart development and locomotion.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000266","count":6},{"id":"GO:0051531","count":6},{"id":"GO:0070373","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0007507","count":5}]},{"hash":"1862804837344156871","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":18},{"id":"GO:0051607","count":18},{"id":"GO:0042787","count":18},{"id":"GO:0033280","count":16},{"id":"GO:0061158","count":15}]},{"hash":"944157506983548733","title":"Signaling and innate immune response","description":"The top GO terms point to receptor-mediated signaling and immune-associated processes, including cell surface receptor tyrosine kinase signaling, regulation of protein kinase A signaling, and especially innate immune pathways such as MyD88-independent Toll-like receptor signaling, detection of bacterial lipopeptides, and antibacterial peptide biosynthesis. There are a few plant/developmental and extracellular matrix terms that appear as noise, but the dominant pattern ties signaling networks to innate immune responses and antimicrobial regulation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010738","count":3},{"id":"GO:0007169","count":3},{"id":"GO:1905289","count":3},{"id":"GO:0070340","count":3},{"id":"GO:0071373","count":3}]},{"hash":"188142697710021308","title":"Immune signaling and secretory pathway regulation","description":"This cluster centers on immune modulation (negative regulation of T cell receptor signaling, defense responses to virus/protozoan, IL-2/IL-1\u03b2 production) and vesicle- trafficking/organization (ER and Golgi), suggesting proteins that modulate immune signaling while coordinating the secretory pathway. The combination points to a cohesive theme of immune regulation linked to protein processing and trafficking.","confidence":"Medium","size":27,"edges":29,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":6},{"id":"GO:0051607","count":5},{"id":"GO:1900041","count":5},{"id":"GO:0016320","count":4},{"id":"GO:0007030","count":4}]},{"hash":"169256092322767079","title":"Embryonic development and tissue morphogenesis","description":"This cluster gathers terms tied to developmental processes across systems: multicellular development, morphogenesis (ossification and otolith formation), cell adhesion and axonal fasciculation, synapse assembly, and Hedgehog (Smoothened) signaling, all pointing to coordinated tissue patterning and formation. The presence of Rho signaling regulation also aligns with cytoskeletal remodeling during development, supporting a cohesive developmental/morphogenetic theme.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0043931","count":6},{"id":"GO:0051965","count":5},{"id":"GO:0014068","count":5}]},{"hash":"829042450535433983","title":"Neural and cardiac development and cell adhesion","description":"Based on the top GO terms, the cluster centers on developmental processes (heart development, neuron migration, otolith morphogenesis, synapse assembly) with a strong emphasis on cell adhesion and signaling (Rho and Ras pathways). Innate immune response appears but seems less central to the shared theme. Therefore, a label focusing on developmental processes tied to adhesion and signaling best captures the cluster's function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0010863","count":4}]},{"hash":"2215274821462753880","title":"Auditory neural development with immune signaling","description":"The cluster includes terms tied to inner-ear and auditory development (otolith morphogenesis, detection of mechanical stimulus involved in sound, axonal fasciculation, myelination, synapse assembly) along with clear immune-related processes (innate immune response, cytokine production, Fc-epsilon receptor signaling) and angiogenesis. This pattern suggests a group of proteins coordinating the development and wiring of the auditory system while also participating in innate immune signaling within sensory tissues. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0042552","count":9},{"id":"GO:0014068","count":9},{"id":"GO:0007413","count":8},{"id":"GO:0001525","count":8}]},{"hash":"171696989826226062","title":"Developmental patterning and morphogenesis","description":"This cluster centers on embryonic development processes, including left-right patterning, epithelial to mesenchymal transition in heart and cushion formation, trophoblast and pancreatic cell differentiation, and cartilage morphogenesis, indicating a cohesive theme of development and tissue morphogenesis. Some terms (DNA repair, B cell signaling) are peripheral but do not override the dominant developmental patterning signal.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060707","count":4}]},{"hash":"590485796847498636","title":"Rho/Rap GTPase Signaling","description":"The dominant GO terms emphasize regulation of GTPase activity and Rap/Rho signaling, plus intracellular protein transport, pointing to a cluster of proteins that participate in small GTPase\u2013driven signaling coordinating trafficking and cytoskeletal dynamics. Peripheral terms such as thrombin signaling, insulin secretion, and vessel remodeling may reflect broader GPCR- and growth factor\u2013related signaling. The presence of Rho/Rap\u2013related terms with transport suggests a cohesive theme around GTPase-mediated signaling and intracellular trafficking.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0032486","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0034242","count":3}]},{"hash":"620049071067918679","title":"Bacterial cell wall polysaccharide biosynthesis and glycosylation","description":"The cluster shows strong signals for polysaccharide biosynthesis (cellulose, teichoic acid, hyaluronan), UDP-glucose metabolism, and various protein O-linked glycosylation processes, plus a teichoic acid biosynthesis pathway and lipid carrier\u2013associated biosynthesis, all pointing to cell wall polysaccharide production and modification in bacteria.","confidence":"High","size":26,"edges":108,"triangles":174,"max_degree":19,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0030244","count":5},{"id":"GO:0019350","count":5},{"id":"GO:0006011","count":5},{"id":"GO:0016266","count":5},{"id":"GO:0018243","count":5}]},{"hash":"1908923325800717608","title":"Drosophila Development and Genome Maintenance","description":"The top GO terms cluster around developmental processes in insects (forebrain development, insect visual primordium formation, follicle epithelium polarity and adhesion) together with core genome maintenance activities (DNA replication and recombination, negative regulation of G1/S transition). This suggests a set of proteins involved in coordinating development with genome maintenance in Drosophila, with peripheral signals related to host\u2013microbe interactions. ","confidence":"Medium","size":26,"edges":12,"triangles":1,"max_degree":5,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":5},{"id":"GO:0075015","count":4},{"id":"GO:0006260","count":4},{"id":"GO:2000134","count":4},{"id":"GO:0042248","count":3}]},{"hash":"1659558927753945455","title":"Immune cell activation and signaling","description":"The majority of terms point to immune processes: innate immune response, defense against bacteria, B cell activation, NK cell regulation, NK T cell activity, and Fc receptor signaling, plus cytotoxic T cell differentiation. Some terms are non-immune (ventricular repolarization, lens morphogenesis) which appear as noise. Overall, a coherent theme is immune cell activation and signaling.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050871","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0042742","count":2},{"id":"GO:0060307","count":2},{"id":"GO:0002729","count":2}]},{"hash":"621702824587128811","title":"Heterochromatin formation and transcriptional repression","description":"The cluster is dominated by GO terms tied to chromatin state and transcriptional control, including silent mating-type cassette heterochromatin formation, rDNA heterochromatin formation, establishment of protein localization to chromatin, and negative regulation of transcription by RNA polymerase II. These collectively point to a chromatin-organization/regulation function, with a few peripheral terms (fertilization, immune response, muscle differentiation) that are less central. ","confidence":"High","size":26,"edges":10,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030466","count":5},{"id":"GO:0071169","count":4},{"id":"GO:0007338","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0000122","count":4}]},{"hash":"2251259620416863531","title":"Ubiquitin-Proteasome-Mediated Proteolysis","description":"This cluster shows strong enrichment for ubiquitin-dependent protein catabolic processes, including protein polyubiquitination and SCF-dependent proteasomal ubiquitin-dependent degradation, indicating a core role in protein turnover. Additional terms point to cellular stress responses to heavy metals, which can intersect with proteostasis pathways, supporting a cohesive label centered on ubiquitin-proteasome\u2013mediated proteolysis.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0042752","count":12},{"id":"GO:0000209","count":10},{"id":"GO:0031146","count":9},{"id":"GO:1903378","count":8}]},{"hash":"1055396200845169989","title":"Ubiquitin-Dependent Proteolysis","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes, including SCF-dependent proteasomal degradation and ERAD, with many proteins involved in polyubiquitination. This suggests the cluster centers on protein quality control and regulated degradation. Some related terms (cytoskeletal dynamics, neural development, and DNA damage checkpoints) likely reflect broader regulatory roles linked to proteostasis. Overall, the core function captured is ubiquitin-mediated proteolysis.","confidence":"High","size":26,"edges":54,"triangles":33,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0031146","count":15},{"id":"GO:0030433","count":13},{"id":"GO:1902916","count":13},{"id":"GO:0031571","count":13}]},{"hash":"1265057291486189645","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0001731","count":3}]},{"hash":"349772771210356370","title":"Immune receptor signaling and lymphocyte activation","description":"The top terms point to immune signaling pathways (T cell receptor signaling, B cell receptor signaling, GM-CSF response, LPS response, prostaglandin stimulus) with accompanying transcriptional upregulation and cell cycle progression (DNA-templated transcription, DNA replication, mitotic cell cycle), suggesting a cluster of genes involved in immune cell activation and proliferation. Skeletal muscle development is less central but may reflect broader growth-related processes captured in the set.","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097011","count":18},{"id":"GO:0006351","count":18},{"id":"GO:0050852","count":18},{"id":"GO:0071222","count":18},{"id":"GO:0071361","count":17}]},{"hash":"1621601376315324212","title":"RNA processing and translation regulation","description":"This cluster centers on post-transcriptional control: several terms relate to spliceosome-mediated mRNA splicing, regulation of mRNA stability, translation initiation and reinitiation, and poly(A) tail dynamics, along with ncRNA-mediated gene silencing, indicating coordinated RNA processing and regulation of gene expression after transcription.","confidence":"High","size":26,"edges":213,"triangles":988,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":18},{"id":"GO:0048026","count":18},{"id":"GO:0010610","count":18},{"id":"GO:1903586","count":16},{"id":"GO:0006446","count":16}]},{"hash":"1372635920896957049","title":"Cardiac morphogenesis and calcium signaling","description":"The GO terms show a clear emphasis on heart development and cardiac function, including left ventricular and outflow tract morphogenesis, Purkinje and SA node signaling, and calcium release from the sarcoplasmic reticulum, suggesting a cluster of proteins involved in cardiac tissue formation and calcium handling. Although there are some unrelated terms like ossification and skin development, the strongest recurring theme centers on cardiac morphogenesis and calcium-dependent signaling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0071313","count":3},{"id":"GO:0003151","count":3},{"id":"GO:0014808","count":3}]},{"hash":"1603717109121098787","title":"Dopaminergic GPCR Signaling and Growth Regulation","description":"The cluster is enriched for GO terms centered on G protein-coupled receptor signaling, particularly adenylate cyclase-activating dopamine receptor pathways, plus related processes like insulin secretion regulation, cell proliferation, prostaglandin response, and blood pressure modulation. This points to a cohesive theme of dopaminergic GPCR-cAMP signaling coordinating metabolic and growth-related processes, even though a few terms (e.g., electron transport chain, plant cell wall catabolism) may be off-target or represent broader cellular roles. Overall, the common thread is signaling that governs metabolic and proliferative regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007191","count":9},{"id":"GO:0050796","count":9},{"id":"GO:0008283","count":9},{"id":"GO:0071380","count":9},{"id":"GO:0022900","count":9}]},{"hash":"341585942465601752","title":"Cytoskeleton remodeling and cell adhesion","description":"The terms cluster around cytoskeletal dynamics and adhesion: positive regulation of GTPase activity, filopodium assembly, substrate-dependent cell spreading, mechanical stimulus response, and establishment of epithelial polarity\u2014all pointing to cytoskeletal organization and cell\u2013substrate interactions. There are outlier terms about apoptosis, mitochondrial fission, and neurotransmission, but the dominant pattern is cytoskeletal remodeling and adhesion. ","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:1900026","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0097284","count":6},{"id":"GO:0046847","count":6}]},{"hash":"1598555983650738448","title":"Diverse Biosynthesis and Catabolic Metabolism","description":"The top GO terms cluster around biosynthetic processes (biotin biosynthesis, antibiotic biosynthesis) and catabolic/degradative processes (1,2-dichloroethane catabolic process, 3-phenylpropionate catabolic process), with related metabolism and detoxification terms also present. Although there are some outliers (endocannabinoid signaling regulation, secondary shoot formation), the dominant theme across many terms is metabolic synthesis and breakdown, suggesting a broad metabolic/enzymatic role for the cluster.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":8},{"id":"GO:0017000","count":8},{"id":"GO:0097755","count":7},{"id":"GO:2000124","count":7},{"id":"GO:0046839","count":7}]},{"hash":"1137383916436166730","title":"Cardiac muscle development and sarcomere organization","description":"The cluster is enriched for terms tied to heart development, atrial cardiomyocyte differentiation, and sarcomere organization, with actin filament bundle assembly and cell-matrix adhesion further supporting a contractile-muscle theme. While platelet aggregation and bacterial lipopolysaccharide biosynthesis appear, the dominant signals point to cardiac muscle differentiation and assembly of the contractile apparatus.","confidence":"High","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0007160","count":6},{"id":"GO:0070527","count":6},{"id":"GO:0097067","count":6},{"id":"GO:0009103","count":5},{"id":"GO:0051017","count":5}]},{"hash":"243448171658197805","title":"Mitochondrial energy metabolism and neural-cardiovascular signaling","description":"The dominant presence of electron transport chain terms indicates a core role in energy production, while concurrent GO terms point to signaling pathways (GPCR/adenylate cyclase, GTPase/Rho) and neural/cardiovascular phenotypes (pain perception, cocaine response, visual learning, heart development, blood pressure regulation). This suggests a cohesive cluster of proteins involved in energy metabolism alongside neural and cardiovascular signaling processes.","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":19},{"id":"GO:0045777","count":19},{"id":"GO:0010579","count":19},{"id":"GO:0007190","count":16},{"id":"GO:0035025","count":15}]},{"hash":"425763682868491630","title":"Neural development and actin cytoskeleton dynamics","description":"The cluster centers on nervous system development terms (nervous system development, substantia nigra development) and signaling/cytoskeletal remodeling (positive regulation of ERK cascade, actin cytoskeleton reorganization, podosome assembly, engulfment of apoptotic cells), suggesting a theme of neural development tied to cytoskeletal dynamics. Some non-neural developmental terms appear, but the dominant signal is neural development with actin-related signaling; hence the label reflects the core function of the group.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0046326","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0043524","count":3}]},{"hash":"1939948598089522807","title":"Neuronal development and vesicle trafficking","description":"The cluster is driven by terms related to brain development, regulation of synaptic vesicle exocytosis, ER-Golgi vesicle transport, and MAPK/ERK signaling, which together point to proteins involved in neuronal maturation and synaptic function, with vesicle trafficking and membrane dynamics as a unifying theme. Some terms like mitotic spindle assembly or mating projection regulation are peripheral but may reflect shared cellular pathways rather than core neuronal roles.","confidence":"Medium","size":26,"edges":4,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:0031384","count":6},{"id":"GO:0010796","count":6},{"id":"GO:2000300","count":6},{"id":"GO:0006888","count":6}]},{"hash":"462865753443272103","title":"GTPase-driven cytoskeleton remodeling and cell migration","description":"The dominant GO terms point to small GTPase signaling steering actin cytoskeleton dynamics, producing protrusions like filopodia and podosomes, driving cell spreading and migration, and remodeling membranes. The cluster thus reflects coordinated cytoskeletal remodeling and adhesion-dependent motility, with auxiliary links to spine development and mitochondrial fission that connect to cytoskeletal regulation and cellular energy during motility. ","confidence":"High","size":26,"edges":51,"triangles":14,"max_degree":13,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007264","count":19},{"id":"GO:0016477","count":17},{"id":"GO:1903527","count":16},{"id":"GO:0061000","count":16},{"id":"GO:1900026","count":14}]},{"hash":"1320790771741838551","title":"Epithelial junctions and actin remodeling","description":"The top GO terms cluster around epithelial polarity, tight junction assembly, cell adhesion and spreading, and extensive actin remodeling (actin polymerization, filopodium and ruffle formation). This points to coordinated control of cell\u2013cell junctions and cytoskeleton dynamics characteristic of epithelial junction formation and morphogenetic remodeling. Overall, a cohesive theme of epithelial polarity coupled with actin-driven adhesion and structural changes emerges.","confidence":"High","size":26,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0034260","count":19},{"id":"GO:0090162","count":19},{"id":"GO:1900026","count":19},{"id":"GO:0051835","count":19},{"id":"GO:0070830","count":19}]},{"hash":"1150847185965912490","title":"Ubiquitin-Proteasome Regulation of Immune Signaling","description":"The top GO terms cluster around protein ubiquitination and proteasome assembly, along with regulation of inflammatory chemokine production and innate immune signaling (e.g., NOD2 and NF-kappaB). While a few terms touch on broader signaling or neural processes, the dominant signal is protein turnover via ubiquitination/proteasome pathways coupled to immune/cytokine regulation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016567","count":8},{"id":"GO:0071651","count":7},{"id":"GO:0070431","count":7},{"id":"GO:0007205","count":7},{"id":"GO:1901187","count":7}]},{"hash":"974356939269556570","title":"Cell signaling and cytoskeletal dynamics","description":"The terms cluster around receptor- and small GTPase\u2013mediated signaling (B cell receptor, ephrin receptor, small GTPases) and cytoskeletal remodeling (podosome assembly) with mechanotransduction (response to mechanical stimulus). Ubiquitin-dependent protein turnover also modulates signaling, supporting a theme of signaling coordination with cytoskeletal dynamics.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0048013","count":3},{"id":"GO:0010976","count":3}]},{"hash":"2189267551798333506","title":"Unknown","description":"The GO terms mix skeletal development signals (BMP signaling, bone development) with diverse processes like GPCR signaling, cell migration, autophagy, and various amino acid transport, showing no single cohesive function for the cluster. A concise, specific label cannot be confidently assigned.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030514","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0032258","count":3}]},{"hash":"289864655576664387","title":"Unknown","description":"This cluster shows a broad mix of GO terms across vascular growth (endothelial proliferation), signaling (TORC1), muscle contraction (cardiac), transcription (RNA polymerase III), neural processes (long-term memory, response to cocaine), immune proliferation (T cell proliferation), chromatin modification (histone phosphorylation), and other unrelated processes. The lack of a unifying biological theme, plus an edge-less network, suggests these proteins do not share a coherent functional cluster beyond general, diverse roles. Therefore, Unknown with None confidence. ","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001938","count":4},{"id":"GO:0038202","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0045945","count":3},{"id":"GO:0042220","count":3}]},{"hash":"1172130284076442790","title":"Epidermal differentiation and cornification","description":"The top GO terms are dominated by keratinocyte and epidermal biology (keratinocyte migration, cornification, keratinization, regulation of keratinocyte differentiation, hair cycle), indicating epidermal differentiation and skin barrier formation as the core function of this cluster. A few terms about muscle or neural structures appear peripheral and do not define the cluster.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051546","count":4},{"id":"GO:0043000","count":4},{"id":"GO:0097284","count":4},{"id":"GO:0070268","count":4},{"id":"GO:0031443","count":4}]},{"hash":"1017766684763605200","title":"Regulation of Translation Initiation and Proteostasis","description":"The cluster centers on translation initiation processes (regulation of translational initiation, formation of preinitiation and cytoplasmic initiation complexes) and protein degradation (ubiquitin-dependent proteolysis, proteasome assembly). This suggests a coherent theme where translation initiation is coordinated with protein turnover, with auxiliary links to growth or development terms; overall, a translation-control\u2013proteostasis module best fits the set of GO terms.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0001732","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0043248","count":2}]},{"hash":"2161664026257956830","title":"Immune response signaling and lymphocyte activation","description":"Dominant terms center on immune activity: innate immune response, adaptive immune response, and B cell receptor signaling, plus positive regulation of IL-2 production; a signal related to TGF-beta stimulus is also present. A couple of non-immune terms (bone development, axonal fasciculation) may reflect pleiotropy or shared signaling. Overall, the cluster is best described as immune signaling and lymphocyte activation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0007413","count":3}]},{"hash":"1329118355758132824","title":"Embryonic neural and eye morphogenesis","description":"The cluster is enriched for in utero embryonic development, habenula development, embryonic eye morphogenesis, and neuron maturation, indicating a core theme of embryonic neural and sensory organ formation. Additional terms such as embryonic hindlimb morphogenesis and multicellular organism growth reflect broader developmental processes; redox homeostasis and glutathione metabolism suggest metabolic support during development. Overall, the proteins likely participate in early neural and eye development with related growth processes.","confidence":"High","size":25,"edges":12,"triangles":2,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":7},{"id":"GO:0045454","count":6},{"id":"GO:0021986","count":6},{"id":"GO:0042551","count":6},{"id":"GO:0048048","count":6}]},{"hash":"2113742733381097071","title":"Pain-Inflammation-Vascular Signaling","description":"The terms center on nociception (sensory pain) and immune/inflammatory responses, with neuropeptide signaling and vascular effects (vasoconstriction, smooth muscle regulation, calcium signaling). Coagulation and bacterium-defense terms also tie into the inflammatory-vascular axis, with a weaker nod to metabolism (thermogenesis). This points to a coherent theme of pain-related inflammatory and vascular signaling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0007596","count":5},{"id":"GO:0007218","count":4},{"id":"GO:0042742","count":4},{"id":"GO:0032496","count":4}]},{"hash":"1845983616629762858","title":"Embryonic skeletal and sensory organ development","description":"The cluster centers on GO terms for skeletal system development, neural tube closure, cranial skeleton morphogenesis, inner ear and lens fiber cell differentiation, and related differentiation processes, indicating a cohesive theme of embryonic organogenesis and tissue patterning, with ERK signaling involvement supporting developmental regulation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0010614","count":2},{"id":"GO:0010763","count":2},{"id":"GO:0048839","count":2}]},{"hash":"957064635405210976","title":"Cardio-Neural Development and Axon Guidance","description":"The top GO terms point to cardiogenesis (heart development) and neurogenesis (nervous system development), with a clear focus on neural connectivity: axonal fasciculation, synapse assembly, and Robo signaling pathways that guide axon growth. ERK cascade regulation further supports signaling during development, and angiogenesis aligns with coordinated vascular and tissue formation. Although a lipopolysaccharide response term appears, the dominant pattern ties cardiac and neural development with axon guidance and synaptic connectivity. Confidence: Medium","confidence":"","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0007399","count":9},{"id":"GO:0071260","count":9},{"id":"GO:0043552","count":8},{"id":"GO:0035385","count":8}]},{"hash":"1880830851514496722","title":"Cellular signaling and organelle dynamics","description":"The top GO terms point to intracellular signaling (positive regulation of GTPase activity, apoptotic regulation), organelle trafficking and contact (vacuole fusion, nucleus-vacuole junction assembly, nuclear import), and organelle function (mitochondrial calcium regulation). While the cluster also includes broad development terms, the shared theme is regulation of intracellular signaling that coordinates organelle dynamics and cell division, rather than a single tissue-specific process.","confidence":"Medium","size":25,"edges":66,"triangles":118,"max_degree":11,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0043065","count":8},{"id":"GO:0042144","count":7},{"id":"GO:0006607","count":7},{"id":"GO:0051561","count":7}]},{"hash":"1335930728686673772","title":"mRNA processing and translation regulation","description":"The cluster centers on post-transcriptional control: regulation of mRNA stability in stress, ncRNA-mediated gene silencing, regulation of translational initiation and reinitiation, formation of translation preinitiation complexes, viral translation mechanisms, and spliceosome-driven splicing regulation and polyadenylation. These together indicate a cohesive module governing mRNA fate, maturation, and translation. ","confidence":"High","size":25,"edges":105,"triangles":140,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":17},{"id":"GO:0031047","count":17},{"id":"GO:0006446","count":16},{"id":"GO:0002188","count":16},{"id":"GO:0006378","count":16}]},{"hash":"1635748164776842738","title":"Phospholipid biosynthesis and related lipid metabolism","description":"The top GO terms are dominated by phospholipid biosynthesis processes (phosphatidylethanolamine, phosphatidylserine, phosphatidylglycerol) and related lipid biosynthetic activity (platelet activating factor, phosphatidylinositol regulation). While there are a few non-lipid terms (hypoxia response, hepatocyte apoptosis), the strongest shared theme across the cluster is lipid metabolism centered on phospholipid production. This suggests the proteins function together in phospholipid biosynthesis and associated lipid pathways.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070317","count":5},{"id":"GO:0048936","count":4},{"id":"GO:0006646","count":4},{"id":"GO:1905711","count":4},{"id":"GO:0006659","count":4}]},{"hash":"143575886426279906","title":"Vesicle trafficking and membrane dynamics","description":"The top GO terms cluster around vesicle trafficking and membrane remodeling: regulation of synaptic vesicle exocytosis, Golgi to plasma membrane transport, and phospholipid homeostasis, all tied to membrane dynamics. Positive regulation of GTPase activity also supports signaling and trafficking regulation. Although brain development and mitotic cell cycle appear, the core theme centers on intracellular transport and membrane-associated processes.","confidence":"Medium","size":25,"edges":7,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010796","count":8},{"id":"GO:0031384","count":7},{"id":"GO:0007420","count":7},{"id":"GO:2000300","count":7},{"id":"GO:0051301","count":7}]},{"hash":"1119995104050044681","title":"Lipid catabolism and endocannabinoid signaling","description":"This cluster is dominated by lipid-related processes (triglyceride, arachidonate, monoacylglycerol, phosphatidylserine catabolism) and regulation of endocannabinoid signaling, suggesting a cohesive theme around lipid metabolism and lipid-mediated signaling, with a few unrelated terms likely noise.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":5},{"id":"GO:2000124","count":4},{"id":"GO:0019369","count":4},{"id":"GO:0006660","count":4},{"id":"GO:0052651","count":4}]},{"hash":"442523037588345106","title":"Neural development and sensory lineage specification","description":"The cluster shows strong representation of neural development terms (neuron development, nervous system development, spinal cord oligodendrocyte cell fate specification), sensory lineage specification (auditory receptor cell fate specification), and Notch signaling, suggesting a coherent theme around neural/sensory cell fate decisions and glial lineage specification. Transcription-related terms (RNA polymerase II transcription, transcription regulatory region DNA binding) support gene regulatory processes common in development, while osteoblast and androgen receptor-related terms are comparatively indirect. Overall, the dominant neural and sensory specification signals justify this labeling.","confidence":"High","size":25,"edges":296,"triangles":2211,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045668","count":15},{"id":"GO:0060766","count":15},{"id":"GO:0006366","count":13},{"id":"GO:0042667","count":12},{"id":"GO:0007399","count":12}]},{"hash":"1054587784013919418","title":"Steroid and Retinoid Lipid Metabolism","description":"The top GO terms cluster around steroid hormone metabolism (androgen, estrogen, C21-steroid) and retinoid metabolism (retinol, retinal, retinoic acid), with additional lipid biosynthesis (sphingolipids). This points to a cohesive program of lipid-derived signaling molecule metabolism, especially steroids and retinoids, rather than unrelated processes. Some outlier terms (antibiotic response, acetoin catabolism) appear incidental. Confidence: High","confidence":"High","size":25,"edges":166,"triangles":412,"max_degree":20,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":22},{"id":"GO:0008209","count":21},{"id":"GO:0006703","count":21},{"id":"GO:0046677","count":21},{"id":"GO:0042572","count":21}]},{"hash":"1897669315738367874","title":"Neural and Sensory Morphogenesis","description":"This cluster centers on developmental processes of the nervous system and sensory organs: terms for brain patterning/segmentation (brain segmentation, rhombomere 5 development, habenula development) and for eye/ear morphogenesis (embryonic eye morphogenesis, retina development in camera-type eye, inner ear morphogenesis). While transcription by RNA polymerase II is a broad process, the convergent emphasis on neural and sensory organ formation supports labeling the cluster as neural and sensory morphogenesis.","confidence":"High","size":25,"edges":292,"triangles":2121,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0048048","count":11},{"id":"GO:0021986","count":10},{"id":"GO:2000288","count":10},{"id":"GO:0035284","count":10}]},{"hash":"284187707238699745","title":"Embryonic development and morphogenesis","description":"The top GO terms point to developmental processes across several tissues, including palate (roof of mouth), cranial skeleton, cartilage, inner ear, heart outflow tract, uterus, and pituitary, as well as early gastrulation (primitive streak) and EMT events in heart formation. This suggests a unifying theme of embryonic organogenesis and tissue morphogenesis rather than a single tissue-specific function. Some terms are broader transcriptional regulation, but the dominant signal is developmental morphogenesis. ","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":9},{"id":"GO:0021983","count":7},{"id":"GO:0003148","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0048839","count":6}]},{"hash":"981004729866458406","title":"Ubiquitin-Dependent Protein Degradation","description":"Based on the top GO terms, the cluster is dominated by ubiquitin-related processes: ubiquitin-dependent protein catabolic process and autoubiquitination, indicating enrichment for components of the ubiquitin-proteasome system that tag and degrade proteins. Additional terms such as regulation of apoptotic process and TNF-mediated signaling are consistent with degradation influencing cell fate and inflammatory signaling. Some obsolete terms likely reflect legacy annotations but do not override the central theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0051865","count":15},{"id":"GO:1903762","count":12},{"id":"GO:0033151","count":12},{"id":"GO:0090073","count":12}]},{"hash":"1110865482740891299","title":"Diverse membrane transporters","description":"This cluster centers on transmembrane transport across membranes, covering a range of substrates (ions like Na+, K+, phosphate, nitrate/nitrite; xenobiotics; arabinose; 4-hydroxyphenylacetate) and a vesicular neurotransmitter loading process, indicating a cohesive set of membrane transporter proteins with broad substrate specificity and vesicle-related transport.","confidence":"High","size":25,"edges":18,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0015751","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0015707","count":3}]},{"hash":"2136929877545646745","title":"Synaptic adhesion and mechanosensory signaling","description":"The top GO terms point to neuronal communication: cell adhesion at synapses (heterophilic/homophilic), excitatory postsynaptic potentials, and ion (Na+/K+) transport essential for action potentials, plus a term for mechanical stimulus detection in hearing. While immune-related terms appear, the core pattern centers on synaptic transmission and mechanosensation, with adhesion contributing to synapse structure. ","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0046718","count":8},{"id":"GO:0007626","count":6},{"id":"GO:0007156","count":6},{"id":"GO:0060079","count":6}]},{"hash":"42553231240656021","title":"Rho GTPase\u2013driven cytoskeleton remodeling and endocytosis","description":"This cluster is dominated by GO terms tied to Rho signaling and GTPase activity, microspike assembly, and cell morphogenesis, pointing to actin cytoskeleton dynamics governed by Rho family GTPases. The presence of clathrin-dependent endocytosis suggests coordinated membrane trafficking with cytoskeletal changes, while supporting terms like spindle assembly and growth signaling fit within broader cytoskeletal and cellular organization processes.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0035025","count":3},{"id":"GO:0072583","count":3}]},{"hash":"63544338891260637","title":"Keratinocyte differentiation and skin morphogenesis","description":"The top GO terms are dominated by skin-related processes: hair follicle morphogenesis, keratinocyte migration, and cornification, indicating the proteins cluster around epidermal development and keratinocyte dynamics. Additional terms like regulation of Rho signaling point to cytoskeletal control involved in cell movement. Some terms elsewhere (muscle contraction, axon diameter) may reflect shared cellular machinery rather than a primary tissue-specific role, but the strongest signal lies in skin/epidermal differentiation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":4},{"id":"GO:0051965","count":3},{"id":"GO:0019933","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0051546","count":3}]},{"hash":"342549832145397597","title":"Unknown","description":"The top GO terms span metabolism (electron transport chain), signaling (ERK cascade, calcium release), immune responses (defense against bacteria, neutrophil chemotaxis, TNF regulation), neural processes (prepulse inhibition, pain perception, locomotion), and even cell wall catabolic activity, which together do not point to a single cohesive function. Because there isn\u2019t a clear unifying biological theme linking all 25 proteins, a concise, specific label isn\u2019t justified; labeling as Unknown best reflects the lack of a shared, interpretable function.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0032720","count":5},{"id":"GO:0090023","count":5},{"id":"GO:0016998","count":5}]},{"hash":"1396835439538073856","title":"Neuronal GPCR signaling and synapse development","description":"The top terms converge on G-protein coupled receptor signaling in neurons (including GPCR and thrombin-activated pathways) and processes related to synapse assembly, axon/neuronal development (e.g., corpus callosum development, axon regeneration). While a few terms are broader (e.g., autophagy), the dominant theme is neural signaling and synaptic development.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0035021","count":3},{"id":"GO:0048280","count":2},{"id":"GO:0046330","count":2}]},{"hash":"2167404364241899167","title":"Retina photoreceptor signaling and differentiation","description":"The top terms emphasize visual perception, camera-type eye photoreceptor differentiation, and ionotropic glutamate receptor signaling, plus broader cell surface receptor signaling and Notch/integrin pathways. This combination points to retina-related signaling and photoreceptor development as the core theme of the cluster, with some ancillary signaling processes co-occurring.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":4},{"id":"GO:0035235","count":3},{"id":"GO:0060219","count":3},{"id":"GO:0046813","count":3},{"id":"GO:0071404","count":3}]},{"hash":"677852866814862243","title":"Embryogenesis and Organ Morphogenesis","description":"Top GO terms cluster around embryonic development and tissue morphogenesis (cartilage, placenta, left-right patterning, endocardial EMT, pancreatic and endocrine development), with related processes like hypoxia response and spliceosome-mediated mRNA processing, suggesting a cohesive developmental program.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060806","count":4}]},{"hash":"1061193791138174299","title":"Unknown","description":"The Top Terms span diverse biological contexts (mesoderm and organ development, epithelial\u2013mesenchymal transition, coronary morphogenesis, lumen formation, immune antigen processing, vesicle trafficking, ER organization, and RNA splicing) across multiple organisms, with no single cohesive function or pathway evident. The lack of edges (no interactions) also suggests the proteins do not share a unified function in this cluster.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007498","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0080119","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0060982","count":5}]},{"hash":"1963679106063491343","title":"Unknown","description":"The GO terms span diverse processes (auditory perception, skin development, ossification, TNF signaling, GTPase activation, endosome transport, hemopoiesis, and GABAergic synaptic transmission) with no single dominant function linking the proteins. The lack of edges and the diverse terms suggest no cohesive shared role, so the cluster is Unknown.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0090630","count":3}]},{"hash":"1403433822034346595","title":"Neural development and brain morphogenesis","description":"The prominent GO terms center on brain and neural development (brain/midbrain development, cochlea morphogenesis, neuronal commitment) with supporting organogenesis terms (organ induction, roof of mouth development, myotome), indicating a cluster whose proteins are linked to neural development and brain formation rather than a single specific function.","confidence":"High","size":24,"edges":38,"triangles":12,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0090103","count":11},{"id":"GO:0043524","count":10},{"id":"GO:0030901","count":10},{"id":"GO:0001889","count":10},{"id":"GO:0000122","count":10}]},{"hash":"1291497341872948081","title":"Developmental processes and cell cycle cluster","description":"This cluster is enriched for multicellular development terms (multicellular organism development, skeletal system development, neural tube closure) and mitotic/centrosome cycle terms, along with transcriptional and signaling activity (DNA-templated transcription, T cell receptor signaling). While some immune-related terms are present, the strongest shared theme is development-associated processes coupled with cell-cycle regulation, suggesting a broad developmental/cell division role. ","confidence":"Medium","size":24,"edges":40,"triangles":34,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001403","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0001501","count":6},{"id":"GO:0007098","count":6},{"id":"GO:0050830","count":6}]},{"hash":"509821337179754809","title":"Adaptive immune signaling and cell junction remodeling","description":"This cluster shows strong representation of T cell receptor signaling and adaptive immune response, paired with GO terms for epithelial polarity, tight junction assembly, podosome formation, and actin-related GTPase regulation. The combination points to proteins involved in activating immune responses while coordinating cell\u2013cell adhesion and cytoskeletal remodeling at immune synapses and epithelial interfaces, including junction dynamics and adhesion-dependent spreading.","confidence":"High","size":24,"edges":6,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0071560","count":4},{"id":"GO:0034260","count":4},{"id":"GO:0090162","count":4}]},{"hash":"2267636198115099561","title":"Embryonic development and morphogenesis","description":"The GO terms point to broad embryogenesis and organogenesis programs, including left-right patterning, endothelial-to-mesenchymal transitions in heart formational regions, placenta/trophoblast differentiation, cartilage morphogenesis, facial/ridge structure development (roof of the mouth), mesoderm formation, and pancreatic/endocrine development. A spliceosome-related term is present but does not override the dominant developmental theme, indicating the cluster groups proteins involved in embryonic patterning and tissue morphogenesis.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060536","count":3}]},{"hash":"215073435015192049","title":"Epidermal development and pigmentation","description":"The top GO terms cluster around skin development, pigmentation, and multicellular development, with supporting signals in cytoskeletal remodeling (Arp2/3-mediated actin nucleation) and phosphorylation signaling pathways (GTPase activity and tyrosine phosphorylation), pointing to a developmental program governing epidermal differentiation and morphology.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0043588","count":5},{"id":"GO:0031954","count":4},{"id":"GO:0050731","count":4}]},{"hash":"2152483332141869221","title":"Ribosome Biogenesis and rRNA Maturation","description":"This cluster is dominated by GO terms for rRNA maturation (SSU and LSU realms, including 5.8S), ribosome biogenesis, and formation of the translation preinitiation complex, pointing to a cohesive role in ribosome assembly and initiation of protein synthesis. Some annotations (like embryonic development or histone methylation) appear less central, likely reflecting broader or incidental associations, but the core signal strongly supports ribosome-related function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":9},{"id":"GO:0000398","count":8},{"id":"GO:0002188","count":8},{"id":"GO:0001731","count":8},{"id":"GO:0042254","count":8}]},{"hash":"764906329305223197","title":"Chromatin remodeling and histone modification","description":"Based on the top GO terms, the cluster is dominated by chromatin-related processes: nucleosome assembly, heterochromatin formation, and regulation of histone acetylation, including specific acetylation events on histones and other proteins. The presence of rDNA heterochromatin formation and nucleosome assembly strongly links to chromatin structure and gene expression control. The estradiol response and cartilage condensation terms suggest developmental signaling pathways that can be coordinated by chromatin state, while autophagy regulation adds a broader cellular maintenance context. Taken together, the cluster seems centered on epigenetic regulation through chromatin remodeling and histone modification in development and gene expression.","confidence":"High","size":24,"edges":10,"triangles":1,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":7},{"id":"GO:0000183","count":6},{"id":"GO:0006334","count":6},{"id":"GO:0006349","count":6},{"id":"GO:0071392","count":6}]},{"hash":"1682974780296014070","title":"Vertebrate embryonic development and organ morphogenesis","description":"Proteins in this cluster are tied to diverse vertebrate developmental processes, including neural crest migration, inner ear development, limb and heart morphogenesis, and pituitary formation. The recurring theme is embryogenesis and organ formation, rather than a single molecular function, indicating a broad developmental program represented by these proteins.","confidence":"High","size":24,"edges":11,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0048839","count":7},{"id":"GO:0090009","count":7},{"id":"GO:0021983","count":7},{"id":"GO:0090190","count":6}]},{"hash":"992501958847506900","title":"Developmental transcriptional regulation and organ morphogenesis","description":"Proteins in this cluster are enriched for developmental processes across multiple tissues (endocrine pancreas development, skeletal muscle differentiation, embryonic digestive tract morphogenesis, ureteric bud branching). Core GO terms point to transcriptional control by RNA polymerase II and chromatin remodeling (DNA-templated transcription, RNAP II transcription, negative regulation of transcription, chromatin remodeling), indicating a module of transcriptional regulation guiding organogenesis. The presence of a cellular response to interleukin-4 may reflect regulatory signaling contexts in development.","confidence":"High","size":24,"edges":233,"triangles":1293,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":12},{"id":"GO:0035914","count":10},{"id":"GO:0006351","count":10},{"id":"GO:0000122","count":9},{"id":"GO:0006366","count":8}]},{"hash":"2000004833230377002","title":"Neural development: myelination and axon guidance","description":"The terms cluster around neural processes, highlighted by myelination, axon extension, and axon guidance, with supporting involvement of receptor tyrosine kinase signaling and transcriptional regulation. While there are a couple non-neural terms present (e.g., hematopoietic differentiation, anoikis regulation), the dominant theme is neural development and connectivity signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":3},{"id":"GO:0032515","count":2},{"id":"GO:0002244","count":2},{"id":"GO:0032516","count":2},{"id":"GO:0043124","count":2}]},{"hash":"1014911801036028648","title":"Gene Expression and Cell Cycle Regulation","description":"The GO terms show RNA processing (splicing), transcription, and histone modification, together with microtubule-based movement and cell division. This suggests a coherent group of proteins coordinating gene expression with cell-cycle progression; tissue development terms may reflect proliferation rather than a separate theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0051567","count":3},{"id":"GO:0060770","count":3}]},{"hash":"1978775543717775348","title":"Antiviral innate immune signaling","description":"This cluster is dominated by antiviral and innate immune GO terms (defense response to virus, innate immune response, regulation of interferon-beta production, and NF-kappaB signaling), suggesting a shared function in antiviral defense, with a few outliers related to calcium signaling and cardiac action potential that may reflect annotation noise.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0032728","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0098910","count":2}]},{"hash":"1664076647383334073","title":"Embryonic organogenesis and craniofacial morphogenesis","description":"The top GO terms cluster around developmental processes such as cartilage morphogenesis, palate/roof of mouth development, heart-related EMT in endocardial cushion formation, left-right patterning, and broader endocrine organ development, suggesting a group of proteins involved in embryonic tissue formation and craniofacial/organoogenesis programs. Some housekeeping processes (splicing, ribosomal export) are present but do not override the developmental theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060536","count":12},{"id":"GO:0035270","count":12},{"id":"GO:0003198","count":12},{"id":"GO:0060806","count":12},{"id":"GO:0060972","count":12}]},{"hash":"1112643278736780928","title":"Embryonic heart and organ morphogenesis","description":"Terms center on embryonic organogenesis, especially heart formation and left/right patterning, with EMT in endocardial cushion formation, plus developmental processes for cartilage, pancreatic cells, endocrine systems, and placental lineages, indicating a cohesive developmental program.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0060914","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060972","count":2}]},{"hash":"173780989981378113","title":"Embryonic heart and craniofacial morphogenesis","description":"The majority of top GO terms point to developmental processes, especially heart-related development (proepicardium, ventricular septum), axis specification, and roof-of-mouth formation, with activity in Wnt signaling. While some terms reflect general cellular processes (cell cycle, protein turnover, dsRNA response), the dominant theme is embryonic organogenesis and patterning, notably heart and facial structures.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0003342","count":2},{"id":"GO:0071360","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000413","count":2},{"id":"GO:0042787","count":2}]},{"hash":"535763086988848777","title":"Insulin-ERK Signaling and Cell Adhesion","description":"The cluster is enriched for insulin receptor signaling and ERK1/ERK2 cascade, plus integrin-mediated signaling, receptor clustering, and substrate adhesion-dependent cell spreading, pointing to a growth-factor signaling axis that promotes adhesion, survival (negative regulation of anoikis), and cytoskeletal dynamics. Some proliferation-related terms (DNA replication initiation and mitotic checkpoint signaling) may reflect associated growth programs, producing a cohesive theme of signaling linked to adhesion and proliferation control.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032298","count":7},{"id":"GO:0008286","count":7},{"id":"GO:2001275","count":7},{"id":"GO:0007095","count":6},{"id":"GO:0043113","count":6}]},{"hash":"490673562676239510","title":"Dendritic Spine Remodeling and Synaptic Signaling","description":"The enrichment includes dendritic spine morphogenesis, ephrin signaling, glutamatergic synaptic transmission, and actin cytoskeleton regulation, all pointing to a module of synaptic formation/plasticity and neuronal signaling; other terms reflect broader cellular signaling but do not outweigh the neuronal theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060997","count":5},{"id":"GO:0048013","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0050798","count":5},{"id":"GO:0008286","count":5}]},{"hash":"2003404453573184040","title":"Endosomal trafficking and GTPase signaling","description":"The GO terms cluster around endosomal transport steps (early endosome to Golgi, late endosome, lysosome) and intracellular protein transport, with multiple entries about GTPase regulation (Rho, Ras) and phosphatidylinositol signaling, plus synaptic vesicle priming. This points to a module coordinating vesicle trafficking regulated by GTPases, hence the label.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0046580","count":4},{"id":"GO:0016082","count":4},{"id":"GO:0010796","count":4}]},{"hash":"670859684453991385","title":"NF-kappaB\u2013driven innate immune signaling","description":"This cluster is dominated by GO terms tied to innate immunity and NF-kappaB pathway regulation (positive regulation of canonical NF-kappaB signaling, innate immune response). The presence of T cell costimulation and viral-entry regulation terms reinforces an immune-signaling signature, with a few development-related terms likely representing secondary annotations. Overall, the core theme appears to be immune signaling rather than a single developmental process.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0046598","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0043931","count":2}]},{"hash":"200207327930210625","title":"TLR4-LPS Innate Immune Signaling","description":"The cluster is dominated by GO terms tied to innate immunity and inflammatory signaling, including TLR4 signaling, lipopolysaccharide-mediated pathways, and defense responses to bacteria, with additional hints from IL-8 production and exogenous dsRNA response. This pattern suggests proteins functioning together in TLR4-driven recognition of bacterial components and initiation of innate immune responses.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006954","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0045087","count":2}]},{"hash":"1546873086277675664","title":"Adaptive immune activation and B cell signaling","description":"The top GO terms point to immune system processes, especially adaptive immune response and B cell receptor signaling, with related cytokine signaling (IL-6, IL-2) and phagocytosis. Additional terms like megakaryocyte development and angiogenesis fit within inflammatory/hematopoietic contexts often associated with immune activation. Overall, this cluster centers on immune activation with a strong emphasis on B cell\u2013related signaling.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070102","count":3},{"id":"GO:0045425","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0001525","count":3}]},{"hash":"2200168307980778245","title":"Unknown","description":"The top GO terms span optic nerve morphogenesis, heart development, innervation, synaptic plasticity, immune differentiation, innate immune response, insulin signaling, and IL-4 production. There is no single coherent function or pathway tying these terms together; they likely reflect pleiotropic roles across tissues rather than a unified cluster. Therefore Unknown.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021631","count":5},{"id":"GO:1901214","count":5},{"id":"GO:0060384","count":4},{"id":"GO:1900273","count":4},{"id":"GO:0002344","count":4}]},{"hash":"305993750656858460","title":"Adaptive immune signaling and cell adhesion","description":"The top GO terms point to adaptive immunity (B cell receptor signaling, adaptive immune response) and key signaling cascades (Rho, ERK, NF-kappaB) that regulate cell adhesion and differentiation. This mix suggests proteins involved in immune activation and cell interactions, with vascular/heart development signals as ancillary context.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0043552","count":7},{"id":"GO:0070374","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0050853","count":5}]},{"hash":"1845639079838856678","title":"Nociception and GPCR-mediated inflammatory signaling","description":"These proteins repeatedly appear with GO terms tied to pain perception, prostaglandin responses, GPCR signaling and internalization, and inflammatory/immune responses, plus stress-related terms like temperature and xenobiotic response. The common thread seems to be GPCR-regulated nociceptive signaling intertwined with inflammatory and stress responses, rather than a single, cohesive metabolic pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0022900","count":7},{"id":"GO:0071380","count":6},{"id":"GO:0042493","count":6},{"id":"GO:0002024","count":6}]},{"hash":"891693121564172847","title":"TLR-Mediated Antibacterial Defense Signaling","description":"Reasoning: The dominant GO terms point to innate immune responses and Toll-like receptor signaling, including detection of bacterial lipoproteptides, MyD88-independent TLR signaling, I-kappaB phosphorylation, and antibacterial peptide biosynthesis, all converging on NF-\u03baB\u2013mediated defense. A floral meristem growth term appears incidental. Therefore the label reflects the core function of the cluster.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050830","count":5},{"id":"GO:0007169","count":4},{"id":"GO:1905289","count":4},{"id":"GO:0070340","count":4},{"id":"GO:0002756","count":4}]},{"hash":"592338420245689779","title":"Unknown","description":"Top GO terms are highly diverse and do not converge on a single biological function. Terms touch immune signaling (NOD2 pathway, chemokine production, foam cell differentiation), telomere maintenance, tissue differentiation (fat cell, prostate epithelium), secretion (vasopressin), sensory perception (thermoception), and protein modification (ADP-ribosylation). Because there is no clear, cohesive theme tying the 24 proteins together, a specific, concise label cannot be assigned.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071651","count":5},{"id":"GO:1904743","count":5},{"id":"GO:1904357","count":5},{"id":"GO:0060743","count":5},{"id":"GO:0045444","count":5}]},{"hash":"380557924971857117","title":"Ubiquitin turnover and chromatin regulation","description":"The top GO terms show a strong emphasis on ubiquitin cycling (recycling, depolymerization, K6-linked deubiquitination, ubiquitin-dependent protein catabolic process) together with histone methylation (H3K4/H3K79) and regulation of DNA-templated transcription. This indicates a functional cluster of proteins coordinating ubiquitin signaling with chromatin modifications to control transcription. An outlier term related to adult feeding behavior is present but does not alter the overall theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0010992","count":2},{"id":"GO:0010995","count":2},{"id":"GO:0044313","count":2},{"id":"GO:0051568","count":2}]},{"hash":"968663920300878662","title":"Ribosome biogenesis and translation regulation","description":"This cluster is dominated by GO terms related to translation and ribosome biogenesis (translation, ribosome biogenesis, ribosomal large subunit biogenesis) with several entries on translation initiation/termination and negative regulation of translation, indicating proteins linked to the ribosome assembly and control of protein synthesis; additional terms about UV response and transcription-related processes likely reflect stress-linked regulation rather than a separate pathway. Overall, the key theme is ribosome biogenesis and translation regulation.","confidence":"High","size":23,"edges":149,"triangles":488,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0042254","count":3},{"id":"GO:0031564","count":2},{"id":"GO:0006283","count":2},{"id":"GO:0006353","count":2}]},{"hash":"213059389923914644","title":"Unknown","description":"The GO terms are highly diverse, spanning vacuole targeting, protein oligomerization, various developmental processes, immune signaling (NF-kB, TNF response, death-inducing signaling), plant systemic resistance, and miRNA regulation. There is no single cohesive function tying these proteins together, so a concise representative label cannot be assigned.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006623","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0007432","count":1},{"id":"GO:0038061","count":1},{"id":"GO:0071550","count":1}]},{"hash":"2097537009486650337","title":"Developmental signaling and morphogenesis","description":"The top terms cluster around heart development, angiogenesis, and general multicellular development, with connected signaling pathways (JNK cascade, erythropoietin signaling) and processes like planar polarity and apoptosis. This suggests a set of proteins involved in developmental signaling and tissue morphogenesis, with broader roles in cell migration and neural-related responses that can be part of developmental remodeling. Confidence: Medium","confidence":"","size":23,"edges":111,"triangles":344,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":15},{"id":"GO:0001525","count":15},{"id":"GO:0007275","count":15},{"id":"GO:0046330","count":14},{"id":"GO:0045425","count":14}]},{"hash":"105229480634423727","title":"Neural crest\u2013driven nerve development and heart formation","description":"The terms cluster around neural crest\u2013derived tissues and their contributions to peripheral nervous system development (trigeminal nerve structure, sympathetic neuron guidance/extension, axonal fasciculation, branchiomotor neuron guidance) and heart formation, with related regulation of Rho signaling and cell adhesion shaping cytoskeletal dynamics for migration and axon pathfinding. This suggests a cohesive theme of neural crest\u2013driven morphogenesis in both PNS and heart. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0061000","count":8},{"id":"GO:0035023","count":8},{"id":"GO:0021637","count":8},{"id":"GO:0036486","count":8}]},{"hash":"445758385559125991","title":"Bacterial metabolism and biosynthesis pathways","description":"The Top GO terms show a suite of metabolic and biosynthetic processes\u2014fatty acid beta-oxidation, phylloquinone and menaquinone biosynthesis (vitamin K forms), antibiotic biosynthesis, and various catabolic pathways (valine, phenylacetate, sialic acid). This suggests a theme centered on bacterial metabolism and specialized biosynthetic capabilities, with a few outliers likely due to annotation noise. ","confidence":"Medium","size":23,"edges":31,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":2},{"id":"GO:0006635","count":2},{"id":"GO:0010124","count":2},{"id":"GO:0042372","count":2},{"id":"GO:0009234","count":2}]},{"hash":"834588376834161146","title":"Broad Signaling and Apoptosis Responses","description":"The top terms cover GPCR signaling, synaptic vesicle priming, exocytosis-related processes (acrosome reaction), growth-factor signaling (EGF), Ras regulation, cell migration, and apoptosis, indicating a broad set of signaling-related functions rather than a single unified theme. Given no edges and a mix of pathways, the label aims to capture the general signaling-and-response nature of the cluster.","confidence":"Low","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016082","count":3},{"id":"GO:0007213","count":3},{"id":"GO:0032094","count":3},{"id":"GO:0006924","count":3},{"id":"GO:0007340","count":3}]},{"hash":"758038672438032446","title":"Hormone-regulated development and reproduction","description":"The cluster includes GO terms tied to developmental processes (embryo implantation, eye development, male gonad development) and hormone signaling (response to estradiol), with additional terms like apoptotic and xenobiotic response suggesting broader regulatory context. Together these point to a theme of development guided by hormonal cues and reproductive biology, justifying a label that emphasizes hormone-regulated development and reproduction. ","confidence":"Medium","size":23,"edges":12,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045740","count":4},{"id":"GO:0008344","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0060313","count":3}]},{"hash":"54759125376817090","title":"Transcriptional Regulation and Signaling","description":"Based on the dominant GO terms, the cluster centers on transcriptional regulation (DNA-templated transcription, galactose-induced transcription) and signaling events (collagen-activated tyrosine kinase receptor signaling, protein trans-autophosphorylation), with additional terms touching development and cell cycle. This suggests a theme around regulatory networks rather than a single, cohesive process, hence a label that captures both transcription and signaling.","confidence":"Medium","size":23,"edges":13,"triangles":2,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000435","count":22},{"id":"GO:0006351","count":22},{"id":"GO:0046638","count":21},{"id":"GO:0010954","count":21},{"id":"GO:0046826","count":21}]},{"hash":"1663076948880434815","title":"Embryonic development and tissue morphogenesis","description":"Proteins in this cluster map to a broad set of developmental processes across multiple tissues\u2014palate formation, mesoderm development, endocrine system development, cartilage and hair follicle morphogenesis, and EMT in heart cushions\u2014suggesting a cohesive role in general embryonic development and organ/tissue morphogenesis rather than a single specific pathway.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060021","count":13},{"id":"GO:0007498","count":12},{"id":"GO:0003323","count":12},{"id":"GO:0060707","count":12},{"id":"GO:0060536","count":11}]},{"hash":"964975474109340100","title":"Ubiquitin-dependent proteolysis and inflammatory signaling","description":"Top GO terms cluster around ubiquitin-dependent protein catabolic processes, autoubiquitination, various ubiquitin linkages (K6, K48), ERAD-related pathways, histone ubiquitination/turnover, and signaling cascades such as TNF, NF-\u03baB, and JNK. This points to a cohesive function for these proteins in tagging and degrading substrates to regulate inflammatory and stress signaling, including chromatin-associated regulation via ubiquitination. High","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:1903265","count":15},{"id":"GO:0051865","count":15},{"id":"GO:0030433","count":14},{"id":"GO:0036205","count":14}]},{"hash":"162367283589192580","title":"Transcriptional control and cell cycle regulation","description":"The cluster is dominated by transcription-related terms (DNA-templated transcription, regulation of transcription by RNAP II) and cell cycle progression terms (G1/S and G2/M transitions, and positive regulation of CDK activity), suggesting a core function in coordinating transcription with cell division. The tissue-development terms (mammary gland alveolus development, Leydig cell differentiation) are present but appear less central to the main theme, indicating differentiation context rather than a defining cluster function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0060749","count":8},{"id":"GO:0033327","count":8},{"id":"GO:0046626","count":7},{"id":"GO:0000082","count":6}]},{"hash":"1602677518748770532","title":"Muscle development via ubiquitin-mediated proteolysis","description":"The top GO terms are strongly centered on ubiquitin-dependent proteolysis (ubiquitin tagging and protein degradation) and sarcomere organization/skeletal muscle development, suggesting proteins in this cluster mainly drive muscle fiber assembly and turnover through ubiquitin signaling. Some other terms (circadian regulation, signaling) are less closely related and may reflect pleiotropy or annotation noise, but the dominant signal points to muscle differentiation linked to ubiquitin-mediated proteolysis.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0042752","count":12},{"id":"GO:0000209","count":9},{"id":"GO:0007399","count":7},{"id":"GO:0009742","count":7}]},{"hash":"780773169546046112","title":"Immune signaling and cytoskeleton remodeling","description":"The cluster shows enrichment for defense response to Gram-positive bacteria, T cell homeostasis, JNK cascade regulation, and actin cytoskeleton organization, suggesting a link between immune signaling and cytoskeletal remodeling. Additional terms like extracellular matrix disassembly and ribosome biogenesis point to broader cellular growth and structural processes that often accompany immune responses, supporting a cohesive theme of immune\u2013cytoskeletal coordination. Overall, the connection is plausible but not exclusive, giving a medium confidence.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0043029","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0042254","count":2}]},{"hash":"1450263066892445057","title":"Embryonic organ morphogenesis and neural differentiation","description":"The cluster\u2019s top GO terms point to development and tissue formation across multiple organs (eye, lung, pancreas, brain, spinal cord) and to neural lineage specification, including neuron and oligodendrocyte fate decisions. While transcription by RNA polymerase II is a general process, the recurring themes are embryonic morphogenesis and cell fate specification, suggesting a cohesive developmental program.","confidence":"High","size":23,"edges":249,"triangles":1690,"max_degree":22,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":20},{"id":"GO:0043010","count":16},{"id":"GO:0060441","count":16},{"id":"GO:0031018","count":16},{"id":"GO:0048048","count":16}]},{"hash":"1585772797800914770","title":"Craniofacial, mesodermal, and endocrine development","description":"These proteins show enrichment for developmental processes across craniofacial (palate), mesodermal (mesoderm, cartilage), and endocrine lineages (endocrine system development, hair follicle morphogenesis). While a couple of terms relate to general cellular regulation (ribosomal export, transcriptional regulation), the overall theme is cohesive around coordinated tissue development and morphogenesis.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":12},{"id":"GO:0003323","count":9},{"id":"GO:0007498","count":8},{"id":"GO:0000055","count":8},{"id":"GO:0060536","count":8}]},{"hash":"1529345413801136551","title":"Chromatin Regulation and Ubiquitin Signaling","description":"The top GO terms cluster around transcriptional control and chromatin state (regulation of DNA-templated transcription, histone H3-K4 methylation, spliceosomal complex assembly) and protein turnover via the ubiquitin-proteasome system (ubiquitin-dependent catabolic process, negative regulation of ubiquitin ligase activity). Together these suggest a core theme of gene expression regulation with linked ubiquitin-mediated regulation of proteins, while a few peripheral terms touch stress, defense, and behavior. Confidence: High","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0006511","count":3},{"id":"GO:0051568","count":2},{"id":"GO:0008343","count":2},{"id":"GO:1904667","count":2}]},{"hash":"1709563108374970124","title":"Embryonic Tissue Morphogenesis","description":"The top GO terms cluster around development and morphogenesis across diverse tissues (palate, mesoderm, pancreas, cartilage, hair follicle, endocrine system), indicating proteins are involved in organ and tissue formation during embryogenesis. A couple of terms pertain to general cellular processes, but the dominant signal is developmental morphogenesis.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0060021","count":14},{"id":"GO:0007498","count":13},{"id":"GO:0003323","count":13},{"id":"GO:0060707","count":12},{"id":"GO:0000055","count":11}]},{"hash":"1909919557480248646","title":"Neutrophil migration and cytoskeletal dynamics","description":"The top GO terms point to immune-cell movement and actin-based structure formation (neutrophil chemotaxis, filopodium/microspike assembly, substrate adhesion-dependent spreading) and signaling that drives cytoskeletal remodeling (GTPase activation, NF-kappaB regulation). Though a few terms touch broader immune signaling and barrier functions, the dominant theme across the cluster is cytoskeletal reorganization linked to cell migration in an immune context.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030593","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0090630","count":3},{"id":"GO:0090557","count":3}]},{"hash":"1125686324405291854","title":"RNA processing and developmental programs","description":"This cluster centers on RNA metabolism, including rRNA maturation and transcription, alongside multiple development-related terms (eyelid, skin, male gonad development). The mix suggests a broad theme around RNA processing linked to diverse developmental roles rather than a single, cohesive pathway. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016575","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0090307","count":2}]},{"hash":"1171680061706813312","title":"Embryonic Mesodermal and Craniofacial Morphogenesis","description":"Top GO terms include mesoderm development, cartilage morphogenesis, palate development, hair follicle morphogenesis, and EMT in heart formation, all pointing to embryonic tissue morphogenesis with emphasis on mesodermal/craniofacial contexts. The terms are diverse but share a developmental/morphogenetic theme, so this label fits.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0060021","count":2}]},{"hash":"2277015521900637225","title":"Neural and muscle development and fate specification","description":"GO terms converge on development and cell fate specification across multiple tissues, notably neural lineages (spinal cord motor neuron fate specification; GABAergic interneuron differentiation; subpallium neuron fate commitment; cerebral cortex development) and muscle lineages (skeletal muscle cell differentiation; positive regulation of skeletal muscle differentiation). Additional terms for bronchiole and endocrine pancreas development and general transcription by RNA polymerase II suggest a broad developmental program. The shared theme is transcriptionally coordinated differentiation programs in neural and muscle tissues, making this a coherent neural-muscular development cluster.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0031018","count":11},{"id":"GO:2001016","count":10},{"id":"GO:0021530","count":10},{"id":"GO:0060435","count":10}]},{"hash":"1994555001205887747","title":"Dopamine/Adrenergic GPCR Signaling in Retina and Heart","description":"This cluster is centered on GPCR-mediated signaling pathways, particularly dopamine and adrenergic signaling that activate adenylate cyclase and phospholipase C, with upstream regulators like GTPase activity and phosphatidylinositol biosynthesis. The presence of retina-related terms (phototransduction, retina development) alongside heart development suggests proteins that participate in GPCR signaling impacting both ocular and cardiac development, making a coherent, functionally linked group.","confidence":"High","size":22,"edges":221,"triangles":1363,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":22},{"id":"GO:0010513","count":21},{"id":"GO:0043950","count":21},{"id":"GO:0007191","count":21},{"id":"GO:0060158","count":21}]},{"hash":"2094433274703796824","title":"Dendrite growth and actin cytoskeleton regulation","description":"The terms center on actin remodeling and dendrite extension (Arp2/3-mediated nucleation; GTPase activity regulation), with supporting kinase signaling and developmental processes, pointing to coordinated neuronal morphogenesis rather than unrelated processes. This makes the label a concise representation of the cluster\u2019s core function.","confidence":"Medium","size":22,"edges":28,"triangles":27,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:1903861","count":5},{"id":"GO:0031954","count":4},{"id":"GO:0050731","count":4},{"id":"GO:0043588","count":4}]},{"hash":"1167423393921398002","title":"Developmental Signaling Pathways","description":"Top terms indicate involvement in nervous system and kidney development, plus several core signaling pathways (ERK, Wnt, Hedgehog/SMO, Robo, JNK, PI3K). This suggests a developmental signaling module coordinating growth and differentiation.","confidence":"Medium","size":22,"edges":110,"triangles":182,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0001822","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0007224","count":6},{"id":"GO:0050852","count":6}]},{"hash":"411948035338340243","title":"Synapse Assembly and Plasticity","description":"The top GO terms emphasize synapse structure, localization, receptor clustering, and dendritic spine morphogenesis, pointing to roles in synapse formation and plasticity. Rho signaling and Golgi localization support cytoskeletal rearrangements and trafficking required for synaptic remodeling. Some terms reference barriers or cochlear morphogenesis, which may reflect shared developmental pathways or neural tissue contexts, but overall the cluster centers on proteins involved in synapse formation, localization, and plasticity.","confidence":"High","size":22,"edges":128,"triangles":402,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051835","count":12},{"id":"GO:0035418","count":12},{"id":"GO:0043113","count":12},{"id":"GO:0070830","count":12},{"id":"GO:0090103","count":12}]},{"hash":"457268387122932332","title":"RNAi Machinery and Antiviral RNA Editing","description":"The cluster is dominated by RNA interference-related terms: siRNA processing (two terms), RISC complex assembly, and adenosine-to-inosine RNA editing, plus a virus response term, pointing to an RNAi/antiviral defense theme. Some outlier terms (DNA replication, development-related processes) appear but do not dominate the functional signal. Confidence: High","confidence":"","size":22,"edges":5,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090502","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0035087","count":3},{"id":"GO:0045433","count":3},{"id":"GO:0021965","count":3}]},{"hash":"410419126095257342","title":"Muscle development and sarcomere organization","description":"The top GO terms are dominated by sarcomere organization, skeletal muscle tissue development, and skeletal muscle cell differentiation, indicating a muscle-focused functional theme for this cluster. Ubiquitin-dependent protein catabolic process may reflect protein turnover in muscle remodeling. Several other terms (plant signaling or unrelated processes) appear incidental or due to cross-species annotations, but the strongest signal centers on muscle structure and development. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0045214","count":8},{"id":"GO:0007399","count":7},{"id":"GO:0009742","count":7},{"id":"GO:0035914","count":7}]},{"hash":"2215243460786140785","title":"Embryonic organogenesis","description":"These terms point to broad embryonic development and organ morphogenesis, including eye, pituitary, muscle, nervous system, and lung morphogenesis, as well as primitive streak formation. The cluster appears to group proteins involved in early developmental programs across multiple tissues rather than a single pathway.","confidence":"High","size":22,"edges":6,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0021983","count":11},{"id":"GO:0048935","count":9},{"id":"GO:0006366","count":9},{"id":"GO:0090009","count":9}]},{"hash":"142206548998156302","title":"Neuronal Development and Synaptic Plasticity","description":"The top GO terms point to neural development and synaptic functions, including brain development, synaptic vesicle priming, and positive regulation of synaptic plasticity/short-term potentiation. Additional terms about receptor endocytosis, intracellular transport, and TORC1 signaling suggest coordinated neural signaling and growth processes in neurons. Together, these indicate a cluster centered on neuronal development and synaptic signaling/plasticity.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0038028","count":3},{"id":"GO:0048260","count":3},{"id":"GO:0016082","count":3},{"id":"GO:0032024","count":3}]},{"hash":"1777415771704692665","title":"Steroid and hormone biosynthesis","description":"The top GO terms cluster around biosynthetic processes for steroid- and lipid-derived signaling molecules (9-cis-retinoic acid, androgen, vitamin D, aldosterone, ecdysone, brassinosteroids) and related oxidation pathways (omega-hydroxylase P450, oxylipin), indicating a core theme of hormone/sterol biosynthesis across organisms; a single outlier (vancomycin biosynthesis) does not override the overall pattern.","confidence":"High","size":22,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042904","count":18},{"id":"GO:0008209","count":18},{"id":"GO:0042369","count":18},{"id":"GO:0032342","count":18},{"id":"GO:0033072","count":18}]},{"hash":"741758814626508099","title":"GPCR-Mediated Sensory Thermoregulation","description":"The cluster is dominated by GPCR signaling terms, including cGMP-linked and adenylate cyclase-activating pathways, alongside multiple sensory perception terms (pain and vision) and temperature-related processes (diet-induced thermogenesis, cellular response to temperature stimulus). This suggests a coherent theme of GPCR-driven signaling coordinating sensory perception and thermoregulation/homeostasis, with supporting energy metabolism signals (electron transport chain) and autonomic outputs (saliva secretion, blood pressure). ","confidence":"High","size":22,"edges":119,"triangles":206,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0002024","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0046541","count":11},{"id":"GO:0007199","count":11}]},{"hash":"279784103229568988","title":"Axon Guidance and Neural Development","description":"The cluster shows strong enrichment for neural development terms: axon guidance (GO:0007411) and nervous system development (GO:0007399), with a clear reference to the Roundabout signaling pathway, which is well-known for guiding growing axons. While other terms touch on broader developmental processes, the prominent neural guidance signals suggest a core theme of axon pathfinding within nervous system development. ","confidence":"High","size":22,"edges":45,"triangles":15,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":10},{"id":"GO:0007399","count":8},{"id":"GO:0090307","count":8},{"id":"GO:0043931","count":8},{"id":"GO:0035385","count":8}]},{"hash":"1508214917594629788","title":"CNS Development and Axon Guidance","description":"The top terms cluster around neural development, axon guidance, and connectivity (retinal ganglion and corpus callosum development, Slit-Robo/Roundabout signaling, central nervous system projection neuron axonogenesis, synapse assembly, and myelination), with RTK signaling at the cell surface. This suggests a coherent role in CNS patterning and connectivity.","confidence":"High","size":22,"edges":203,"triangles":1087,"max_degree":21,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007169","count":13},{"id":"GO:0031290","count":13},{"id":"GO:0051965","count":13},{"id":"GO:0021836","count":13},{"id":"GO:0022038","count":13}]},{"hash":"1504133216581201226","title":"Golgi-Dependent Vesicle Transport and Organization","description":"The dominant GO terms describe ER-to-Golgi and intra-Golgi vesicle trafficking, Golgi ribbon formation, and Golgi organization, plus vesicle fusion with the Golgi, pointing to a cohesive function in the secretory pathway and Golgi apparatus dynamics; a few terms (defense response to virus, synaptic potentiation) appear peripheral and not core to the cluster.","confidence":"High","size":22,"edges":14,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051607","count":4},{"id":"GO:0090161","count":4},{"id":"GO:0006891","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0006896","count":4}]},{"hash":"1607759520127399191","title":"Neuronal Synapse Formation and Vesicle Exocytosis","description":"The cluster shows a clear emphasis on brain development, synapse assembly, and regulation of synaptic vesicle exocytosis, pointing to neuronal connectivity and neurotransmission. Additional enrichment in Rho signaling suggests cytoskeletal remodeling for neurite growth and synapse maturation, with membrane repair as a compatible neuron-maintenance function. A few immune/vascular terms may be peripheral noise rather than core functions of the cluster.","confidence":"High","size":22,"edges":189,"triangles":866,"max_degree":20,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":9},{"id":"GO:0031384","count":8},{"id":"GO:0010796","count":8},{"id":"GO:2000300","count":8},{"id":"GO:0001778","count":8}]},{"hash":"2091898764130126774","title":"Heart and vascular development","description":"Top terms center on heart formation and vessel morphogenesis (coronary artery morphogenesis, heart development, endothelial chemotaxis, smooth muscle proliferation) with related signaling (MAPK/ERK) and adhesion processes; the axon guidance terms likely reflect shared signaling pathways but the dominant theme is cardiovascular development.","confidence":"High","size":22,"edges":71,"triangles":30,"max_degree":16,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0060982","count":13},{"id":"GO:0035767","count":13},{"id":"GO:0048842","count":13},{"id":"GO:0000187","count":12},{"id":"GO:0070374","count":11}]},{"hash":"1489275882234029985","title":"Unknown","description":"GO terms span neural functions (sound perception, synaptic plasticity, myelination), immune components (hemocyte proliferation, B cell differentiation), vascular integrity (endothelial barrier), membrane organization (eisososome assembly), adhesion regulation, and transcriptional control. The wide dispersion of processes provides no single cohesive theme, so a common functional label is not supported.","confidence":"","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0048169","count":3},{"id":"GO:0035208","count":3},{"id":"GO:0061028","count":3}]},{"hash":"24545488687533278","title":"Ubiquitination and protein degradation","description":"Most prominent GO terms are centered on ubiquitination: protein ubiquitination, polyubiquitination, autoubiquitination, and a ubiquitin-dependent ERAD pathway. This points to a shared theme of ubiquitin-mediated protein modification and proteostasis. Other terms (negative regulation of apoptosis, EGFR signaling, vitamin D response, adipocyte differentiation, mechanical stimulus response) appear as broader contextual roles that can involve ubiquitin dynamics, but the core cluster is linked to ubiquitin-proteasome\u2013mediated regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":7},{"id":"GO:0043066","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0098907","count":7},{"id":"GO:0033280","count":7}]},{"hash":"839222151832760620","title":"Embryonic organ morphogenesis and patterning","description":"The top GO terms cluster around cartilage morphogenesis, endocrine system development, left-right pattern formation, and heart-related EMT events, all characteristic of embryonic development and tissue morphogenesis. This suggests the proteins are involved in developmental processes rather than a single metabolic or signaling pathway; the additional RNA processing/export terms may reflect broader transcriptional housekeeping background. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":21},{"id":"GO:0035270","count":21},{"id":"GO:0003198","count":21},{"id":"GO:0060806","count":21},{"id":"GO:0060972","count":21}]},{"hash":"2123084352774766726","title":"Growth signaling and epithelial organization","description":"This cluster centers on multiple growth-regulating and epithelial-architecture processes, including JAK-STAT signaling modulation, growth hormone receptor signaling, angiogenesis, and regulation of EMT and epithelial polarity, along with receptor internalization and Hippo pathway regulation. The GO terms collectively point to coordinated control of cell growth and tissue organization rather than a single linear pathway, suggesting proteins that tune signaling intensity and maintain epithelial structure.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0042518","count":5},{"id":"GO:0060396","count":5},{"id":"GO:0001558","count":5},{"id":"GO:0045765","count":5},{"id":"GO:0031623","count":5}]},{"hash":"1809596611196603589","title":"Actin-based protrusions and cytoskeleton remodeling","description":"The cluster is dominated by GO terms for lamellipodium, filopodium, and microspike assembly, along with processes tied to small GTPase signaling and Ras pathway modulation, all of which point to actin cytoskeleton remodeling and actin-driven cell motility. A few terms appear peripheral or obsolete, but the core theme aligns with protrusive structures and their regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0060124","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0030035","count":2}]},{"hash":"470331331781891272","title":"Defense signaling and antimicrobial peptide production","description":"The top GO terms center on immune-related processes, including antifungal peptide production, induced systemic resistance, detection of bacterial lipopeptides, and regulation of chemokine production, suggesting a core theme of defense signaling and antimicrobial response; a few unrelated terms (axon guidance, ribosomal export) may reflect annotation noise.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090073","count":3},{"id":"GO:0048846","count":3},{"id":"GO:0006407","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0007169","count":2}]},{"hash":"517366001164142711","title":"Mitochondrial energy regulation and membrane transport","description":"The cluster is centered on GO terms about mitochondria\u2014regulation of mitochondrial membrane potential, mitochondrial membrane permeability, and mitochondrial ATP transmembrane transport\u2014suggesting proteins that modulate mitochondrial energy state and exchange across membranes. Other terms like glycine import, ERAD, abscission, viral life cycle, and pregnancy may reflect peripheral or context-specific roles or annotation noise. Overall, the common theme is mitochondrial function and membrane transport.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060546","count":4},{"id":"GO:0051881","count":4},{"id":"GO:0036233","count":4},{"id":"GO:0019058","count":3},{"id":"GO:0030433","count":3}]},{"hash":"107894411376158200","title":"Embryonic development and morphogenesis","description":"This cluster is dominated by GO terms related to embryonic development, tissue morphogenesis, and patterning (cartilage morphogenesis, endocrine system development, EMT in heart formation, left-right patterning, placental/trophoblast differentiation, etc.), suggesting a cohesive theme around embryogenesis and organogenesis. Some terms about ribosome export or transcription regulation appear incidental and not central to this developmental theme. Confidence: High","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":20},{"id":"GO:0035270","count":20},{"id":"GO:0003198","count":20},{"id":"GO:0060806","count":20},{"id":"GO:0060972","count":20}]},{"hash":"2100015969680458726","title":"DNA Damage Response and Energy Metabolism","description":"This cluster is dominated by terms related to DNA repair and energy metabolism, including lagging strand elongation, DNA ligation in repair, poly-ADP-ribosylation, and ATP generation/regulation, suggesting proteins here may function together in genome maintenance and energy balance. Some terms like Notch signaling and lipid droplet organization appear less directly connected, likely representing broader or background annotations.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001170","count":3},{"id":"GO:0006273","count":3},{"id":"GO:1990966","count":3},{"id":"GO:0051103","count":3},{"id":"GO:0070212","count":3}]},{"hash":"2280465506042545985","title":"Cartilage and bone development","description":"The top GO terms cluster around skeletal development: cartilage development, ossification regulation, and BMP signaling regulation, with related endocardial differentiation. Despite a general term for DNA-templated transcription, the strongest signals support joint processes of cartilage formation and bone ossification, suggesting a developmental/regulatory module tied to skeletal tissue formation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0032332","count":2},{"id":"GO:0071407","count":2},{"id":"GO:0030279","count":2},{"id":"GO:0030514","count":2}]},{"hash":"1835553287475898792","title":"Embryonic development and tissue morphogenesis","description":"The proteins cluster around developmental processes across multiple tissues, including mesoderm development, left-right pattern formation, EMT in heart cushion, hair follicle morphogenesis, placenta/trophoblast differentiation, and related morphogenetic events, with supporting links to general regulatory processes like Rab signaling and apoptosis.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032483","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0007498","count":2},{"id":"GO:0010957","count":2}]},{"hash":"625542229469856613","title":"RNA processing and translation initiation","description":"Top GO terms indicate a cohesive role in RNA maturation and control of translation, with emphasis on translation reinitiation, preinitiation complex formation, and regulation of translational initiation, alongside mRNA export and spliceosome-mediated splicing. Although some terms are irrelevant or obsolete, the cluster overall points to post-transcriptional gene expression processes and coordination of RNA processing with initiation of translation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0006406","count":7},{"id":"GO:1903586","count":6},{"id":"GO:0006446","count":6}]},{"hash":"1714911453927728736","title":"Embryonic Development and Tissue Differentiation","description":"The top GO terms concentrate on developmental processes such as mesoderm development, left/right pattern formation, heart-related EMT, placental/trophoblast differentiation, and skin development, with supporting roles for RNA processing and transcription regulation. This points to a cluster of proteins broadly involved in embryonic development and lineage specification rather than a single pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0043588","count":3},{"id":"GO:0007498","count":3},{"id":"GO:0010957","count":3},{"id":"GO:0060972","count":3}]},{"hash":"2005541680732028653","title":"RNA Splicing and Embryonic Development","description":"This cluster shows strong signals for RNA processing, with GO terms for spliceosomal assembly and mRNA splicing via spliceosome, plus ribosomal subunit export, suggesting a core role in RNA maturation. There are additional development-related terms (left/right pattern formation, endocardial cushion formation, trophoblast differentiation, placenta and cartilage development), indicating these proteins may link RNA processing to developmental patterning and differentiation. The mixed signals imply a coherent theme around RNA splicing contributing to developmental regulation, but with some diversity in specific developmental roles, so a Medium confidence.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":4},{"id":"GO:0060972","count":4},{"id":"GO:1903026","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060806","count":4}]},{"hash":"212036110211192006","title":"Xenobiotic and Nutrient Transmembrane Transport","description":"The cluster shows a strong enrichment for transmembrane transport terms across xenobiotics, vitamins, sugars, and ions (e.g., xenobiotic transport, vitamin transmembrane transport, D-glucose/fructose transport, urate/phosphate ion transport, potassium ion transport), indicating a shared function in moving diverse substrates across membranes. Some terms may be less directly related (e.g., lactose biosynthetic process, obsolete quorum sensing term), but the dominant theme is membrane transport of small molecules and ions.","confidence":"High","size":21,"edges":6,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":20},{"id":"GO:0042908","count":20},{"id":"GO:0035461","count":20},{"id":"GO:0071805","count":19},{"id":"GO:0015747","count":17}]},{"hash":"1295671138744358742","title":"Embryonic Development and Organogenesis","description":"This cluster is dominated by GO terms tied to embryonic development and tissue morphogenesis, including endocrine system development, mesoderm formation, left\u2013right patterning, cartilage morphogenesis, placental and trophoblast differentiation, palate development, and pancreas development. The diverse but coherent emphasis on developmental and organogenesis processes suggests a set of proteins participating in embryonic patterning and morphogenetic programs. The lack of edges does not contradict this interpretation, as the terms reflect functional themes rather than a single pathway.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0060972","count":8},{"id":"GO:0060806","count":8},{"id":"GO:0060536","count":8}]},{"hash":"782218737794870793","title":"Developmental Transcriptional Regulation","description":"This cluster centers on transcriptional control during development, with several GO terms pointing to DNA-templated transcription and its negative regulation, alongside diverse embryonic development processes (habenula, pituitary, eye, gonad) and maturation steps (megakaryocyte differentiation). The mix suggests proteins that regulate gene expression to drive embryogenesis across multiple tissues rather than a single pathway or organ system.","confidence":"Medium","size":21,"edges":39,"triangles":11,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0021986","count":5},{"id":"GO:0008584","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1036002227429742388","title":"Angiogenesis and signaling pathway regulators","description":"The top GO terms point to angiogenesis and its regulation (positive regulation of angiogenesis; angiogenesis) and key signaling cascades (ERK/MAPK cascade; Wnt signaling), with additional immune and neural plasticity terms (T cell receptor signaling; long-/short-term synaptic plasticity). This pattern suggests a cluster of proteins that function broadly as regulators or components of multiple signaling pathways that influence vascular growth and related signaling networks. Therefore, a concise label highlighting angiogenesis alongside major signaling pathways is appropriate.","confidence":"Medium","size":21,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0007614","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0060291","count":4}]},{"hash":"2203704151123897829","title":"Ubiquitin-Dependent Protein Degradation and Stress Signaling","description":"The top GO terms cluster around ubiquitin-mediated proteolysis and autoubiquitination, with links to JNK cascade regulation and apoptotic signaling, suggesting a group centered on protein turnover and stress response; a few terms related to chromatin modification and V(D)J recombination appear as secondary roles.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0051865","count":11},{"id":"GO:0046328","count":11},{"id":"GO:1903762","count":10},{"id":"GO:0033151","count":10}]},{"hash":"2177729747362326031","title":"Chromatin Regulation and Mitosis","description":"This cluster centers on chromatin-related processes\u2014histone methylation, CENP-A chromatin assembly, imprinting-regulated gene expression, and mitotic spindle assembly\u2014pointing to coordinated nuclear events governing chromosome organization and division. A few terms outside this core theme (e.g., COPII vesicle budding, skin development) may reflect annotation noise, but the dominant signal is chromatin regulation linked to mitosis.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043588","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0051567","count":4},{"id":"GO:0090307","count":3},{"id":"GO:2001125","count":3}]},{"hash":"1889566000914792078","title":"Neural signaling and mucosal immune cues","description":"This cluster combines GO terms tied to signaling and neural regulation (prepulse inhibition, GPCR-cGMP signaling, prostaglandin response, heart rate/serotonin regulation) with mucosal immune-related activities (defense against bacteria, intraepithelial T cell differentiation) and saliva secretion. The common thread appears to be signaling pathways coordinating neural and mucosal/immune responses, suggesting a cohesive theme around neural\u2013immune signaling in mucosal contexts.","confidence":"Medium","size":21,"edges":190,"triangles":993,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016998","count":15},{"id":"GO:0042742","count":15},{"id":"GO:0006468","count":15},{"id":"GO:0046541","count":15},{"id":"GO:0060134","count":15}]},{"hash":"237635622170819210","title":"Multiorgan developmental transcriptional regulation","description":"This cluster shows strong enrichment for DNA-templated transcription and RNA polymerase II\u2013mediated transcription, alongside tissue-development terms (habenula, pituitary, thyroid, forebrain neuron fate, myoblast proliferation, ureteric bud branching). The common theme is regulation of gene expression guiding organogenesis across multiple tissues.","confidence":"High","size":21,"edges":207,"triangles":1274,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0006366","count":9},{"id":"GO:0021986","count":7},{"id":"GO:2000288","count":7},{"id":"GO:0021983","count":7}]},{"hash":"9515413609854788","title":"Ubiquitin-Dependent NF-\u03baB Signaling in Innate Immunity","description":"This cluster is enriched in ubiquitination-related processes (ubiquitin-dependent protein catabolic process, ERAD, autoubiquitination, K63- and K6-linked ubiquitination) and immune signaling (innate immune response, canonical NF-\u03baB activation), with autophagy also represented. The combination points to a module where ubiquitin modification regulates NF-\u03baB-mediated innate immune responses and associated protein turnover, including autophagy and ER-associated degradation.","confidence":"High","size":21,"edges":6,"triangles":2,"max_degree":4,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0030433","count":11},{"id":"GO:0051865","count":11},{"id":"GO:0070534","count":10},{"id":"GO:0051092","count":9}]},{"hash":"12266821566509315","title":"Endothelial barrier signaling and cytoskeletal regulation","description":"The cluster shows enrichment for terms that regulate endothelial barrier establishment, integrin and tyrosine kinase signaling, and phosphorylation/dephosphorylation processes, suggesting a role in tuning endothelial signaling and cytoskeletal dynamics to maintain barrier integrity.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903753","count":4},{"id":"GO:0090557","count":4},{"id":"GO:2000587","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0035690","count":3}]},{"hash":"1427377607481360711","title":"Cytoskeleton Remodeling and Vesicle Trafficking","description":"The cluster is enriched for actin polymerization and stress fiber regulation (formins, Rac signaling) and for vesicle transport processes (synaptic vesicle exocytosis, Golgi-to-ER trafficking). This suggests coordinated control of cytoskeletal dynamics and membrane trafficking, supported by phospholipid homeostasis terms.","confidence":"High","size":21,"edges":45,"triangles":16,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0055091","count":13},{"id":"GO:0010628","count":13},{"id":"GO:0051496","count":11},{"id":"GO:2000300","count":11},{"id":"GO:0090338","count":11}]},{"hash":"237292110893392267","title":"Neural development and brain morphogenesis","description":"This cluster is driven by GO terms related to multicellular organism development, brain development, embryonic cranial skeleton morphogenesis, and regulation of axon extension, pointing to a neural/developmental theme. A few terms (peroxisome protein import, protein catabolic process, oxidative stress) appear more generic and may reflect broader cellular roles or annotation noise. Overall, the dominant signal aligns with neural development and brain morphogenesis.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0050965","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1782225345705544626","title":"Embryonic development and organogenesis","description":"This cluster shows strong enrichment for developmental and organ formation processes, including mesoderm development, left/right patterning, palate (roof of mouth) development, cartilage morphogenesis, endocrine system development, placental/embryonic differentiation, and EMT events in heart cushion formation. The GO terms together point to coordinated embryonic patterning and morphogenesis across tissues and organs.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":15},{"id":"GO:0060972","count":14},{"id":"GO:0003198","count":14},{"id":"GO:0060806","count":14},{"id":"GO:0060707","count":14}]},{"hash":"958005480691890909","title":"Embryogenesis and organ morphogenesis","description":"The GO terms cluster around broad embryonic development and tissue morphogenesis across multiple lineages\u2014palate roof formation, mesoderm and cartilage morphogenesis, hair follicle morphogenesis, placental and endocrine system development, and left/right patterning\u2014with EMT-related processes also represented. This points to a cohesive theme of developmental organogenesis rather than a single pathway.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":13},{"id":"GO:0003323","count":11},{"id":"GO:0060972","count":10},{"id":"GO:0003198","count":10},{"id":"GO:0060806","count":10}]},{"hash":"1020783759941480603","title":"Cytoskeletal dynamics and vesicle trafficking","description":"The highlighted terms point to cytoskeletal organization (microspike and spindle assembly), membrane trafficking (endosome to lysosome transport), and related regulatory processes (GTPase activity) with additional mentions of morphogenesis and autophagy-related regulation. While diverse, the common thread is intracellular structural remodeling and transport rather than a single, unified pathway, supporting a label focused on cytoskeletal dynamics and vesicle trafficking. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000902","count":2},{"id":"GO:0008333","count":2},{"id":"GO:0032120","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0030035","count":2}]},{"hash":"86915364891239650","title":"Filopodium dynamics and small GTPase signaling regulators","description":"The top GO terms cluster around actin-based protrusions (filopodium assembly and its regulation) and signaling through small GTPases (Rho, Ras), with supporting notes on related signaling pathways. This suggests a cohesive theme of cytoskeletal remodeling coupled to signal transduction regulators, even though there are multiple specific pathways represented. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0046847","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0051489","count":3},{"id":"GO:0016082","count":3}]},{"hash":"732286846154509212","title":"Keratinocyte differentiation and cornification","description":"Most of the top GO terms cluster around keratinocyte biology and epidermal differentiation: keratinocyte migration, keratinization, cornification, and regulation of keratinocyte differentiation are all skin-related processes, indicating a cluster of proteins involved in epidermal maturation and barrier formation. While other terms appear (astrocyte development, fast-twitch muscle contraction, hepatocyte apoptotic process), the strongest signal is epidermal/keratinocyte-focused.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014002","count":5},{"id":"GO:0051546","count":4},{"id":"GO:0043000","count":4},{"id":"GO:0097284","count":4},{"id":"GO:0070268","count":4}]},{"hash":"1012985013816480287","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000495","count":2},{"id":"GO:0072327","count":2},{"id":"GO:0090502","count":2},{"id":"GO:0071035","count":2},{"id":"GO:0031047","count":2}]},{"hash":"2029119787291620060","title":"Insulin signaling and cytoskeletal regulation","description":"This cluster is dominated by terms about insulin receptor signaling and small GTPase\u2013mediated signal transduction, together with actin cytoskeleton organization, indicating a theme of signaling pathways that regulate cytoskeletal dynamics (including processes like neuronal migration). While a few terms touch on Golgi glycosylation and lipid metabolism, the core appears to be insulin signaling linked to cytoskeletal remodeling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033578","count":2},{"id":"GO:0046626","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0021816","count":2},{"id":"GO:0008286","count":2}]},{"hash":"746269830048764618","title":"EMT and epithelial polarity in development","description":"These proteins cluster around epithelial organization and dynamic cell behavior in development, including establishment of epithelial cell polarity, cell migration, and epithelial-to-mesenchymal transition (EMT) relevant to event like endocardial cushion formation and left-right patterning. While a few terms touch on RNA processing and transcription regulation, the dominant signals point to morphogenesis driven by EMT and cell polarity. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0097284","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0033028","count":4}]},{"hash":"329812751457949744","title":"Developmental morphogenesis and actin dynamics","description":"The set of terms centers on vertebrate development (skeletal system development, neural tube closure, multicellular organism development, male gonad development) and cytoskeletal regulation (actin filament depolymerization, barbed-end actin filament capping), with signaling context from TGF-beta and vitamin D responses. This points to a theme of developmental morphogenesis coupled with cytoskeletal remodeling, rather than a single fixed pathway. The obsolete ERAD term seems incidental rather than driving; overall the cluster fits developmental and cytoskeletal processes.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0030042","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0008584","count":3}]},{"hash":"1743064538989745424","title":"Neuronal synaptic plasticity and cerebellar development","description":"This cluster centers on activity-dependent synaptic changes (LTP/LTD), NMDA receptor clustering, and structural synapse remodeling, with a cerebellar morphogenesis component and adhesion/integrin signaling at synapses. These terms together point to neuronal plasticity and cerebellar development as the shared theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060292","count":5},{"id":"GO:0060291","count":4},{"id":"GO:0035176","count":4},{"id":"GO:0048172","count":3},{"id":"GO:0007229","count":3}]},{"hash":"525732269918844229","title":"Growth factor receptor signaling and neuroblast proliferation","description":"This cluster is dominated by GO terms for multiple growth-factor receptor pathways (insulin, IGF, FGF) and a neural development term (neuroblast proliferation), suggesting a theme of growth factor\u2013driven signaling linked to neural proliferation. The presence of a cAMP response term further supports signal transduction activity, while other terms (DNA transposition, histone modifications) appear less cohesive or outdated. Overall, the label captures the strongest, coherent theme among the top terms: growth factor receptor signaling coupled with neural cell proliferation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0007405","count":2}]},{"hash":"2087295232362808583","title":"Hypoxia-Responsive Kinase Signaling","description":"This cluster centers on cellular response to hypoxia and activation of signaling pathways, including autophosphorylation, serine/threonine kinase activity, and GTPase regulation, suggesting coordinated kinase-driven signaling under low oxygen. It also includes processes related to mRNA transport and transcriptional regulation, plus apoptosis and mitotic cell cycle control, indicating that hypoxic stress triggers transcriptional responses and cell fate decisions. The presence of protein homooligomerization and, in neuronal contexts, neurotransmitter secretion, further supports a role in complex signaling assemblies under stress. Overall, a hypoxia-driven signaling and stress-response module.","confidence":"Medium","size":20,"edges":12,"triangles":1,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":8},{"id":"GO:0031954","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0051028","count":7},{"id":"GO:0071902","count":7}]},{"hash":"2064734611505987818","title":"DNA replication, repair, and transcription","description":"The Top Terms show a clear emphasis on DNA metabolism, with DNA repair, DNA replication, and DNA-templated transcription appearing as the most represented terms. The presence of diverse, less cohesive terms (e.g., morphine response, ascospore formation, lung differentiation) suggests some annotation noise or multifunctionality, but the dominant DNA-related terms provide a coherent core. Edges are absent, indicating limited interaction structure, but the shared GO terms still support a DNA-centric functional theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0043278","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0006351","count":2},{"id":"GO:1903244","count":2}]},{"hash":"2039512364257776587","title":"Ribosome biogenesis and RNA processing","description":"Top terms show a coherent theme around ribosome assembly (LSU biogenesis, LSU-rRNA maturation), Pol I transcription termination, and translation, with additional links to RNA processing and ncRNA-mediated regulation of gene silencing and splicing. A few development terms may reflect contextual annotations but do not override the main signal. This cluster appears to group proteins involved in ribosome production and RNA metabolism, justifying the label.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0006363","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0031047","count":2}]},{"hash":"496234688658497531","title":"Ribosome Biogenesis and Translation","description":"This cluster centers on ribosome production and function: cytoplasmic translation, translation, ribosome biogenesis, ribosomal subunit export from nucleus, ribosomal small subunit biogenesis, and tRNA modification. These terms point to proteins involved in assembling ribosomes and carrying out protein synthesis. The other terms (cell division/cell cycle and response to antibiotic) may relate to growth regulation and stress responses, but the dominant theme is ribosome biogenesis and translation.","confidence":"High","size":20,"edges":35,"triangles":37,"max_degree":9,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0046677","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0007049","count":4}]},{"hash":"150663639530774800","title":"Neurovascular and cardiac development","description":"Top terms point to neural development (axonogenesis, Schwann cell development, synaptic plasticity) and cardiovascular/vascular formation (heart development, angiogenesis), along with proliferation (mitotic cell cycle, G2/M). This cohesive theme suggests a cluster focused on neurovascular and cardiac development during growth. ","confidence":"High","size":20,"edges":158,"triangles":683,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":15},{"id":"GO:0007507","count":14},{"id":"GO:0014044","count":14},{"id":"GO:0000278","count":14},{"id":"GO:0000086","count":14}]},{"hash":"721992117214855489","title":"MAPK signaling in neural and immune development","description":"The top GO terms cluster around MAPK pathway regulation (ERK1/ERK2 and JNK cascades) and broad developmental processes, including nervous system and hippocampus development, heart development, T cell receptor signaling, and interferon production. This suggests proteins functioning in MAPK-driven signaling coordinating neural and immune development, with some roles in other development programs.","confidence":"High","size":20,"edges":16,"triangles":4,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0050852","count":8},{"id":"GO:0046330","count":7},{"id":"GO:0021766","count":7}]},{"hash":"519846397792685555","title":"Embryonic development and RNA processing","description":"The cluster combines RNA processing and transcription regulation terms (ribosomal export, mRNA splicing, RNA Pol II regulation) with multiple developmental and morphogenesis terms (left-right patterning, EMT in heart/endocardial cushion formation, placental differentiation, cartilage morphogenesis), suggesting proteins involved in gene-expression control during development and tissue formation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":8},{"id":"GO:1903026","count":8},{"id":"GO:0032298","count":8},{"id":"GO:0000398","count":8},{"id":"GO:0003323","count":8}]},{"hash":"1607163144757368416","title":"TOR and GTPase Signaling in Development","description":"Top GO terms point to signaling and assembly processes central to growth and development, including TORC1 signaling, regulation of GTPase activity, phosphorylation/dephosphorylation, and protein oligomerization, with additional hints from skin and multicellular development. This suggests a cohesive theme of developmental growth signaling networks orchestrated by GTPases and TOR pathways, with regulation at the protein interaction and modification levels.","confidence":"Medium","size":20,"edges":6,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0051028","count":6},{"id":"GO:0070208","count":6},{"id":"GO:0031954","count":4},{"id":"GO:0038202","count":4}]},{"hash":"223668961540034061","title":"Post-transcriptional mRNA processing and translation regulation","description":"The cluster is enriched for post-transcriptional gene-expression processes: mRNA polyadenylation and pre-mRNA cleavage for polyadenylation, spliceosome-mediated splicing, regulation of translational initiation, and ncRNA-mediated gene silencing. While exosomal secretion and certain signaling/cytoskeletal terms appear, the strongest common theme is RNA processing and control of translation, justifying this label.","confidence":"Medium","size":20,"edges":43,"triangles":65,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0098789","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0070830","count":3},{"id":"GO:1990182","count":3}]},{"hash":"537568286442293290","title":"NF-kappaB Immune Signaling","description":"The top GO terms point to innate and adaptive immune signaling, especially NF-kappaB pathway activity (positive regulation of canonical NF-kB signaling, innate immune response, B cell receptor signaling). Although a few terms are unrelated or obsolete, the recurring theme centers on NF-kB\u2013mediated immune signaling and membrane-associated processes typical of signaling components in immune cells. This makes \"NF-kappaB Immune Signaling\" a concise and representative label.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0000060","count":4},{"id":"GO:0071806","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0043123","count":3}]},{"hash":"702640011937747737","title":"Visual perception and synaptic signaling","description":"These proteins show strong associations with sensory-related GO terms, especially visual perception and responses to UV-B, along with cues for neural signaling such as presynapse assembly and receptor trafficking (receptor recycling) and GTPase/Ran signaling. While mitotic cell cycle is also listed, the dominant pattern points to light sensing and neural communication functions. Confidence: Medium","confidence":"","size":20,"edges":111,"triangles":342,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":15},{"id":"GO:0007601","count":15},{"id":"GO:0001881","count":10},{"id":"GO:0035330","count":10},{"id":"GO:0031291","count":10}]},{"hash":"2146604167106113822","title":"Spliceosome regulation and chromatin remodeling","description":"This cluster centers on RNA processing and chromatin dynamics: regulatory ncRNA-mediated gene silencing and positive regulation of mRNA splicing via the spliceosome, along with mRNA splicing via the spliceosome. Chromatin remodeling and nucleosome-associated terms further point to coordinated control of gene expression at the chromatin level, with some developmental/cell cycle contexts suggested by embryonic morphogenesis and DNA replication terms.","confidence":"High","size":20,"edges":181,"triangles":1007,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":14},{"id":"GO:0048026","count":14},{"id":"GO:0000398","count":11},{"id":"GO:0048701","count":9},{"id":"GO:0006260","count":9}]},{"hash":"1017341876292767659","title":"Growth Factor Receptor Signaling and Neural Development","description":"Most terms describe activation and signaling through receptor tyrosine kinases (PDGFR, MET/HGF) and downstream PKC pathways, reflecting growth factor signaling. Several terms emphasize neural development and connectivity, including axon guidance, commissural neurons, and vestibulocochlear nerve structure, indicating the cluster centers on growth factor signaling in neural development. A minor outlier term on complement activation is likely noise and not central to the cluster\u2019s theme.","confidence":"High","size":20,"edges":14,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":6},{"id":"GO:0048008","count":5},{"id":"GO:0007171","count":5},{"id":"GO:0021649","count":4},{"id":"GO:0048012","count":4}]},{"hash":"1532876275571017415","title":"Proteostasis and Protein Quality Control","description":"These proteins are linked to aggresome assembly, ubiquitin-dependent ERAD, chaperone-assisted refolding, and inclusion body formation, all core aspects of cellular proteostasis and quality control. The presence of terms about SCF complex dynamics and Golgi retention under stress further supports a ubiquitin-proteasome\u2013mediated quality-control role. Although DNA replication and transcription terms appear among the top annotations, the strongest and recurring theme centers on protein folding, degradation, and stress-response pathways. ","confidence":"Medium","size":20,"edges":12,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070842","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0001824","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1134060486091480630","title":"Cardiac muscle development and morphogenesis","description":"This cluster is dominated by GO terms related to heart development and cardiac muscle morphogenesis (e.g., heart development, ventricular cardiac muscle tissue morphogenesis, outflow tract septum morphogenesis) and myoblast proliferation, with supporting transcriptional activity (DNA-templated transcription/RNA polymerase II). While a few terms touch on other embryonic structures, the prevailing theme is cardiac muscle development and morphogenesis. ","confidence":"High","size":20,"edges":82,"triangles":95,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":10},{"id":"GO:0055010","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0006366","count":8},{"id":"GO:0060038","count":7}]},{"hash":"459895906163218862","title":"Developmental and Temperature-Stress Responses","description":"The prominent GO terms cluster around developmental processes (multicellular organism development, skin development, ossification, cardiac hypertrophy in response to stress) and environmental/chemical stress responses (cellular response to temperature stimulus, diet-induced thermogenesis, cellular response to caffeine), suggesting a theme of development linked with environmental sensing and stress signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0043588","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0071502","count":6}]},{"hash":"1379378300337747409","title":"Embryonic development and organ morphogenesis","description":"This cluster's top GO terms converge on embryogenesis and morphogenesis of multiple tissues and organs (in utero development, trachea cartilage, embryonic eye morphogenesis, ventricular cardiac muscle morphogenesis, fat cell differentiation). It also includes transcriptional regulation terms that support coordinated gene expression during development, pointing to a shared theme of developmental processes and organ formation.","confidence":"High","size":20,"edges":119,"triangles":254,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0001701","count":8},{"id":"GO:0060534","count":7},{"id":"GO:2000020","count":7},{"id":"GO:0017055","count":7}]},{"hash":"1804149581622106199","title":"Developmental angiogenesis and cell migration","description":"The cluster is dominated by angiogenesis and vascular development terms (cell migration in sprouting angiogenesis, coronary vasculature development) along with several migratory processes (germ cell, neuron migration) and adhesion/receptor clustering terms, supported by BMP signaling and TNF-response terms. This suggests proteins coordinate developmental tissue remodeling, especially endothelial migration and vessel formation.","confidence":"High","size":20,"edges":11,"triangles":3,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002042","count":5},{"id":"GO:0060976","count":5},{"id":"GO:0007160","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0097477","count":4}]},{"hash":"563652896629308732","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0051092","count":8},{"id":"GO:0042787","count":8},{"id":"GO:0051607","count":8},{"id":"GO:0060546","count":7}]},{"hash":"1182001465776969868","title":"Embryonic development and morphogenesis","description":"The top GO terms center on proepicardium development, pericardium morphogenesis, notochord formation, and embryonic skeletal development, pointing to embryogenesis and tissue morphogenesis as the shared theme. Additional terms about spindle assembly, apoptosis, and neural axon fasciculation suggest concurrent roles in cell division and neural development during early development, supporting a cohesive developmental cluster.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003342","count":2},{"id":"GO:0060044","count":2},{"id":"GO:0003344","count":2},{"id":"GO:0097156","count":2},{"id":"GO:0048706","count":2}]},{"hash":"1783735949713955114","title":"Cell Surface Receptors and Junctions","description":"The GO terms cluster around membrane-related processes: receptor internalization, cell surface receptor signaling, and assembly of cell junctions (paranodal and septate), plus Notch signaling regulation and receptor-mediated virion attachment. Additional terms on LDL particle response and photoreceptor differentiation fit within membrane signaling and junctional contexts, suggesting a group of proteins involved in membrane receptor function, signaling, and junction architecture.","confidence":"High","size":20,"edges":73,"triangles":54,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":8},{"id":"GO:0030913","count":8},{"id":"GO:0071404","count":7},{"id":"GO:0045747","count":6},{"id":"GO:0090528","count":6}]},{"hash":"561068607978518332","title":"Vertebrate embryonic morphogenesis","description":"The top GO terms cluster around mesoderm development, cartilage and other tissue morphogenesis (hair follicle, palate), and endocrine system development, plus EMT in endocardial cushion formation, indicating a shared theme of vertebrate embryonic tissue formation and organ morphogenesis. Some RNA processing/export and transcriptional regulation terms are present but do not override the developmental signal.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":10},{"id":"GO:0000055","count":10},{"id":"GO:0060536","count":10},{"id":"GO:0031069","count":10},{"id":"GO:0060021","count":10}]},{"hash":"314369800051147209","title":"Lymphocyte receptor signaling and actin remodeling","description":"This cluster centers on immune receptor signaling (B cell and T cell receptors) and concurrent cytoskeletal dynamics, with notable involvement of Rho/small GTPase pathways, actin branching, and podosome assembly. The presence of EGFR/ephrin receptor signaling and related pathways suggests broader receptor-driven signaling that interfaces with cytoskeletal remodeling, which fits well with a theme of immune signaling coupled to actin reorganization.","confidence":"High","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0050853","count":6},{"id":"GO:0007264","count":5},{"id":"GO:0050852","count":5}]},{"hash":"855455384985778891","title":"Synaptic Plasticity and Dendritic Spine Morphogenesis","description":"The most represented GO terms center on neuronal synapse regulation and plasticity (positive regulation of excitatory postsynaptic potential, long-term synaptic depression, and positive regulation of synapse structural plasticity) as well as dendritic spine development (dendritic spine morphogenesis). Rho and JNK signaling terms suggest cytoskeletal remodeling that underlies these processes. A couple of terms like tight junction assembly and social behavior are more peripheral to neurons but do not obscure the core neuronal synapse theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0035023","count":11},{"id":"GO:2000463","count":9},{"id":"GO:0051660","count":9},{"id":"GO:0046328","count":9},{"id":"GO:0051835","count":9}]},{"hash":"1455963869187749171","title":"Developmental transcription and tissue morphogenesis","description":"The cluster\u2019s top terms cluster around DNA-templated transcription and its regulation, plus multiple developmental processes such as antennal and compound eye photoreceptor development, as well as vascular morphogenesis (sprouting angiogenesis, endothelial migration, blood vessel morphogenesis, aorta development) and spinal cord development. This suggests proteins involved in developmental gene regulation and broad morphogenetic programs across tissues, rather than a single pathway. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0045316","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0007469","count":2},{"id":"GO:0002040","count":1}]},{"hash":"2189679406416300111","title":"Pain perception and synaptic signaling","description":"The top GO terms cluster around sensory perception of pain and regulation of pain signaling, including prepulse inhibition, response to amphetamine, and negative regulation of glutamatergic transmission, which together point to neural signaling pathways underlying pain processing. Additional terms related to ion signaling and temperature/metabolic responses are present but do not outweigh the central theme of pain perception and synaptic communication.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016998","count":8},{"id":"GO:0060134","count":8},{"id":"GO:0001975","count":8},{"id":"GO:0051930","count":8},{"id":"GO:0051967","count":8}]},{"hash":"149322605400801454","title":"Embryogenesis and patterning","description":"This cluster centers on embryonic development and tissue differentiation, with prominent terms for palatal (roof of mouth) development, mesoderm formation, left-right patterning, placenta-related differentiation, and endocardial cushion EMT. A minority of terms reference transcriptional regulation, but the overall theme is developmental patterning and morphogenesis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0007498","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0060972","count":4}]},{"hash":"1221901776921372812","title":"Xenophagy and Interferon Response","description":"The top GO terms cluster around autophagy-related processes (xenophagy; autophagosome maturation) and immune signaling (response to type II interferon), with supporting vesicle trafficking (endosome-to-lysosome transport). While there are also DNA repair and mitotic terms present, the strongest, cohesive theme is autophagy together with immune response, suggesting a cellular defense/degradation role in this cluster. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":4},{"id":"GO:0000724","count":3},{"id":"GO:0007064","count":3},{"id":"GO:0008333","count":3},{"id":"GO:0034341","count":3}]},{"hash":"2068128856045366467","title":"Embryonic organ morphogenesis","description":"The GO terms point to diverse developmental and morphogenetic processes across multiple organs (gonads, oral/oral roof, forelimbs, mammary/gland morphogenesis, sebaceous glands) and include vascular development and organ orientation, suggesting a broad theme of embryonic organ formation rather than a single pathway. Confidence is Moderate due to the heterogeneous set of terms.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":2},{"id":"GO:0060021","count":2},{"id":"GO:1902455","count":2},{"id":"GO:0030579","count":1},{"id":"GO:0060748","count":1}]},{"hash":"870007824171622856","title":"Cell differentiation and cytoskeletal remodeling","description":"The top GO terms point to differentiation across cell types (follicular dendritic cells, fat cells, epithelial maturation) and to actin filament bundle assembly, indicating cytoskeletal changes linked to tissue-specific differentiation. Additional terms about epithelial polarity and calcium transport fit within this broader theme of differentiation with cytoskeletal and signaling involvement. Some terms are less coherent (e.g., obsolete telomere regulation), but the overall pattern supports a differentiation-and-cytoskeleton theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":3},{"id":"GO:0002268","count":2},{"id":"GO:0071651","count":2},{"id":"GO:0090162","count":2},{"id":"GO:1904743","count":2}]},{"hash":"2198086154110540763","title":"Circadian Transcriptional Regulation","description":"This cluster centers on transcriptional control with strong signals for DNA-templated transcription, transcription by RNA polymerase II, and regulation of transcription, plus explicit circadian rhythm\u2013related terms (positive regulation of circadian rhythm and circadian regulation of gene expression). While there are some development-related terms, the dominant theme is circadian-associated transcriptional regulation, suggesting proteins that coordinate gene expression in a circadian manner.","confidence":"High","size":19,"edges":96,"triangles":213,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0048048","count":8},{"id":"GO:0006366","count":8},{"id":"GO:0006355","count":7},{"id":"GO:0061030","count":7}]},{"hash":"142657351839468817","title":"DNA repair and transcriptional regulation","description":"This cluster centers on base-excision repair and regulation of transcription and mRNA stability, with hints of cell-cycle control (G1/S). Additional items like phosphatidylinositol signaling and hormone response suggest broader regulatory context but are less central. Overall, core themes are DNA repair and gene expression control.","confidence":"Medium","size":19,"edges":41,"triangles":40,"max_degree":11,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0080111","count":5},{"id":"GO:0071375","count":5},{"id":"GO:2000466","count":5},{"id":"GO:1903507","count":5},{"id":"GO:0046856","count":5}]},{"hash":"550601419330757679","title":"Mammary gland development, lactation, and apoptosis","description":"The cluster\u2019s top GO terms are heavily weighted toward mammary gland biology, including mammary gland development (GO:0030879), lactose biosynthesis (GO:0005989), lactation, and apoptotic processes relevant to mammary gland involution (GO:0060058, GO:0006915). Although there are a few outlier terms related to neural or general reproductive processes, the dominant theme ties to mammary gland formation, milk production, and programmed cell death during involution, making this label representative of the cluster\u2019s function.","confidence":"Medium","size":19,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060058","count":4},{"id":"GO:0006486","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0007341","count":3}]},{"hash":"245806930799490965","title":"Embryonic development and thymocyte maturation","description":"The top GO terms span broad developmental processes (epithelial polarity, spindle assembly, kidney development, neural tube closure) together with thymus-associated immune maturation (thymocyte migration, negative thymic T cell selection, peripheral T cell tolerance). This points to a theme of developmental biology with a notable emphasis on thymic T cell education, rather than a single, narrow function. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":2},{"id":"GO:0086091","count":2},{"id":"GO:0051225","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0001921","count":2}]},{"hash":"472916277902910584","title":"Embryonic development and morphogenesis","description":"This cluster is dominated by GO terms related to embryonic development and tissue morphogenesis across multiple systems (mesoderm; cartilage; palate/roof of mouth; placenta/trophoblast; left-right patterning; EMT in heart development; endocrine system development). The recurring theme is developmental programs and organ formation, with one outlier term (mRNA splicing) likely reflecting general gene expression rather than a core function of the cluster. Overall, the terms collectively point to embryogenesis and morphogenetic processes.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":9},{"id":"GO:0060972","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0060806","count":8},{"id":"GO:0060707","count":8}]},{"hash":"103397792803101377","title":"Neural development and synaptic plasticity with cytoskeletal remodeling","description":"The top GO terms show brain development and long-term synaptic potentiation, plus actin cortical patch assembly, pointing to cytoskeletal remodeling at synapses. Additional terms like plasma membrane repair and TGF-beta response support a theme of membrane/cytoskeletal maintenance and signaling relevant to neural contexts. While hypoxia and innate immune responses appear, the strongest, most recurrent signals are neural development and synaptic/cytoskeletal dynamics.","confidence":"Medium","size":19,"edges":19,"triangles":0,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0060291","count":4},{"id":"GO:0000147","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0001778","count":4}]},{"hash":"1685254682017337455","title":"Rho-driven cytoskeletal remodeling and adhesion signaling","description":"The top GO terms cluster around Rho-regulated cytoskeletal dynamics (Rho signaling, filopodium assembly), cell spreading, and related signaling pathways, with supporting terms in spindle assembly and development (retina formation) as well as neural plasticity (synaptic potentiation). This points to a cohesive theme of actin remodeling and adhesion-driven signaling across cellular contexts. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0090307","count":4},{"id":"GO:1900026","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0060048","count":3}]},{"hash":"880631170397534864","title":"TORC1-regulated translation and RNA maturation","description":"The top GO terms cluster around TORC1 signaling, translation initiation and reinitiation, ribosomal RNA maturation, and RNA modification (guanine-N7 methylation), which together point to a module governing growth via TORC1-controlled translation and RNA processing. Although there are broader development terms present, the strongest, cohesive signal is translation/RNA maturation under nutrient-sensing control, suggesting a functional grouping in growth regulation at the level of protein synthesis and RNA maturation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":11},{"id":"GO:0038202","count":10},{"id":"GO:0036265","count":10},{"id":"GO:0001501","count":10},{"id":"GO:0001403","count":10}]},{"hash":"1923557844883256732","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning transcription, RNA processing, ubiquitination, cell cycle, development, actin regulation, signaling, and defense responses, with an invasive growth term tied to glucose limitation. There is no single shared function or pathway linking all terms, and there are no reported edges, suggesting the proteins do not form a cohesive module. The cluster thus seems functionally diverse and not easily interpretable as one biological theme.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0000209","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1596390951714986606","title":"MAPK signaling and cytoskeletal regulation","description":"The cluster is dominated by GO terms pointing to MAPK pathway activity (positive regulation of JNK and ERK cascades) and regulation of protein phosphorylation, paired with actin cytoskeleton reorganization and immune-related signaling (T cell receptor signaling, mast cell degranulation). This suggests a cohesive theme of MAPK-driven signal transduction coordinating cytoskeletal dynamics across immune and neuronal contexts, with some cell-cycle connection as a broader regulatory layer. ","confidence":"High","size":19,"edges":153,"triangles":731,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":19},{"id":"GO:0031532","count":19},{"id":"GO:0033138","count":19},{"id":"GO:0070374","count":19},{"id":"GO:0000278","count":19}]},{"hash":"1437173127470562114","title":"Drosophila Developmental Transcription Control","description":"This cluster is dominated by terms related to development (antennal, spermatid, and compound eye photoreceptor development) and transcription regulation (DNA-templated transcription and its regulation), suggesting a cohesive theme of developmental transcription control in a Drosophila context. The other terms (autophagy and innate immune response) may reflect ancillary stress-related processes that can intersect with development, but are less central to the cluster\u2019s core signal.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006914","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0072643","count":2},{"id":"GO:0007286","count":2}]},{"hash":"1332178679203273215","title":"Embryogenesis and organ morphogenesis","description":"The cluster is enriched for developmental processes across multiple organs and lineages, including cartilage morphogenesis, endocrine system development, EMT in endocardial cushion formation, left-right patterning, mesoderm development, placenta-related differentiation (trophoblast/giga), and pancreatic cell development. This pattern suggests a cohesive theme of embryonic tissue formation, lineage specification, and organogenesis, with a couple of general cellular processes (mRNA splicing and ribosomal export) that are common background functions. High","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0060806","count":8},{"id":"GO:0060972","count":8}]},{"hash":"446314002282023323","title":"Developmental Growth and Protein Homeostasis","description":"The prominent developmental terms (forebrain, heart, and male gonad development) plus multicellular growth point to a developmental program. The concurrent enrichment of ubiquitination and ERAD-related terms (polyubiquitination, ubiquitin-dependent ERAD) and nuclear export regulation suggests coordination with protein quality control and proteostasis, which commonly accompany development and cell cycle processes like DNA replication. This combination supports a label that captures both growth/development and proteostasis functions.","confidence":"High","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0046825","count":2}]},{"hash":"1731953940109092883","title":"Organogenesis and Neural Signaling","description":"The GO terms cluster around developmental processes across organs (multicellular organism development, cerebellar cortex development, heart development) and tissue formation (angiogenesis), alongside signaling pathways (integrin-mediated signaling, peptidyl-threonine phosphorylation) and neural activity (long-term synaptic potentiation, excitatory postsynaptic potential). Metabolism and cell cycle terms are also present, suggesting growth-related processes common to developing tissues. Overall, this points to proteins involved in organogenesis with neural signaling and plasticity, making Organogenesis and Neural Signaling a fitting label.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":9},{"id":"GO:0000278","count":8},{"id":"GO:0021695","count":7},{"id":"GO:0006006","count":7},{"id":"GO:0007229","count":7}]},{"hash":"2169832113798605341","title":"Membrane transporters and secretion proteins","description":"The GO terms are dominated by membrane transport activities (branched-chain amino acid, methionine, taurine, monoatomic anion, and lipoprotein transport) and protein secretion via the Type I secretion system, pointing to a cluster enriched in transport and secretion functions. Some terms (cytochrome complex assembly, ribosomal export) are peripheral, but the primary signal supports a transport/secretion theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0017004","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0030253","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0015803","count":3}]},{"hash":"778211781229314403","title":"Neuroimmune signaling and brain development","description":"This cluster is enriched for innate immune terms (innate immune response, LPS signaling, defense against Gram-positive bacteria, interferon-beta production) alongside neural-development and function terms (corpus callosum development, myelination, synapse assembly, dopamine response, and pain behavior). The co-occurrence suggests proteins that participate in CNS immune signaling that intersects with neural development and synaptic maturation, rather than a purely immune or purely neural set. Hence, a concise label that captures both neuroimmune activity and brain development is appropriate.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045087","count":14},{"id":"GO:0022038","count":13},{"id":"GO:0050830","count":13},{"id":"GO:0042552","count":13},{"id":"GO:0061368","count":13}]},{"hash":"2200903099579292393","title":"Cardiac morphogenesis and calcium signaling","description":"The top GO terms point to heart development and muscle physiology, including left ventricular and outflow tract morphogenesis and Purkinje-to-ventricular signaling, along with calcium handling from the sarcoplasmic reticulum. Although some terms show broader developmental processes like ossification and skin development, the strongest shared theme across the cluster is cardiac morphogenesis and calcium signaling, suggesting these proteins contribute to heart development and calcium-mediated muscle function. Confidence: Medium","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043931","count":6},{"id":"GO:0071313","count":6},{"id":"GO:0007026","count":6},{"id":"GO:0003151","count":6},{"id":"GO:0014808","count":6}]},{"hash":"2035821172392829075","title":"Transcriptional Regulation and Gene Expression","description":"The dominant signals are DNA-templated transcription and RNA polymerase II\u2013driven transcription elongation, along with general gene expression, suggesting the proteins in this cluster primarily function in transcriptional regulation; the angiogenesis and heart development terms appear as secondary associations.","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:0032968","count":2},{"id":"GO:0010467","count":2},{"id":"GO:0006368","count":2},{"id":"GO:0036092","count":2}]},{"hash":"468874734567334299","title":"Chromatin Organization and Telomere Maintenance","description":"This cluster is dominated by GO terms related to chromatin structure and telomere biology\u2014nucleosome assembly, subtelomeric heterochromatin formation, telomere end protection, and histone modification regulation\u2014plus DNA structural elements like G-quadruplex formation. These collectively point to a shared function in genome integrity and chromatin architecture, with other terms appearing as peripheral noise. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":2},{"id":"GO:0031848","count":2},{"id":"GO:0035390","count":2},{"id":"GO:0035066","count":2},{"id":"GO:0071919","count":2}]},{"hash":"1022263284063736356","title":"Regulatory signaling and gene expression cluster","description":"This cluster centers on regulatory processes: regulation of Rho signaling, receptor internalization, and long-term neuronal plasticity regulation, alongside transcriptional control (Pol II, ncRNA-mediated silencing). The presence of inflammatory and angiogenesis-related terms may reflect broader regulatory roles connected to signaling pathways. Overall, the common theme is regulation of signaling and gene expression.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048169","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0045944","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0016525","count":2}]},{"hash":"1587131729126102532","title":"Unknown","description":"The top GO terms cluster mainly around neural development and function (sound perception, synaptic plasticity, myelination, substantia nigra development) but also include several non-neural processes (immune cell differentiation, endothelial barrier, eisosome assembly), making it hard to assign a single cohesive function to the cluster. None","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0048169","count":2},{"id":"GO:0035208","count":2},{"id":"GO:0061028","count":2},{"id":"GO:0070941","count":2}]},{"hash":"1443178760069603585","title":"DNA Replication and Repair","description":"Top GO terms cluster around DNA replication, base-excision repair, recombination, and nucleoside metabolism, indicating this set predominantly functions in DNA maintenance. The development-related terms appear as ancillary or pleiotropic associations rather than a cohesive developmental module. Confidence: High","confidence":"","size":18,"edges":6,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0060348","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0006284","count":2},{"id":"GO:0035753","count":2}]},{"hash":"2239232009232688067","title":"Developmental biology with vesicle trafficking","description":"Top GO terms center on multicellular development (general development, skin, brain, bone ossification) and include membrane trafficking and quality-control processes (COPII vesicle budding, Golgi-ER transport, plasma membrane repair, mitotic spindle assembly). This combination suggests a cluster of proteins involved in developmental programs that depend on vesicle trafficking and membrane dynamics, rather than a single isolated pathway.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0043931","count":3}]},{"hash":"1010629662816569786","title":"Ion Transport and Membrane Excitability","description":"Top GO terms point to regulation of membrane potential (hyperpolarization and depolarization) and ion transport (potassium and sodium across the plasma membrane), which are core to neuronal and cardiac cell excitability. Additional terms touch on nervous system development (cerebellum maturation) and multicellular development, suggesting the cluster centers on excitability-related processes with developmental context. Some terms (jasmonic acid regulation) appear unrelated and may reflect annotation noise or broad multifunctionality.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060081","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0097623","count":10},{"id":"GO:0098719","count":10},{"id":"GO:0007275","count":10}]},{"hash":"781491997436028100","title":"Translation machinery and tRNA charging","description":"The GO terms show a clear emphasis on translation (GO:0006412), methionyl-tRNA aminoacylation (GO:0006431), and regulation of translational fidelity (GO:0006450), with mitochondrial translational initiation (GO:0070124) further supporting a translation-focused cluster. While metabolism-related terms like glycogen, thiamine, and UDP-GlcNAc biosynthesis appear, they likely reflect broader cellular metabolic context rather than a single cohesive metabolic pathway. Overall, the dominant signal is translation-related processes and their regulation.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0009409","count":3},{"id":"GO:0006431","count":3}]},{"hash":"1934473183312422987","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0042254","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0006407","count":2},{"id":"GO:0000028","count":2}]},{"hash":"1844262917568745176","title":"Cell Cycle and Chromatin Regulation","description":"Most top GO terms cluster around mitotic cell cycle, cell division, APC-dependent catabolic processes, and DNA-templated transcription, plus histone methylation regulation. This suggests a core theme of cell-cycle control and chromatin remodeling. Some terms about cadmium response and skeletal development appear peripheral or context-specific, but do not override the main theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0070979","count":3},{"id":"GO:0006351","count":3},{"id":"GO:2001162","count":3}]},{"hash":"1883763589821884542","title":"Cytoskeletal Remodeling in Embryonic Development","description":"The cluster's GO terms cluster around microtubule dynamics (positive regulation of microtubule polymerization; microtubule bundle formation) and developmental processes (mesoderm development; left-right pattern formation; EMT in endocardial cushion formation), pointing to coordinated cytoskeletal remodeling during embryogenesis. Some terms related to transcriptional regulation, vitamin D metabolism, and xenobiotic response are present but appear peripheral to the primary signal.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903026","count":2},{"id":"GO:0031116","count":2},{"id":"GO:0001578","count":2},{"id":"GO:0000185","count":2},{"id":"GO:0007498","count":1}]},{"hash":"134969279865231629","title":"Mitotic Regulation and Proteostasis","description":"The cluster centers on cell division and mitosis, with several terms for mitotic spindle assembly, chromosome segregation, and ubiquitin-dependent proteolysis, indicating roles in mitotic control and protein turnover. Additional GO terms for TORC1 signaling and vesicle trafficking suggest growth-linked regulation of the proteome during division. Some terms are less cohesive or obsolete, but the dominant theme is mitotic control coupled to proteostasis. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0051441","count":4},{"id":"GO:1905705","count":4},{"id":"GO:1902426","count":4},{"id":"GO:0090307","count":4}]},{"hash":"310173271936422075","title":"Developmental morphogenesis and calcium signaling","description":"The cluster centers on developmental processes such as limb morphogenesis, palate formation, and heart contraction, indicating a morphogenesis-focused role. It also features calcium signaling and ER-related terms (store-operated calcium channel activity, release of sequestered Ca2+ from the SR, ER membrane organization), which are crucial for signaling during embryogenesis and muscle development. Innate immune and apoptotic terms are present but appear less central to the core theme. Thus, a label emphasizing developmental morphogenesis with calcium signaling best reflects the shared functions.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0035108","count":1},{"id":"GO:0010880","count":1},{"id":"GO:0032237","count":1}]},{"hash":"461053776691639099","title":"Unknown","description":"The top GO terms cover diverse areas (translation, DNA biosynthesis, retrotransposition, immune/development processes, and stress responses) with no single dominant function. Because the terms are scattered and include obsolete entries, there is no clear, cohesive theme tying the cluster together. Therefore, a concise, representative label cannot be confidently assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0010332","count":2},{"id":"GO:0045471","count":2},{"id":"GO:0045071","count":2}]},{"hash":"267978598150147256","title":"DNA Damage Response and Transcription Regulation","description":"This cluster is dominated by GO terms related to DNA-templated transcription, UV-C response, nucleotide-excision repair, and translesion synthesis (both error-free and error-prone), as well as DNA replication and transcription regulation, indicating proteins involved in DNA damage signaling and transcriptional control. The presence of desumoylation regulation further supports a role in post-translational regulation of DNA damage response pathways; the viral process term may reflect annotation noise or incidental associations. Overall, the core theme appears to be DNA damage response coupled with transcription regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0016032","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0070987","count":2},{"id":"GO:0006297","count":2}]},{"hash":"222641618391232965","title":"Transcriptional Regulation and Tissue Differentiation","description":"The top GO term is transcription by RNA polymerase II, which suggests a core role in gene expression control. The other terms point to development and differentiation across multiple tissues (endocrine pancreas, macrophages, erythrocytes, salivary gland) along with some metabolic processes (lipid and triglyceride homeostasis) and wound healing. Together, these indicate a cluster of proteins involved in regulating transcription that drives diverse tissue differentiation programs, with some metabolic regulation connections. ","confidence":"Medium","size":18,"edges":144,"triangles":692,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0031018","count":7},{"id":"GO:1990440","count":6},{"id":"GO:0030225","count":6},{"id":"GO:0055089","count":6}]},{"hash":"2086826430145418161","title":"Otic placode and inner ear morphogenesis","description":"The cluster is dominated by GO terms linked to inner ear development and auditory function (otic placode formation, inner ear morphogenesis, sensory perception of sound), with a minority of terms touching on kidney-related development. This suggests the proteins collectively participate in ear/cranial sensory organ development and hearing, even though some peripheral kidney-related terms are present. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0001300","count":2},{"id":"GO:0001822","count":1},{"id":"GO:0008584","count":1},{"id":"GO:0003091","count":1}]},{"hash":"235910419343946071","title":"Embryonic morphogenesis and heart development","description":"This cluster is driven by GO terms for embryonic tissue morphogenesis and organ formation, notably cartilage morphogenesis, left-right patterning, and EMT in endocardial cushion formation, which together highlight heart development and broader embryogenesis. Some terms refer to endocrine/placental development, further supporting a developmental theme; a few general cellular-process terms (ribosomal export, RNA Pol II regulation) appear due to overall proliferative context rather than specific specialization.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":16},{"id":"GO:0035270","count":16},{"id":"GO:0003198","count":16},{"id":"GO:0060806","count":16},{"id":"GO:0060972","count":16}]},{"hash":"1886549851320506012","title":"Hedgehog and Robo Developmental Signaling","description":"The top terms include smoothened signaling (Hedgehog) and Roundabout signaling (ROBO), along with nervous system development, angiogenesis, kidney development, synapse organization, and myoblast differentiation. This points to a cluster built around core developmental signaling pathways that coordinate tissue patterning and differentiation across multiple lineages, with Hedgehog and ROBO pathways as central themes.","confidence":"High","size":18,"edges":54,"triangles":70,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007224","count":11},{"id":"GO:0007156","count":10},{"id":"GO:0001822","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0007399","count":9}]},{"hash":"2167397162837740353","title":"DNA replication and genome maintenance","description":"This cluster centers on DNA replication and genome maintenance, highlighted by terms on replication fork dynamics, DNA unwinding, RNA primer removal during mitotic replication, and both mitochondrial DNA repair and mitochondrial genome maintenance, plus regulation of telomere maintenance. The convergence of replication, repair, and telomere-related processes suggests a cohesive module for safeguarding genome integrity across mitochondria and the nucleus.","confidence":"High","size":18,"edges":74,"triangles":144,"max_degree":17,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0000002","count":12},{"id":"GO:0032508","count":9},{"id":"GO:0071932","count":8},{"id":"GO:0044806","count":8},{"id":"GO:1902983","count":8}]},{"hash":"2017436864562713939","title":"GPCR-AC Signaling and Thermoregulation","description":"This cluster\u2019s top GO terms cluster around adenylate cyclase activation and GPCR signaling, pointing to cyclic AMP\u2013mediated control of metabolism and vascular responses. Additional terms for electron transport, diet-induced thermogenesis, and temperature response support a metabolic and thermoregulatory theme, with blood pressure and saliva secretion reflecting autonomic regulation. A few peripheral terms exist (defense against bacterium, cell wall macromolecule catabolic process), but they don\u2019t override the main signal.","confidence":"High","size":18,"edges":9,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007190","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0019233","count":9}]},{"hash":"453496427234021248","title":"Secretory trafficking and ubiquitin regulation in immunity","description":"The terms cluster around vesicle transport (ER to Golgi and synaptic trafficking), ubiquitination/ERAD, and immune responses (innate immunity and antiviral defense), suggesting a theme of secretory/quality-control pathways linked to immune regulation. A combined label captures this intersection, though the terms are somewhat diverse.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0048490","count":6},{"id":"GO:0043588","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0045087","count":5}]},{"hash":"305883403997997635","title":"Brain development and neuronal apoptosis regulation","description":"The top GO terms point to brain development (hippocampus and substantia nigra development), learning, and neuronal apoptotic regulation, suggesting a cluster tied to neural development and neuron survival/differentiation. The presence of immune/stress response terms may reflect neuronal stress responses but does not override the dominant brain-focused theme.","confidence":"Medium","size":18,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043525","count":4},{"id":"GO:0021766","count":4},{"id":"GO:0032496","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0008283","count":3}]},{"hash":"954502030772141598","title":"Developmental signaling and morphogenesis","description":"The GO terms are dominated by developmental processes (angiogenesis, embryonic neurocranium morphogenesis) and signaling/regulation (Rho signaling, prostaglandin response, cell polarity, and cell shape), suggesting a theme of signaling guiding tissue morphogenesis. Some terms (N-acetylglucosamine metabolism, macroautophagy, chromatin formation) are less clearly connected but do not overwhelm the developmental pattern. Overall, the cluster appears to reflect developmental signaling and morphogenesis.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006044","count":4},{"id":"GO:0006348","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0048702","count":3},{"id":"GO:2000769","count":2}]},{"hash":"977637208805797371","title":"NF-kappaB-driven inflammatory signaling","description":"These proteins are enriched in regulatory events of NF-kappaB signaling (canonical and non-canonical), JNK cascade, and LPS-triggered inflammatory pathways, with downstream effects on IL-6 production, IL-17 regulation, nitric oxide synthesis, and neutrophil extravasation. This points to a coordinated inflammatory signaling cluster centered on NF-kappaB.","confidence":"High","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0046330","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0045429","count":4},{"id":"GO:0031663","count":4}]},{"hash":"1869314126814462436","title":"Negative regulation of inflammatory signaling","description":"The proteins in this cluster show enrichment for terms that suppress immune/inflammatory pathways, including negative regulation of canonical NF-kappaB signaling, NOD1 signaling, IL-8 production, and chronic inflammatory responses. A deubiquitination term (K6-linked) also fits with modulation of signaling, while translation/rRNA processing terms may be incidental annotations. Overall, the shared theme appears to be dampening or fine-tuning inflammatory signaling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0044313","count":2}]},{"hash":"2195444098596172694","title":"Embryonic Morphogenesis and Organ Development","description":"The GO terms are dominated by embryonic development and tissue morphogenesis (cartilage morphogenesis, left-right patterning, EMT in heart cushion formation, endocrine system development, placental/trophoblast differentiation), suggesting a cohesive theme of developmental organogenesis. A couple of general cellular terms appear but do not override the developmental signal. Therefore the label reflects the core function of the cluster. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":14},{"id":"GO:0035270","count":14},{"id":"GO:0003198","count":14},{"id":"GO:0060806","count":14},{"id":"GO:0060972","count":14}]},{"hash":"2028674771504280295","title":"Embryonic development and morphogenesis","description":"The cluster shows strong representation of embryogenesis-related processes: cartilage morphogenesis, endocrine system development, epithelial-to-mesenchymal transition in heart cushion formation, left-right pattern formation, pancreatic cell development, and trophoblast differentiation, pointing to roles in organ development and body plan establishment. Some terms (ribosomal export, transcription regulation) are general cellular processes, but the dominant signal supports a theme of embryonic morphogenesis and organogenesis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060536","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0060806","count":8},{"id":"GO:0060972","count":8}]},{"hash":"277087828062980897","title":"Embryogenesis and Organogenesis","description":"The cluster\u2019s top GO terms cluster around developmental processes across multiple tissues, including cartilage morphogenesis, endocrine system development, heart-related EMT in endocardial cushion formation, left-right patterning, pancreatic cell development, and placental/trophoblast differentiation. Together these indicate a focus on embryonic development and organ formation rather than housekeeping roles, despite one outlier term. This makes \"Embryogenesis and Organogenesis\" a coherent, concise label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":9},{"id":"GO:0060536","count":9},{"id":"GO:1903026","count":9},{"id":"GO:0035270","count":9},{"id":"GO:0003198","count":9}]},{"hash":"76527229986029297","title":"Embryogenesis and organ morphogenesis","description":"The top GO terms indicate broad developmental and morphogenetic processes, including cartilage morphogenesis, endocrine system development, left-right pattern formation, EMT in heart cushion formation, placental and pancreatic development, and trophoblast differentiation. These collectively point to embryonic development and tissue/organ morphogenesis as the core theme of this cluster, with a few ancillary processes (e.g., ribosomal export) that are less central to its main function. Confidence: High.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":9},{"id":"GO:0035270","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0060806","count":9},{"id":"GO:0060972","count":9}]},{"hash":"2185029821338631535","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around nervous system development (spinal cord development), synaptic vesicle priming, and microtubule-based movement, suggesting roles in neuronal development and vesicle-mediated signaling. Some terms (Ras/Rho signaling regulation, cytoskeletal dynamics) support this, though a few terms relate to other processes, indicating some cross-talk or broader signaling roles. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":2},{"id":"GO:1901998","count":2},{"id":"GO:0016082","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0007340","count":2}]},{"hash":"1183709142312383805","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0051607","count":10},{"id":"GO:0042787","count":10},{"id":"GO:0045623","count":7},{"id":"GO:0061158","count":7}]},{"hash":"814185310633193601","title":"Transmembrane Ion and Small-Molecule Transporters","description":"Many top GO terms point to transport across membranes for ions (sodium, potassium, nitrite, nitrate, phosphate) and small molecules (arabinose, 4-hydroxyphenylacetate), plus xenobiotic transport and neurotransmitter loading into synaptic vesicles. This suggests the cluster is composed of membrane transporter proteins focused on uptake/secretion and neurotransmitter handling; oligodendrocyte differentiation is a less central note but may reflect neural context. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0015751","count":3},{"id":"GO:0071805","count":3}]},{"hash":"1915253028877012929","title":"Unknown","description":"The GO terms span diverse processes (GPCR signaling, mRNA stability, SA node activity, dendritic cell differentiation, chemokine production, epithelial polarity, telomere regulation, and prostate epithelial maturation) and there are no reported interactions among proteins (Edges 0), giving no cohesive shared function for the cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":9},{"id":"GO:0043488","count":7},{"id":"GO:0098907","count":7},{"id":"GO:0002268","count":6},{"id":"GO:0071651","count":6}]},{"hash":"1586483807868546596","title":"Signaling and Cytoskeletal Dynamics","description":"The top GO terms converge on signal transduction and cytoskeletal remodeling (Rac/Rho signaling, lamellipodium assembly) and neuronal/vasculature communication (synaptic transmission, endothelin), with some developmental patterning references. This suggests a theme of signaling networks that regulate cytoskeletal dynamics and cell communication across development and neuronal contexts.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061847","count":2},{"id":"GO:0045953","count":2},{"id":"GO:0035020","count":2},{"id":"GO:0060017","count":2},{"id":"GO:1990859","count":2}]},{"hash":"994826604204385688","title":"Embryonic morphogenesis and tissue patterning","description":"The top GO terms cluster around broad developmental processes: hair follicle morphogenesis, mesoderm and palate/craniofacial development, cartilage morphogenesis, left-right pattern formation, and EMT events in heart development. Together they suggest a cohesive group of proteins involved in embryonic tissue morphogenesis and patterning rather than a single specific pathway, hence a label centered on developmental morphogenesis and patterning is most representative.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031069","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0007498","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0010957","count":2}]},{"hash":"464172655276062684","title":"Skeletal development and osteoblast fate commitment","description":"Based on GO term frequencies, the cluster is enriched for bone development and osteoblast fate commitment (3 each). Other terms (zygotic axis specification, innate immune response, myelination, tight junction assembly, transcytosis, lysosome localization, etc.) suggest broader developmental and cellular trafficking roles, but the strongest coherent theme centers on skeletal development and osteoblast lineage specification.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":3},{"id":"GO:0002051","count":3},{"id":"GO:0007352","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042552","count":2}]},{"hash":"569682074530901378","title":"Embryonic development and morphogenesis","description":"The top GO terms point to pattern formation and tissue/organ morphogenesis during embryogenesis (left/right patterning, cartilage morphogenesis, endocrine system development, endocardial EMT, trophoblast and pancreatic cell development), indicating a cohesive role in developmental differentiation and organ formation. Some general terms like mRNA splicing and DNA replication are present, but the dominant signal is embryonic development and morphogenesis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":4},{"id":"GO:0035270","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060536","count":3}]},{"hash":"1061525124152304674","title":"GTPase-regulated vesicle transport and polarity","description":"The top terms cluster around small GTPase signaling, ER-to-Golgi vesicle transport, and vesicle budding, along with membrane organization and polarity-related processes such as epithelial polarity and cytoskeletal structures. This points to a cohesive theme of GTPase-driven vesicle trafficking and cytoskeletal regulation that establishes and maintains cell polarity across cell types, with some neural/developmental terms appearing as context. ","confidence":"Medium","size":17,"edges":67,"triangles":159,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":5},{"id":"GO:0043547","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0090162","count":3}]},{"hash":"1347491902671643112","title":"Transcriptional Regulation and Signaling Modulation","description":"The top GO terms cluster around regulation of gene expression (DNA-templated transcription) and modulation of signaling pathways (positive regulation of protein autophosphorylation, GTPase activity, serine/threonine kinase activity, and the calcineurin-NFAT cascade). While there are a few terms related to morphogenesis and Golgi organization, the strongest signal is broader regulatory control over transcription and signaling, justifying a label centered on regulatory processes rather than a single pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031954","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0071902","count":2},{"id":"GO:0033173","count":2}]},{"hash":"1440793577453417139","title":"Forebrain and neural tube development","description":"The top GO terms cluster around neural development (forebrain development, neural tube closure), along with multicellular organism development and DNA-templated transcription, indicating a coherent theme of CNS morphogenesis and gene regulation. Some terms (defense response, ER stress\u2013related apoptosis) are peripheral, but the dominant signal is neural development and transcriptional control.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0001501","count":5},{"id":"GO:0001403","count":5},{"id":"GO:0006349","count":5}]},{"hash":"2080099679660355478","title":"Ribosome biogenesis and translational regulation","description":"The cluster is enriched for terms related to translation, ribosome biogenesis, and translational control (translation, ribosome biogenesis, positive regulation of translational elongation, translational termination, translational fidelity, cytoplasmic translation, and selenocysteine incorporation), indicating involvement in ribosome assembly and regulation of protein synthesis. A few outlier terms (e.g., RNA-templated transcription, heterochromatin regulation) do not dominate the cluster\u2019s function.","confidence":"High","size":17,"edges":57,"triangles":90,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0042254","count":7},{"id":"GO:0045901","count":5},{"id":"GO:1902802","count":5},{"id":"GO:0006415","count":5}]},{"hash":"2199335819239700414","title":"Neural and Embryonic Development","description":"The dominant GO terms center on embryonic and neural formation, including forebrain development, neural tube closure, and multicellular organism development, with supporting roles from skeletal system development and DNA-templated transcription during growth. The presence of cell cycle terms (mitotic cell cycle) and transcriptional regulation aligns with proliferative development phases. An outlier term is defense response to Gram-positive bacterium, which may reflect pleiotropic roles or annotation noise rather than a core developmental function. Overall, the cluster seems to group proteins involved in embryonic neural development and tissue formation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030900","count":6},{"id":"GO:0008283","count":5},{"id":"GO:0001403","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0001501","count":5}]},{"hash":"161648830388899885","title":"Chromatin remodeling and transcriptional regulation in development","description":"The cluster\u2019s terms center on chromatin dynamics (histone acetylation/exchange, nucleosome mobilization, heterochromatin formation) and transcription initiation, suggesting a shared role in regulating gene expression through chromatin state. Development-related terms (segment specification, vegetative-to-reproductive transition, sporulation) imply timing and patterning during development, while a marginal connection to Wnt/PCP signaling hints at broader developmental regulation. Overall, a chromatin-centric regulatory theme best fits the set.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":1},{"id":"GO:0042766","count":1},{"id":"GO:0048510","count":1},{"id":"GO:0016246","count":1},{"id":"GO:0006348","count":1}]},{"hash":"961149557043592481","title":"Hypoxia-triggered mitochondrial translation and apoptosis","description":"The cluster centers on mitochondrial functions: mitochondrial translation and protein synthesis, coupled with apoptotic signaling pathways (cytochrome c release, neuron apoptotic processes) and a cellular response to hypoxia. Iron-sulfur cluster assembly/maturation also ties into mitochondrial metabolism, suggesting a cohesive module of mitochondrial translation supporting stress-induced apoptosis under hypoxic conditions.","confidence":"High","size":17,"edges":134,"triangles":650,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006919","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0090200","count":2},{"id":"GO:0051402","count":2}]},{"hash":"183743639429150204","title":"Translation initiation and mRNA splicing regulation","description":"This cluster centers on RNA metabolism and translation control, dominated by GO terms for translation initiation, formation of the translation preinitiation complex, and translation reinitiation, along with regulation of mRNA splicing and poly(A) tail shortening. A few terms (blastocyst formation; histone deubiquitination) appear less related and may reflect annotation noise, but the core theme ties to how mRNA is processed and its translation initiation is regulated.","confidence":"Medium","size":17,"edges":39,"triangles":62,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:1903586","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0001825","count":4}]},{"hash":"473670295330608110","title":"mRNA processing and translation regulation","description":"The cluster is dominated by GO terms related to post-transcriptional control: spliceosome-mediated mRNA splicing, regulation of splicing (including negative regulation), mRNA poly(A) tail regulation, and regulation of translational initiation and translation reinitiation. While some entries are obsolete or developmental, the cohesive theme is RNA processing and control of translation.","confidence":"High","size":17,"edges":102,"triangles":316,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1903586","count":10},{"id":"GO:0006446","count":10},{"id":"GO:0001825","count":10},{"id":"GO:0045292","count":10},{"id":"GO:1905663","count":10}]},{"hash":"170658127094628961","title":"Fatty acid beta-oxidation and transport","description":"The cluster shows enrichment for fatty acid metabolism-related processes, including transport of long- and medium-chain fatty acids, carnitine metabolism, and beta-oxidation (including acyl-CoA oxidase), as well as regulatory steps in FA oxidation. While a couple terms pertain to bone remodeling or ovarian follicle growth, the dominant theme centers on fatty acid metabolism and lipid catabolism.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046849","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0001547","count":2},{"id":"GO:0015909","count":2},{"id":"GO:0051791","count":2}]},{"hash":"1802653267322573306","title":"Diverse biosynthetic pathways","description":"The terms cluster around biosynthesis of various compounds (lipopolysaccharide, antibiotics, PHB, serine, anthocyanin), with a few unrelated transcription and neural development annotations, suggesting proteins tied to multiple biosynthetic activities rather than a single cohesive pathway.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009103","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0009718","count":4},{"id":"GO:0017000","count":4}]},{"hash":"186286136485993773","title":"Vertebrate neural and skeletal development","description":"The top GO terms cluster around embryonic and neural development\u2014skeletal system development, multicellular organism development, forebrain development, and neural tube closure\u2014suggesting a developmental program in vertebrates. DNA-templated transcription indicates active transcriptional regulation during these processes, with some stress-related terms and immune responses appearing as secondary associations.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001501","count":5},{"id":"GO:0001403","count":5},{"id":"GO:0006349","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0001843","count":5}]},{"hash":"131037149515360788","title":"Spliceosome-Driven RNA Processing and Silencing Regulation","description":"The cluster is enriched for GO terms centered on RNA maturation and control: splicing via the spliceosome, regulation of alternative splicing, and mRNA stability, plus regulatory ncRNA-mediated gene silencing. Together these points indicate a group of proteins involved in post-transcriptional RNA processing and gene silencing pathways, especially spliceosome-mediated mRNA processing and its regulation, and possibly ncRNA-guided control. The presence of polyadenylation and translational initiation regulation terms supports broader RNA metabolism roles but the dominant signal is RNA splicing and processing.","confidence":"High","size":17,"edges":103,"triangles":353,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":11},{"id":"GO:0048026","count":11},{"id":"GO:0006378","count":8},{"id":"GO:0045292","count":7},{"id":"GO:0010610","count":7}]},{"hash":"2007573875939072079","title":"Neural and craniofacial embryogenesis","description":"The cluster is enriched for broad embryonic development terms, notably brain development, palate/roof of mouth development, cartilage and skeletal tissue formation, organ induction, thyroid development, and neuronal differentiation. This pattern suggests a cohesive theme of early head and neural tissue development and associated organogenesis, rather than a single specialized pathway.","confidence":"Medium","size":17,"edges":24,"triangles":0,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":11},{"id":"GO:0030878","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0048706","count":7},{"id":"GO:0051216","count":7}]},{"hash":"410099562109142705","title":"Unknown","description":"The top GO terms span development, bone ossification, innate and general immune responses, autophagy, synapse formation, and cardiac node activity, with no single coherent function linking all proteins. The absence of edges and a unified theme suggests the cluster is heterogeneous, making a specific, high-confidence label inappropriate.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0043931","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0098907","count":1}]},{"hash":"1978676052821520996","title":"Amino acid metabolism cluster","description":"Enrichment centers on multiple amino acid catabolic and biosynthetic processes (alanine, kynurenine/tryptophan, aspartate, histidine) and related biosynthesis (cobalamin), suggesting a cohesive metabolism-focused group; the presence of Notch signaling is likely incidental noise.","confidence":"Medium","size":17,"edges":113,"triangles":392,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":8},{"id":"GO:0007219","count":8},{"id":"GO:0097053","count":8},{"id":"GO:0019878","count":7},{"id":"GO:0042218","count":5}]},{"hash":"2117587455355718204","title":"Developmental signaling and proliferation","description":"The cluster is enriched for nervous system development, axon extension, and multicellular development, with ERK/PI3K signaling and protein ubiquitination, pointing to coordinated developmental signaling and cell proliferation across tissues; occasional T cell receptor signaling reflects broader signaling integration but does not override the core developmental theme.","confidence":"Medium","size":17,"edges":12,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0045773","count":5},{"id":"GO:0008283","count":5},{"id":"GO:0043552","count":5}]},{"hash":"1676721319329445594","title":"Immune\u2013Neural Development with Ossification","description":"The Top Terms include innate immune response, complement activation, and type II interferon production (immune), along with cell adhesion, synapse assembly, and neuron migration (neural development), plus ossification involved in bone maturation. This combination suggests developmentally coordinated immune signaling and neural connectivity processes, with an accompanying bone maturation component.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0007156","count":4},{"id":"GO:0006958","count":4}]},{"hash":"351470901990347645","title":"ER-Golgi trafficking and Wnt secretion","description":"Top GO terms indicate a strong focus on secretory pathway steps: ER to Golgi transport, COPI vesicle coating, Golgi ribbon formation, and regulation of protein exit from the ER, as well as regulation of Wnt protein secretion. These together point to a cohesive cluster of proteins involved in ER\u2013Golgi trafficking and downstream secretion, with some unrelated behavioral or developmental terms likely representing broader annotations. ","confidence":"High","size":17,"edges":38,"triangles":29,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006621","count":4},{"id":"GO:0048205","count":4},{"id":"GO:0090161","count":4},{"id":"GO:0002121","count":4},{"id":"GO:1902003","count":4}]},{"hash":"748970025722657964","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms for ribosome assembly, nuclear export of the large ribosomal subunit, and translation, with nucleolus localization strongly indicating nucleolar ribosome biogenesis. A link to cell division fits with proliferative demands for ribosome production. Other terms may reflect broader stress or signaling roles, but the core theme is ribosome biogenesis and protein synthesis.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0000055","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0045071","count":3}]},{"hash":"2301832947765518393","title":"Cell cycle, migration, and signaling regulators","description":"The proteins here are enriched for regulation of the cell cycle and negative control of proliferation, alongside processes tied to cell migration and signaling modulation (GTPase activity, Wnt pathway inhibition). Nuclear import and oocyte localization terms suggest developmental regulation, while vacuole fusion indicates trafficking roles. Overall, they appear to form a regulatory module coordinating growth, movement, and signaling rather than a single pathway, hence the combined label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":7},{"id":"GO:0043065","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0006607","count":6},{"id":"GO:0030720","count":5}]},{"hash":"1676280639933636063","title":"Ubiquitin-dependent signaling and chromatin modification","description":"The proteins show strong representation of ubiquitin-dependent proteolysis, histone ubiquitination, and chromatin-related regulation, along with NF-kappaB and JNK pathway activation signals. This points to a coordinated role in controlling signaling output via ubiquitin-mediated degradation and chromatin state, linking protein turnover to transcriptional responses in inflammatory signaling. Confidence: High","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0070535","count":11},{"id":"GO:0046328","count":11},{"id":"GO:0007250","count":11},{"id":"GO:0090073","count":11}]},{"hash":"370103385926901481","title":"Antiviral innate immunity and ubiquitin\u2013autophagy","description":"This cluster centers on ubiquitin-dependent proteolysis and autophagy, paired with innate immune defense and responses to viruses (defense response to virus, innate immune response). These themes suggest proteins involved in antiviral defenses and protein turnover, with supporting signals from vitamin D response and microtubule-centric localization that may reflect intracellular trafficking and regulation of viral processes. While some terms (e.g., SA node regulation) are less related, the dominant pattern points to antiviral immunity and proteostasis pathways.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0098907","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0051092","count":9},{"id":"GO:0051607","count":9}]},{"hash":"2122336270481096299","title":"Embryonic development and organ morphogenesis","description":"The top GO terms point to diverse developmental processes across multiple tissues\u2014left/right patterning, heart cushion EMT, placenta and pancreatic endocrine development, cartilage morphogenesis, and general endocrine system development\u2014suggesting a shared theme of embryonic tissue differentiation and organ formation. Some terms also reflect broad gene-expression regulation (RNA polymerase II regulation, mRNA splicing), which often underpins developmental programs. This combination supports a label centered on developmental morphogenesis rather than a single tissue-specific function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":8},{"id":"GO:1903026","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0060806","count":8},{"id":"GO:0060707","count":8}]},{"hash":"846749113576868598","title":"Muscle and neural development signaling","description":"The top GO terms center on developmental processes (angiogenesis, multicellular organism development, tubule development) with strong emphasis on muscle-related functions (muscle cell fate specification, myosin II filament assembly) and neural/cardiac signaling (presynaptic calcium regulation, long-term memory, electrical coupling in cardiac conduction). This suggests a theme of developmental regulation that integrates muscle differentiation with neural and cardiac signaling. Given the mixture of muscle, neural, and developmental terms, a concise, representative name is \"Muscle and neural development signaling.\" ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0000272","count":2},{"id":"GO:0072286","count":2},{"id":"GO:2000678","count":2}]},{"hash":"1104609667918693430","title":"Developmental signaling and neural development","description":"The top GO terms cluster around embryonic development and neural-related processes (organ induction, gastrulation, neuroblast proliferation, synapse assembly, and cell-substrate junction formation), pointing to developmental signaling and neural tissue organization. While a few metabolic terms appear, they are less representative of the cluster\u2019s main themes. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045725","count":3},{"id":"GO:0034383","count":3},{"id":"GO:0051965","count":2},{"id":"GO:0045162","count":2},{"id":"GO:0060250","count":2}]},{"hash":"1211085734185449241","title":"Embryonic Development and Organogenesis","description":"This cluster is dominated by GO terms related to embryonic development and tissue morphogenesis, including palate and cartilage formation, mesoderm development, left-right patterning, endocardial cushion EMT, placental and endocrine organ development, and pancreatic beta-cell development. These together suggest a coherent theme of early development and organogenesis, despite one outlier term about ribosomal export. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":10},{"id":"GO:0060536","count":10},{"id":"GO:0035270","count":10},{"id":"GO:0003198","count":10},{"id":"GO:0060806","count":10}]},{"hash":"1971786477116826619","title":"Embryogenesis and tissue differentiation","description":"Most GO terms point to developmental processes such as mesoderm development, left-right pattern formation, EMT in heart development, placental and trophoblast differentiation, and general embryonic morphogenesis. A few terms reflect regulatory aspects (apoptosis, mitochondrial potential) that often occur during development. The common theme is lineage specification and organogenesis rather than a single metabolic or cellular process.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0007498","count":1},{"id":"GO:0010957","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0051881","count":1}]},{"hash":"1001647893758914783","title":"Unknown","description":"The top GO terms span cell cycle, transcription regulation, development, innate immune signaling, calcium detection, PI signaling, and fungal sporulation, with no single cohesive function linking them; plus there are no edges among proteins, suggesting a heterogeneous set rather than a unified module.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0045944","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0031069","count":2}]},{"hash":"797202785909626473","title":"Glutamatergic synaptic transmission and behavior","description":"The top GO terms cluster around glutamatergic synapses and neural signaling (positive regulation of glutamatergic synaptic transmission, excitatory postsynaptic potentials, chemical synaptic transmission, AMPA receptor clustering, neurotransmitter secretion, and synapse assembly) and extend to behavior (social behavior, grooming, vocalization). This suggests a coherent module of glutamatergic synaptic function influencing behavioral outputs.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051968","count":3},{"id":"GO:2000463","count":3},{"id":"GO:0035176","count":3},{"id":"GO:2000821","count":3},{"id":"GO:0071625","count":3}]},{"hash":"32446303324343653","title":"DNA replication and transcription machinery with ribosome biogenesis","description":"Proteins in this cluster are enriched for DNA replication, transcription, and chromatin-related processes (e.g., DNA replication, RNA Pol II transcription, nucleosome assembly) along with ribosome biogenesis. This points to a core nuclear gene-expression/biogenesis program. Some terms like ER-Golgi transport, mitochondrial translation, and Purkinje cell layer maturation appear less central but do not overpower the dominant theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:1903715","count":2},{"id":"GO:0033314","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0000122","count":2}]},{"hash":"930437053324063054","title":"Kidney and PNS development with cell adhesion","description":"Top terms indicate a cohesive theme around developmental processes (kidney development, peripheral nervous system development, mesodermal fate regulation, BMP signaling) and strong cell-cell adhesion signals (heterophilic and homophilic adhesion). The vitamin D3 metabolic process and calcium signaling support signaling during development. The complement activation term is less aligned but may reflect immune-related roles during development; overall the cluster appears to center on developmental signaling coupled with cell adhesion.","confidence":"Medium","size":17,"edges":21,"triangles":8,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0048378","count":6},{"id":"GO:0001822","count":6},{"id":"GO:0007156","count":6}]},{"hash":"1215923241224991782","title":"Neural development and actin cytoskeleton regulation","description":"Top terms indicate neural and spinal development (neural tube closure, spinal cord development), together with actin nucleation and regulation of signaling (Arp2/3, GTPase activity, tyrosine phosphorylation). This suggests a cluster centered on neural development coupled to actin cytoskeleton dynamics and related signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0001843","count":2},{"id":"GO:2000601","count":2},{"id":"GO:0045010","count":2},{"id":"GO:0021510","count":2}]},{"hash":"1075006647529606419","title":"Neural signaling and glial transport","description":"This cluster is dominated by terms relating to neural communication and membrane transport in glial/synaptic contexts, including regulation of glycinergic synaptic transmission, serotonin uptake, and taurine transport, along with perineurial glial growth. Some unrelated terms (e.g., heart development) appear but are less representative. Overall, a neural signaling plus glial transport theme is most coherent. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0071364","count":2},{"id":"GO:0014065","count":2},{"id":"GO:0055085","count":2},{"id":"GO:0042066","count":1}]},{"hash":"1371707267435444751","title":"Embryonic development and pattern formation","description":"This cluster\u2019s GO terms cluster around developmental processes and lineage specification, including left/right patterning, EMT related to heart/endocardial cushion formation, trophoblast/placental differentiation, and pancreatic cell development. While there are other terms related to signaling and metal cluster assembly, the dominant theme is embryonic development and tissue patterning, suggesting a broad developmental differentiation role rather than a single pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":5},{"id":"GO:0003323","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0034396","count":4},{"id":"GO:0044571","count":4}]},{"hash":"353606634828329353","title":"Developmental morphogenesis and cytoskeletal remodeling","description":"This cluster mixes development-related terms (multicellular organism development, ossification, venous endothelial differentiation) with cytoskeletal remodeling (Arp2/3-mediated actin nucleation, pseudopodium assembly) and membrane trafficking (endocytic recycling, protein localization to the cell surface), suggesting a theme of morphogenesis driven by cytoskeletal dynamics and surface remodeling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034394","count":3},{"id":"GO:0007275","count":3},{"id":"GO:2001137","count":2},{"id":"GO:0034314","count":2},{"id":"GO:0031274","count":2}]},{"hash":"1379256716836570320","title":"Neural development and synapse assembly","description":"The top GO terms cluster around neural development and synapse assembly, along with cell adhesion and membrane trafficking/regulatory processes (e.g., endocytosis, JNK signaling). This suggests a focus on neural connectivity and synaptic organization, with some auxiliary roles in adhesion and signaling. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048666","count":9},{"id":"GO:0045806","count":9},{"id":"GO:0071691","count":9},{"id":"GO:0033578","count":9},{"id":"GO:0070836","count":9}]},{"hash":"332164137706594426","title":"Neuronal plasticity and B-cell signaling","description":"This cluster\u2019s top GO terms cluster around neural signaling and plasticity (long-term potentiation, neuron projection development, neurotrophin TRK signaling) as well as B-cell\u2013related signaling (B cell receptor signaling, B cell proliferation, IL-2 production). There are also terms for adhesion and actin cytoskeleton dynamics, which underlie both synaptic changes and immune cell interactions. Taken together, the proteins appear to participate in signaling processes in both neural and immune contexts with concurrent cytoskeletal remodeling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030035","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0048011","count":2},{"id":"GO:0060291","count":2}]},{"hash":"1465599700853065403","title":"Embryonic organ morphogenesis","description":"The top GO terms point to development and morphogenesis across multiple organs and tissues (heart, palate, hindbrain, kidney, imaginal disc), suggesting the cluster represents embryonic organ development rather than a single pathway or function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0007448","count":1},{"id":"GO:1901522","count":1},{"id":"GO:0072133","count":1}]},{"hash":"874320301034661632","title":"Ribosome biogenesis and translation","description":"The top GO terms are dominated by ribosome biogenesis (and subunit biogenesis) and export of ribosomal subunits from the nucleus, plus tRNA modification, all key steps in ribosome assembly and the translation machinery. Some cell cycle/division terms appear but the prevailing signal centers on ribosome production and protein synthesis, suggesting the cluster comprises components involved in ribosome biogenesis and translation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0042254","count":1},{"id":"GO:0000747","count":1},{"id":"GO:1903833","count":1},{"id":"GO:0042274","count":1}]},{"hash":"1661728570289303839","title":"Lipid biosynthesis and signaling","description":"The top GO terms clearly cluster around lipid metabolism and lipid mediator production: phosphatidylcholine remodeling, ether lipid biosynthesis, CDP-diacylglycerol biosynthesis, triglyceride biosynthesis, and platelet activating factor biosynthesis. There are additional immune-related terms (IL-2 production, regulation of T cell activation-induced cell death) that are related but secondary to the dominant lipid-centric biosynthetic theme. Overall, the strongest signal is lipid biosynthesis and signaling, justifying this label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001967","count":2},{"id":"GO:0036151","count":1},{"id":"GO:0008611","count":1},{"id":"GO:0070236","count":1},{"id":"GO:0070970","count":1}]},{"hash":"1643318525837308620","title":"Immune Receptor Signaling and Apoptosis","description":"The top GO terms point to immune signal transduction, including T cell receptor and Fc-epsilon receptor signaling, along with regulation of downstream phosphorylation and GTPase activity. The presence of apoptotic process and regulation of CDK activity suggests coupling between immune signaling and cell fate decisions. Some terms like neuronal development or subtelomeric heterochromatin formation are less central, but overall the cluster appears to represent modules coordinating immune signaling with apoptosis.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0010976","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0051092","count":3}]},{"hash":"116368859846492179","title":"Protein Synthesis and Intracellular Transport","description":"These proteins are enriched for translation (GO:0006412), protein transport (GO:0015031), and protein-containing complex localization (GO:0034629), pointing to core cellular machinery for producing and delivering proteins. The presence of nervous system and dendritic spine development terms may reflect incidental neuronal expression but do not dominate the term set. Overall, the common thread appears to be protein synthesis and intracellular trafficking.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0007399","count":2},{"id":"GO:0060999","count":2},{"id":"GO:0034629","count":2}]},{"hash":"423625614831487083","title":"Developmental Angiogenesis and ECM Remodeling","description":"The prominent GO terms point to developmental angiogenesis (sprouting angiogenesis) and extracellular matrix organization (fibronectin fibril organization), with brain, liver, and cochlear development indicating broad organogenesis. Protein homotrimerization may reflect multimeric ECM or signaling proteins, and immune-related terms (complement activation, immunological synapse) suggest immune context in developing tissues. Together, the cluster reflects angiogenesis and ECM-driven organ development with some immune interactions.","confidence":"High","size":16,"edges":37,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0002040","count":7},{"id":"GO:0043524","count":5},{"id":"GO:0001889","count":5},{"id":"GO:0090103","count":5},{"id":"GO:0007420","count":5}]},{"hash":"2198862595408671092","title":"P450-driven steroid and xenobiotic metabolism","description":"This cluster prominently features GO terms tied to steroid and retinoid/xenobiotic metabolism (androgen metabolic process, 9-cis-retinoic acid biosynthetic, vitamin D catabolic, aldosterone biosynthesis, brassinosteroid homeostasis) and explicitly the omega-hydroxylase P450 pathway, suggesting cytochrome P450\u2013mediated processing of diverse lipophilic compounds. The inclusion of related biosynthetic/catabolic terms for alkaloids, carbazole, and vancomycin hints at broader P450-associated secondary metabolism. Overall, the common theme is P450-driven metabolism of steroids and xenobiotics. ","confidence":"High","size":16,"edges":25,"triangles":9,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0046232","count":6},{"id":"GO:0042904","count":4},{"id":"GO:0008209","count":4},{"id":"GO:0042369","count":4},{"id":"GO:0032342","count":4}]},{"hash":"1674501539336676083","title":"Neural development and signaling pathways","description":"The cluster features brain and nervous system development terms (brain development, nervous system development), axon guidance and developmental signaling (Roundabout and Smoothened signaling pathways), and synaptic exocytosis regulation, plus lamellipodium assembly indicating actin-driven cellular dynamics. While a couple of terms (e.g., T cell receptor signaling, mating projection growth) are less directly connected, the dominant theme is neural development and associated signaling processes.","confidence":"Medium","size":16,"edges":95,"triangles":288,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031384","count":9},{"id":"GO:0007420","count":9},{"id":"GO:0010796","count":9},{"id":"GO:2000300","count":9},{"id":"GO:0001822","count":7}]},{"hash":"2042212758765767835","title":"Spinal Cord Neurogenesis and Motor Neuron Differentiation","description":"The cluster is enriched for GO terms centered on neural development in the spinal cord and motor neuron lineage (ventral spinal cord interneuron specification, spinal cord motor neuron cell fate specification, medial motor column neuron differentiation), along with ectoderm formation and neural crest migration. These repeatedly point to spinal cord neurogenesis and motor neuron differentiation as the core theme, with a few broader or peripheral developmental terms.","confidence":"Medium","size":16,"edges":9,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0072283","count":5},{"id":"GO:0021526","count":5},{"id":"GO:0021937","count":5},{"id":"GO:0021524","count":5},{"id":"GO:0000122","count":5}]},{"hash":"2018799405054185616","title":"Developmental Gene Expression and RNA Processing","description":"This cluster centers on broad multicellular development across tissues (forebrain, retina, skeletal, gonad) and includes RNA processing elements (spliceosome-mediated splicing) plus translation initiation components, suggesting a group of proteins coordinating development with RNA regulation rather than a single tissue-specific function.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0031915","count":3},{"id":"GO:0001501","count":3}]},{"hash":"1650823719272157033","title":"Embryonic development and tissue morphogenesis","description":"The dominant GO terms point to developmental and morphogenetic processes: cranial skeleton morphogenesis, heart development, corpus callosum development, planar polarity, and melanocyte migration, suggesting neural crest\u2013driven development and cell migration during embryogenesis. While an innate immune term appears, the core theme is embryonic development and tissue organization. ","confidence":"Medium","size":16,"edges":9,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0048701","count":8},{"id":"GO:0035372","count":7},{"id":"GO:0051092","count":7},{"id":"GO:0038162","count":7}]},{"hash":"1056423975083703999","title":"Ribosome Biogenesis and Translation","description":"The top GO terms cluster around translation and ribosome biology: translation, translational initiation and termination, and ribosomal subunit assembly, plus maturation of SSU/LSU rRNA. This indicates a module of proteins involved in protein synthesis machinery and ribosome biogenesis. Viral genome replication and DNA replication terms appear only as minor annotations and do not define the main function of the cluster.","confidence":"High","size":16,"edges":66,"triangles":126,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006415","count":3},{"id":"GO:0006413","count":3},{"id":"GO:0019079","count":3},{"id":"GO:0006260","count":3}]},{"hash":"1459365430456870776","title":"Fatty acid biosynthesis and acetyl-CoA metabolism","description":"Top terms are dominated by lipid-related processes (lipoteichoic acid biosynthesis, fatty acid biosynthesis, and medium/very long-chain fatty acid metabolism) and acetyl-CoA\u2013linked energy pathways (acetyl-CoA biosynthesis from acetate, pyruvate fermentation to acetate). This suggests a cohesive theme of fatty acid production and acetyl-CoA\u2013driven metabolism, with a few outlier terms like seed coat development and bioluminescence that may reflect broader annotation context. Confidence: Medium","confidence":"","size":16,"edges":107,"triangles":419,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":10},{"id":"GO:0006633","count":9},{"id":"GO:0036112","count":8},{"id":"GO:0019427","count":8},{"id":"GO:0010214","count":8}]},{"hash":"1174528647320563420","title":"Cardiac development and energy metabolism","description":"The label reflects the strong presence of heart development and cardiac muscle differentiation terms, with supporting metabolic processes such as lipid (fatty-acyl-CoA) biosynthesis, ATP production, steroid biosynthesis, and gluconeogenesis regulation, plus ion transport. Some terms (mRNA export, obsolete transcription regulation) are less specific, but the dominant theme centers on cardiac formation linked to cellular energy metabolism.","confidence":"Medium","size":16,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0006406","count":2},{"id":"GO:1990441","count":2},{"id":"GO:0099132","count":2},{"id":"GO:0015986","count":2}]},{"hash":"2097963969868825693","title":"CNS Development and Tissue Morphogenesis","description":"The top GO terms show a strong emphasis on central nervous system development, complemented by various tissue- and organ-specific development and signaling processes (e.g., chondrocyte development, colon epithelial cell migration, glomerular basement membrane development). An outlier term related to lipoteichoic acid biosynthesis suggests possible contamination or cross-species annotation. With no interaction edges (edges/triangles = 0), the cluster appears to group general developmental functions rather than a single cohesive pathway, so the label reflects the dominant CNS development theme while acknowledging broader morphogenesis signals.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":4},{"id":"GO:0070395","count":3},{"id":"GO:0014846","count":3},{"id":"GO:0042425","count":3},{"id":"GO:0040037","count":3}]},{"hash":"391263736024634264","title":"Cell wall and LPS carbohydrate biosynthesis","description":"The cluster is dominated by GO terms related to cell wall organization and various carbohydrate biosynthetic/metabolic processes (O antigen, lipopolysaccharide biosynthesis, GDP-mannose, galactose, glycogen, glucose-1-phosphate), suggesting a cohesive role in bacterial cell envelope assembly and sugar metabolism. Some annotations (e.g., mRNA splicing via spliceosome) are unlikely to fit bacteria and may reflect noise or misannotation, so the connection is strong but not perfect.","confidence":"Medium","size":16,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0042787","count":2},{"id":"GO:0009243","count":2},{"id":"GO:0009103","count":2}]},{"hash":"1742098202814987337","title":"Calcium-Dependent Signaling and Endocytosis","description":"The terms point to calcium ion\u2013driven signaling (cellular response to Ca2+, Ca2+ release into cytosol, phosphatidylinositol signaling) and regulation of endocytosis, with long-term potentiation also being calcium-dependent. While some terms relate to other differentiation or apoptosis processes, the core theme across the top terms centers on calcium signaling linked to membrane trafficking and receptor dynamics.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0007026","count":3},{"id":"GO:0048260","count":2},{"id":"GO:0060056","count":2},{"id":"GO:0048015","count":2}]},{"hash":"1676611504785240751","title":"RNA Splicing and Transcription Regulation","description":"The top GO terms center on mRNA splicing via the spliceosome and DNA-templated transcription, with additional hints of chromatin modification (histone acetylation). This points to a cohesive theme of regulating gene expression at the level of RNA processing and chromatin state. Some other terms relate to broader regulatory or developmental contexts (forebrain development, hypoxia response, immune defense), which can reflect interconnected transcriptional control in stress and development. Overall, a plausible cluster label is RNA splicing and transcription regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0006351","count":3}]},{"hash":"2062556620372467726","title":"Actin Cytoskeleton Remodeling in Development","description":"The cluster is dominated by GO terms tied to actin dynamics (polymerization and organization) and actin-regulated morphogenesis, including positive regulation of actin polymerization and actin filament organization. Additional terms related to centrosome localization and branching in gland morphogenesis, as well as dendritic spine morphogenesis and synaptic depression, point to actin-driven shape changes across diverse developmental and neuronal contexts. This suggests a cohesive role for actin cytoskeleton remodeling in both development and synaptic remodeling, justifying the label.","confidence":"High","size":16,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":4},{"id":"GO:0051660","count":3},{"id":"GO:0060017","count":3},{"id":"GO:0060444","count":3},{"id":"GO:0060292","count":3}]},{"hash":"414748196367551830","title":"Neurometabolic and Cardiovascular Signaling","description":"The terms span neural processes (pain perception, cocaine response, visual learning, temperature sensing) along with metabolic/cardiovascular pathways (thermogenesis, prostaglandin signaling, blood pressure regulation, heart development, electron transport). This suggests proteins coordinating brain signaling with energy metabolism and cardiovascular regulation, hence the label.","confidence":"Medium","size":16,"edges":17,"triangles":1,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0002024","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0008542","count":9},{"id":"GO:0048148","count":9}]},{"hash":"1451311586020642115","title":"Stimulus-response and sensory perception cluster","description":"This group centers on proteins annotated with sensory perception (pain, vision) and responses to external stimuli, including drugs, temperature, prostaglandins, and xenobiotics, as well as processes like mucus secretion and diet-induced thermogenesis. While there is a broad mix of functions (including heart development, which may reflect pleiotropy or annotation noise), the dominant theme is perception or reaction to stimuli and the downstream behavioral or physiological responses.","confidence":"Medium","size":16,"edges":7,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0070257","count":9},{"id":"GO:0008542","count":9},{"id":"GO:0048148","count":9},{"id":"GO:0007507","count":9}]},{"hash":"822768609398945273","title":"Growth factor and immune receptor signaling","description":"This cluster centers on receptor-driven signal transduction across growth-factor and immune contexts, including IGF and growth hormone receptor signaling, B cell receptor signaling, and extrinsic death receptor pathways, with shared downstream elements like small GTPases and NFAT regulation. The presence of related processes like ER stress response and phosphatidylinositol signaling reinforces a broad, connected signaling theme rather than a single pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051531","count":2},{"id":"GO:0046856","count":2},{"id":"GO:1900103","count":2},{"id":"GO:0048009","count":2},{"id":"GO:0045671","count":2}]},{"hash":"2230628274114179537","title":"Unknown","description":"The terms are highly heterogeneous, spanning extracellular processes (protein secretion, cell adhesion), various sugar metabolism pathways, and a development term, with no single shared function tying all proteins.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009306","count":2},{"id":"GO:0060117","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0005998","count":1},{"id":"GO:0046167","count":1}]},{"hash":"1642863822575202226","title":"Transmembrane Transporters","description":"Most top terms describe transport across membranes: various ions, xenobiotics, and small molecules, plus neurotransmitter loading into vesicles. Although a couple of neuron/eye-related terms appear, the unifying theme is membrane transport activity, so this label is representative.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030321","count":2},{"id":"GO:0045494","count":2},{"id":"GO:0001662","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0035725","count":2}]},{"hash":"220865672561614769","title":"Presynaptic vesicle trafficking and exocytosis","description":"This cluster is dominated by GO terms tied to synaptic vesicle maturation, neurotransmitter secretion, and presynaptic dense core vesicle exocytosis, along with endosome-to-lysosome transport and phospholipid signaling for membrane trafficking. While autophagy and membrane repair appear, the core recurring theme is presynaptic vesicle dynamics and neurotransmitter release, supported by lipid signaling pathways involved in vesicle trafficking.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006914","count":2},{"id":"GO:0001778","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0016188","count":2},{"id":"GO:0008333","count":2}]},{"hash":"2040941792079826641","title":"ER-Golgi vesicle trafficking and Golgi organization","description":"The terms cluster around the secretory pathway: ER-Golgi vesicle traffic, Golgi ribbon formation, receptor recycling, and intracellular protein transport, with supporting hints from calcium signaling and mucus secretion.","confidence":"High","size":16,"edges":16,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:1902259","count":3},{"id":"GO:0051592","count":2},{"id":"GO:1900483","count":2},{"id":"GO:1990668","count":2}]},{"hash":"1967183360392113595","title":"Blood Oxygen Transport and Redox Homeostasis","description":"This cluster is dominated by GO terms tied to oxygen delivery and vascular function (oxygen transport, blood vessel diameter maintenance, blood coagulation) and redox control (response to hypoxia, cellular oxidant detoxification, enucleate erythrocyte differentiation). The combination points to proteins involved in cardiovascular oxygen transport and oxidative stress management, though a couple terms (nitrogen fixation, protein heterooligomerization) appear less directly related. ","confidence":"Medium","size":16,"edges":22,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":4},{"id":"GO:0009399","count":4},{"id":"GO:0051409","count":4},{"id":"GO:0032966","count":4},{"id":"GO:0007596","count":4}]},{"hash":"1300087949700466134","title":"Circadian Regulation of Apoptosis and Transcription","description":"Based on the top GO terms, the cluster centers on circadian rhythm control and apoptosis, with accompanying regulatory roles in transcription initiation, splicing, and mRNA stabilization, suggesting a core function in circadian-linked gene expression and cell death regulation (with ubiquitination and androgen receptor signaling as supporting regulatory connections).","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0042753","count":2},{"id":"GO:2001244","count":2},{"id":"GO:0043620","count":2}]},{"hash":"543897374036988039","title":"ER-Golgi vesicle transport and Golgi inheritance","description":"This cluster is dominated by GO terms for ER to Golgi vesicle transport and retrograde Golgi-to-ER/endosome-to-Golgi trafficking, plus Golgi inheritance and related vesicle routing. Endocytosis and Golgi-to-vacuole transport further support a general vesicle-transport theme. The presence of neuronal development terms may reflect tissue-specific roles but overall the shared function centers on intracellular membrane trafficking involving the Golgi and ER.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0042147","count":2},{"id":"GO:0048668","count":2},{"id":"GO:0001755","count":2},{"id":"GO:1901998","count":1}]},{"hash":"1691454875759973142","title":"Mitochondrial transport and energy metabolism","description":"The cluster centers on mitochondrial processes: membrane fission and regulation of membrane permeability, transmembrane transport of ATP, citrate, and phosphate, and responses linked to fatty acids and thermogenesis, plus links to glucose-stimulated insulin regulation\u2014all indicating a cohesive group of mitochondrial dynamics and energy metabolism proteins.","confidence":"High","size":16,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":9},{"id":"GO:0090149","count":9},{"id":"GO:0000002","count":9},{"id":"GO:1990544","count":8},{"id":"GO:1990845","count":8}]},{"hash":"1434282906914413034","title":"Cardiac and Mesodermal Development","description":"The GO terms are dominated by embryonic development and differentiation, especially mesoderm-derived processes and heart formation (left/right patterning, endocardial cushion EMT, cartilage morphogenesis, placental development, and endocrine system development). A single splicing term is present but does not define the cluster. Overall, these proteins appear linked to early development and organogenesis, with a emphasis on mesodermal and cardiac contexts.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":11},{"id":"GO:0003323","count":10},{"id":"GO:0060972","count":10},{"id":"GO:0060806","count":10},{"id":"GO:0060707","count":10}]},{"hash":"2206224587633723289","title":"Developmental patterning and organ morphogenesis","description":"This cluster's GO terms are dominated by embryonic development and morphogenesis across multiple tissues: left/right pattern formation, EMT in heart cushion formation, mesoderm development, cartilage morphogenesis, roof of the mouth, and endocrine/pancreatic development. Together they reflect a coherent developmental program rather than a single tissue or pathway, so the label emphasizes broad developmental patterning and organ formation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0060806","count":9},{"id":"GO:0060707","count":9},{"id":"GO:0060536","count":9}]},{"hash":"1000944625577240240","title":"Ubiquitin-dependent NF-\u03baB signaling in innate immunity","description":"The cluster is dominated by GO terms pointing to innate immune response and various ubiquitination processes (K63- and K6-linked ubiquitination), along with positive regulation of TNF signaling and NF-\u03baB pathways, virus defense, and ubiquitin-dependent protein turnover. This pattern suggests a cohesive function in ubiquitin-mediated tuning of innate immune signaling, especially NF-\u03baB activation, with ancillary roles in transcriptional regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0070534","count":6},{"id":"GO:0051607","count":5},{"id":"GO:0036205","count":5},{"id":"GO:1903265","count":5}]},{"hash":"1226696849760041642","title":"Synaptic signaling and actin dynamics","description":"The proteins appear linked to neuronal signaling and synaptic activity (excitatory postsynaptic potential, fear response, cholecystokinin response) and to cytoskeletal regulation (actin filament binding, endocytosis, GTPase activity). This suggests a theme of synaptic signaling intertwined with actin remodeling, though a few terms pertain to non-neuronal processes, lowering certainty to a moderate level.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1903356","count":10},{"id":"GO:2000822","count":10},{"id":"GO:0010923","count":10},{"id":"GO:2001205","count":10},{"id":"GO:0010954","count":10}]},{"hash":"1828426755213651387","title":"Neural development and neurotransmission","description":"This cluster centers on nervous-system related processes: adenohypophysis development and angiogenesis suggest developmental context, while perineurial glial growth, glycinergic synaptic transmission regulation, serotonin uptake, and taurine transport point to neural support cells and neurotransmitter handling. Although some terms are broader, the strongest coherent theme is neural development and synaptic/ neurotransmitter function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021984","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0008277","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070301","count":2}]},{"hash":"1405564299558346412","title":"Embryonic development and organogenesis","description":"The top GO terms span diverse developmental processes across multiple tissues (bone, lens, gonads, neural tube, pancreas, kidney, limbs) and morphogenesis, suggesting a broad role in embryonic development rather than a single tissue-specific function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001649","count":3},{"id":"GO:0001501","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0001843","count":2}]},{"hash":"859577258689194044","title":"Pain and temperature response with calcium signaling","description":"This cluster is enriched for GO terms related to nociception and temperature stress (sensory perception of pain, cellular response to temperature stimulus, diet-induced thermogenesis) along with calcium signaling events (release of sequestered calcium into cytosol and its positive regulation) and related signaling pathways (Rho signaling, adenylate cyclase activation). Although there are some tissue-development terms present, the dominant theme centers on stress-induced signaling, pain/temperature response, and calcium-mediated signaling, justifying a label focused on those core processes.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0071502","count":11},{"id":"GO:0051281","count":9},{"id":"GO:0060658","count":9}]},{"hash":"1871911234642391916","title":"Leukocyte recruitment and inflammatory signaling","description":"This cluster is dominated by GO terms tied to immune cell movement and inflammatory signaling (leukocyte migration, T cell chemotaxis, eosinophil migration, IL-1\u2013mediated responses), suggesting a role in recruiting immune cells during inflammation. Additional terms related to xenobiotic response and proteolysis hint at coordinated regulatory and detox-related processes accompanying inflammation. Overall, the shared theme is immune cell trafficking and inflammatory signaling rather than a single enzymatic activity. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903026","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0071347","count":3},{"id":"GO:1903206","count":2}]},{"hash":"1845908837889851869","title":"COPII trafficking and epithelial polarity","description":"The dominant GO terms describe intracellular protein transport and COPII vesicle loading, coupled with establishment of epithelial cell polarity and tight junction assembly, plus centrosome localization. This points to a cohesive function in secretory trafficking that supports epithelial morphogenesis (e.g., hair follicle development). A few outliers (vocalization behavior, osteoclast regulation) are less connected but do not override the central theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0031069","count":4},{"id":"GO:0090110","count":4},{"id":"GO:2001205","count":3},{"id":"GO:0051660","count":3}]},{"hash":"1356875915658109959","title":"Growth factor signaling and cytoskeletal remodeling","description":"The dominant terms are IGF receptor signaling, EGFR-related responses, and downstream small GTPase/Rho\u2013actin remodeling, indicating a module where growth factor receptor signaling drives cytoskeletal dynamics, with some immune and stress-related annotations.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048009","count":4},{"id":"GO:0071364","count":3},{"id":"GO:0097011","count":3},{"id":"GO:0001782","count":3},{"id":"GO:0060313","count":3}]},{"hash":"1507761809545771138","title":"Embryonic patterning and mesoderm development","description":"This cluster centers on embryogenesis and tissue/organ patterning, with terms like left/right pattern formation, EMT in heart development, mesoderm formation, placenta and cartilage morphogenesis, and endocrine organ development, suggesting these proteins participate in developmental differentiation rather than mature cellular functions.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":12},{"id":"GO:0003198","count":12},{"id":"GO:0060806","count":12},{"id":"GO:0060707","count":12},{"id":"GO:0060536","count":12}]},{"hash":"1555479979513481348","title":"Actin Dynamics and Cell Polarity Signaling","description":"The cluster is dominated by GO terms tied to actin cytoskeleton remodeling and small GTPase (Rho) signaling\u2014such as actin filament bundle assembly, regulation of Rho signaling, and positive regulation of GTPase activity\u2014along with terms for epithelial cell polarity and related developmental signaling (Wnt). This points to a cohesive theme of actin-driven morphogenesis and polarity during development, with some related processes like neural tube closure and signaling modulation included as supportive context.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":2},{"id":"GO:0035024","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1298994854488268251","title":"Embryonic Morphogenesis and Development","description":"The top GO terms cluster around embryonic tissue formation and organ patterning (cartilage morphogenesis, mesoderm development, left-right pattern formation, hair follicle morphogenesis, placental and endocrine system development, EMT in heart cushion). This points to proteins involved in developmental morphogenesis across multiple tissues rather than a single pathway, justifying a label focused on embryonic development and tissue morphogenesis.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":16},{"id":"GO:0035270","count":16},{"id":"GO:0003198","count":16},{"id":"GO:0060806","count":16},{"id":"GO:0060972","count":16}]},{"hash":"1272854272405108143","title":"Unknown","description":"The terms span neural development (sensory perception of sound; cerebellar granule cell differentiation), liver apoptosis, skin differentiation, and several broad metabolic processes (CoA biosynthesis, phosphorylation/dephosphorylation, methylation). They are diverse with no single shared function, and there are no network edges to unify the proteins. Consequently, there is no clear cohesive theme to assign a specific label.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0021707","count":2},{"id":"GO:0015937","count":1},{"id":"GO:0016311","count":1}]},{"hash":"480380693266723945","title":"Retroviral integration and latency","description":"Based on GO terms including DNA integration, RNA-templated DNA biosynthetic process, DNA replication and recombination, negative regulation of transcription by RNA polymerase II, and specific viral processes like viral penetration into the host nucleus and establishment of integrated proviral latency, the cluster appears to group proteins involved in the retroviral life cycle, especially entry, reverse transcription, genome integration, and latency maintenance, as well as transcriptional regulation in the context of integrated provirus. This suggests a cohesive theme around retroviral integration/latency rather than unrelated DNA metabolism.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0043388","count":3},{"id":"GO:0015074","count":2},{"id":"GO:1903704","count":2},{"id":"GO:0006278","count":2}]},{"hash":"1377902085477182996","title":"Membrane Transport and Metabolic Regulation","description":"Because the most represented terms relate to membrane-associated activities (potassium ion transmembrane transport; regulation of membrane potential), together with metabolic and detoxification processes (bile acid and xenobiotic metabolism, flavonoid metabolism) and extracellular matrix biosynthesis (heparan sulfate proteoglycan biosynthesis), the cluster appears to group proteins involved in membrane transport and broad metabolic processing rather than a single specific pathway.","confidence":"Medium","size":15,"edges":20,"triangles":6,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030573","count":6},{"id":"GO:0071805","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0042391","count":4},{"id":"GO:0071320","count":4}]},{"hash":"806657623912654763","title":"Neural signaling and cytoskeletal regulation","description":"The top GO terms cluster around neuronal signaling and synaptic activity, including excitatory postsynaptic potential, regulation of actin filament binding, and GTPase activity, along with behavioral fear response and cholecystokinin signaling. This suggests a shared theme of modulating neural communication via cytoskeletal dynamics and signaling cascades. A metabolic insulin signaling term appears, but the dominant pattern is neural signaling with cytoskeletal regulation, so the label reflects the primary function of the cluster.","confidence":"Medium","size":15,"edges":15,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:1903356","count":3},{"id":"GO:2000822","count":3},{"id":"GO:0010923","count":3},{"id":"GO:2001205","count":3}]},{"hash":"1545941547286079399","title":"Neural development driven by Notch signaling","description":"Based on the top GO terms, the proteins cluster around neural development and fate specification (neuron development, spinal cord oligodendrocyte cell fate specification, floor plate development, auditory receptor cell fate specification) with an emphasis on Notch signaling and transcriptional regulation (RNA polymerase II transcription and transcription regulatory region DNA binding). This suggests a cohesive module governing neural patterning and differentiation modulated by Notch-driven transcription.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0042667","count":14},{"id":"GO:0007399","count":14},{"id":"GO:0045668","count":14},{"id":"GO:0007219","count":14}]},{"hash":"686787216000470460","title":"Central carbohydrate metabolism: glycolysis to TCA","description":"The top GO terms are dominated by glycolysis, gluconeogenesis, the TCA cycle, and pyruvate biosynthesis, indicating a core energy-metabolism cluster across central carbon pathways. Some tissue-context terms (liver development, male gonad development) may reflect expression patterns rather than primary function, but the metabolic signals strongly tie the proteins to carbohydrate metabolism.","confidence":"High","size":15,"edges":62,"triangles":142,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006094","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0033512","count":3},{"id":"GO:0000122","count":3}]},{"hash":"1489439155391365385","title":"mRNA processing and translation regulation","description":"This cluster is dominated by GO terms tied to RNA maturation and control of gene expression at the post-transcriptional level: mRNA splicing via the spliceosome, polyadenylation, and regulation of translational initiation and reinitiation. Taken together, these terms point to a coherent theme of RNA processing and translation control, with a minority of peripheral terms (e.g., certain obsolete annotations) that do not alter the overall signal.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":11},{"id":"GO:0031047","count":10},{"id":"GO:0048026","count":10},{"id":"GO:0045292","count":9},{"id":"GO:1903586","count":8}]},{"hash":"2291849379954684251","title":"Unknown","description":"The GO terms are scattered across diverse biological themes without a unifying function for the cluster (transcription machinery, neural/visual processes, immune differentiation, metabolism, centrosome cycle). With zero edges among the proteins and only a couple of terms supporting each area, there is no coherent common function to define a concise, specific label. Therefore the cluster is best described as Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045819","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0007098","count":2},{"id":"GO:0006351","count":2}]},{"hash":"476756259432588138","title":"Antiviral response with transcriptional and translational control","description":"The cluster is enriched for innate immune response, cellular and viral response terms, plus negative regulation of viral genome replication, transcriptional regulation, mRNA processing, and eIF2\u03b1-dependent translational control, with some apoptotic regulation. This combination points to proteins coordinating antiviral defense, stress-induced gene expression changes, and controlled cell fate, making this label representative of the cluster\u2019s function.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0010998","count":2}]},{"hash":"699031297616873263","title":"Proteostasis and Chromatin Assembly under Stress","description":"This cluster centers on protein quality control and chaperone activity (response to misfolded protein, chaperone-mediated protein complex assembly, protein refolding) together with chromatin organization involving CENP-A chromatin assembly, suggesting a theme of maintaining proteome integrity and genome structure during cellular stress; other terms like hypoxia response and DNA replication point to broader stress- and cell-cycle-related coordination, though some terms are less tightly connected.","confidence":"Medium","size":15,"edges":27,"triangles":37,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001666","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0071218","count":4},{"id":"GO:0042866","count":3},{"id":"GO:0070389","count":3}]},{"hash":"1702616758743500977","title":"Mitotic cell cycle progression and DNA replication","description":"This cluster is dominated by GO terms tied to DNA replication and key mitotic transitions (G1/S, G2/M), chromosome condensation, and spindle dynamics, indicating a cohesive role in cell cycle control and mitosis. Additional terms related to transcription and growth signaling (insulin receptor regulation and mammary epithelial proliferation) reflect supportive processes that accompany cell proliferation, but the central theme remains mitotic progression and DNA replication.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:2000775","count":4},{"id":"GO:0000082","count":4},{"id":"GO:0033598","count":4},{"id":"GO:0000320","count":4}]},{"hash":"1819049015017341029","title":"Spliceosome-mediated mRNA processing and translation regulation","description":"The cluster is enriched for spliceosome-related splicing regulation (including alternative splicing and cis splicing), mRNA stability control under stress, regulatory ncRNA-mediated silencing, and regulation of translational initiation and reinitiation, indicating a coherent module of post-transcriptional RNA processing and translation control.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0048026","count":12},{"id":"GO:0000381","count":12},{"id":"GO:1903586","count":11}]},{"hash":"602348652917082118","title":"TCA cycle with redox and metal homeostasis","description":"The cluster is enriched for core carbon metabolism terms: tricarboxylic acid cycle, isocitrate metabolic process, and glyoxylate cycle. It also includes redox-related terms (redox homeostasis, response to oxidative stress) and metal ion homeostasis (intracellular copper ion homeostasis), suggesting a functional grouping around mitochondrial energy metabolism coupled with redox balance and metal ion management. A couple of terms related to steroid hormone response and female gonad development hint at regulatory or tissue-specific signaling connections, but the dominant thread appears to be metabolism intertwined with redox and metal homeostasis.","confidence":"Medium","size":15,"edges":84,"triangles":248,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":4},{"id":"GO:0006878","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0006979","count":2},{"id":"GO:0006537","count":2}]},{"hash":"1690035221286702272","title":"Actin-driven cell migration and adhesion","description":"The cluster centers on actin cytoskeleton remodeling and adhesion-related processes: lamellipodium and microspike/microspike assembly, lamellipodium assembly, substrate adhesion-dependent spreading, and GTPase activity regulation (with both positive and negative regulation). These point to coordinated actin-driven motility and adhesion dynamics, with supporting signals such as JNK pathway regulation. A few terms (e.g., lysosome localization) are orthogonal but do not override the dominant theme of cytoskeletal remodeling and cell movement. Confidence reflects a coherent, representative theme across the top GO terms.","confidence":"High","size":15,"edges":5,"triangles":1,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006970","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0034260","count":3},{"id":"GO:0030035","count":3},{"id":"GO:1900026","count":3}]},{"hash":"1766405832403142186","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0032933","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0000462","count":2}]},{"hash":"488636261765871220","title":"Unknown","description":"The proteins appear linked to RNA modification (RNA guanine-N7 methylation and rRNA modification) but also show a mix of unrelated metabolic and xenobiotic-related processes (response to cocaine/xenobiotic stimulus, antibiotic and hormone biosynthesis, lipid and selenium metabolism, development). The lack of a coherent shared function and no network edges suggest there is no single dominant theme tying the cluster together.  ","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0036265","count":4},{"id":"GO:0042220","count":3},{"id":"GO:0006656","count":3},{"id":"GO:0001887","count":3},{"id":"GO:0000154","count":3}]},{"hash":"1797144039422664605","title":"Dopaminergic neurobehavioral signaling","description":"The cluster shows a strong representation of neural and behavioral GO terms, including sensory perception of pain, visual learning, cocaine-related behavioral response, regulation of dopamine secretion, and brain-specific components like the brain renin-angiotensin system and prostaglandin signaling. The presence of positive regulation of GTPase activity suggests linked signaling pathways. Together these point to brain-centric, dopaminergic signaling that modulates behavior and learning, with some metabolic or cardiovascular connections that are less central to the core theme.","confidence":"High","size":15,"edges":42,"triangles":18,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0008542","count":10},{"id":"GO:0048148","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0014059","count":10}]},{"hash":"831093829887461084","title":"Developmental cell migration and adhesion","description":"These proteins co-occur with GO terms centered on cell movement and adhesion in development, including neuron migration (lateral motor column), spinal cord development, sprouting angiogenesis, and integrin- and matrix-mediated adhesion. The dominant theme is migratory and adhesive processes shaping morphogenesis and tissue remodeling, with ancillary signals related to neural communication and hemostasis. ","confidence":"Medium","size":15,"edges":8,"triangles":3,"max_degree":4,"top_function":"wound healing","top_go_terms":[{"id":"GO:0097477","count":6},{"id":"GO:0070527","count":6},{"id":"GO:0033631","count":4},{"id":"GO:0060740","count":4},{"id":"GO:0021517","count":4}]},{"hash":"2003273696525926332","title":"Temperature-Responsive Ion Transport and Motility","description":"These terms cluster around ion transport across membranes (potassium and proton), intracellular potassium homeostasis, calcium transport, and stabilization of membrane potential, together with temperature-related responses (diet-induced thermogenesis and cellular response to temperature stimulus). The inclusion of flagellated sperm motility suggests a link to motility mechanisms that rely on ion flux in flagella. An outlier term is sensory perception of pain, which is less central to the core theme here. Overall, the cluster points to temperature-associated regulation of ion gradients and motility.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0002024","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0097623","count":5},{"id":"GO:1990573","count":5}]},{"hash":"2129510553121132061","title":"Temperature-Driven Calcium Signaling","description":"The top GO terms show a clear emphasis on temperature-related responses (sensory perception of pain, diet-induced thermogenesis, cellular response to temperature stimulus) and calcium signaling (regulation and release of sequestered calcium into cytosol), supported by membrane potential regulation and energy metabolism terms. Although there are outliers like prostaglandin, xenobiotic responses, and coagulation, the central theme is signaling and metabolic adjustment to thermal stress via calcium dynamics.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0002024","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0022900","count":6},{"id":"GO:0042391","count":6}]},{"hash":"1760965100817321424","title":"Synaptic Actin Remodeling and Receptor Trafficking","description":"Reason: The dominant terms point to actin cytoskeleton remodeling (filopodium assembly, barbed-end capping, GTPase regulation) and transport of neurotransmitter receptors to the postsynaptic membrane, plus subsynaptic organization, suggesting a synaptic context with coordinated cytoskeleton dynamics and vesicle trafficking. A couple of terms (ribosome biogenesis, exit from mitosis) are less directly related and may reflect broader cellular processes in the set.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0010458","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0098887","count":2}]},{"hash":"1706451890525657552","title":"Stress-responsive transcription and RNA processing","description":"Based on GO terms dominated by cellular response to lipopolysaccharide, apoptotic regulation (including intrinsic pathway), circadian rhythm regulation, and control of transcription and RNA processing (transcription initiation, mRNA stabilization, and spliceosome-mediated splicing), the cluster appears to coordinate stress-induced signaling with gene expression regulation and rhythmic timing. The combination suggests a cohesive theme of stress-responsive control of transcription and RNA metabolism, with apoptosis as a downstream effect.","confidence":"Medium","size":15,"edges":27,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0042753","count":2},{"id":"GO:2001244","count":2},{"id":"GO:0043620","count":2}]},{"hash":"563070151135361596","title":"RNA splicing and translation regulation","description":"This cluster centers on mRNA processing and post-transcriptional control: multiple GO terms involve spliceosome-mediated splicing (including alternative splicing), mRNA stability and decay in response to stress, regulation of translational initiation and translation reinitiation, and poly(A) tail regulation. Despite one unrelated term (blastocyst formation), the dominant signal is RNA processing and control of translation, suggesting a cohesive module of splicing and translation regulation.","confidence":"High","size":15,"edges":15,"triangles":3,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:1903586","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0000381","count":4},{"id":"GO:0001825","count":4}]},{"hash":"1085901829578166659","title":"Embryonic organ morphogenesis regulators","description":"The cluster shows enrichment for organ morphogenesis across multiple tissues (eye, pituitary, cerebellum, skeletal muscle, digestive tract, ureteric bud, lung) and includes transcription-related terms (transcription by RNA Pol II and negative regulation of transcription by RNA Pol II), suggesting these proteins act as transcriptional regulators coordinating embryonic development and organogenesis.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0021983","count":8},{"id":"GO:0043010","count":8},{"id":"GO:0006366","count":8},{"id":"GO:0060441","count":8}]},{"hash":"875665937695556975","title":"Developmental transcription regulation and chromatin remodeling","description":"The proteins cluster around transcriptional control and chromatin dynamics (DNA-templated transcription, chromatin remodeling, transcription regulation by RNA polymerase II) with additional development-related terms (left-right patterning, otic placode formation, lens cell proliferation, mesenchymal differentiation, meiosis-related pairing), suggesting a group that modulates gene expression to drive developmental processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043046","count":4},{"id":"GO:0045654","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0043044","count":3}]},{"hash":"2269928835827898536","title":"Neural Development and RTK Signaling","description":"The cluster is dominated by GO terms related to nervous system development (including peripheral nervous system) and receptor tyrosine kinase signaling with autophosphorylation, indicating proteins involved in neural development guided by RTK pathways. Additional terms touch on broader developmental processes (axial mesoderm formation, boundary specification), suggesting a set of proteins coordinating early developmental patterning with RTK-mediated signaling.","confidence":"High","size":15,"edges":100,"triangles":400,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":14},{"id":"GO:0007432","count":14},{"id":"GO:0007169","count":14},{"id":"GO:1904238","count":14},{"id":"GO:0048320","count":14}]},{"hash":"1967360176330840407","title":"Heart morphogenesis and electrophysiology","description":"The cluster is dominated by GO terms tied to heart development and function, including left ventricular morphogenesis, Purkinje-to-ventricular signaling, SA node action-potential regulation, and calcium release from the sarcoplasmic reticulum, indicating a cohesive theme around cardiac development and electrical activity. Some terms (bone ossification, skin development) are present but appear less central, suggesting a primary cardiac focus with some peripheral processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0043931","count":4},{"id":"GO:0071313","count":3},{"id":"GO:0003151","count":3},{"id":"GO:0014808","count":3}]},{"hash":"478961641077695378","title":"Neurovascular development and signaling","description":"The top GO terms cluster around neural development (forebrain development) and vascular differentiation (venous endothelial cell differentiation, VEGF signaling), with Notch receptor processing and integrin-mediated cell adhesion, all indicating coordinated neurovascular development and signaling. Some terms like neurotransmitter secretion and TNF response are ancillary but do not override the core theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007269","count":6},{"id":"GO:0033631","count":5},{"id":"GO:0007220","count":5},{"id":"GO:0010042","count":5},{"id":"GO:0030216","count":5}]},{"hash":"1763818404780493903","title":"Immune and Developmental Signaling","description":"The cluster combines immune signaling terms (natural killer cell differentiation, IL-27 signaling, Th2 cytokine production, prolactin signaling) with development-related pathways (nervous system and kidney development, Hedgehog/SMO, ROBO signaling) and angiogenesis regulation, suggesting proteins involved in broad signaling networks that connect immune responses to developmental processes.","confidence":"Medium","size":15,"edges":83,"triangles":229,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001779","count":5},{"id":"GO:0016525","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0001822","count":4},{"id":"GO:0007224","count":4}]},{"hash":"1471970872507947564","title":"Unknown","description":"The top terms span diverse processes across multiple tissues (virus defense, autophagy, cytokinesis, cardiac action potentials, bone ossification, synapse assembly, development, pancreatic cell apoptosis). There\u2019s no clear, single functional theme uniting these terms, so a cohesive label is not supported. ","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0000910","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0006914","count":2}]},{"hash":"1030458955438996196","title":"Development and Cell Cycle Regulation","description":"The cluster\u2019s top GO terms cluster around developmental processes (fat cell differentiation, skeletal system development, multicellular organism development) along with mitotic cell cycle control (mitotic cell cycle, negative regulation of CDK activity). Additional terms referencing mRNA processing and telomere maintenance suggest linked regulation of gene expression and genome stability during development. Together, these terms point to a cohesive theme of development with concurrent control of cell proliferation and genome maintenance, justifying a label focused on development and cell-cycle regulation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006397","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0045444","count":7},{"id":"GO:0001501","count":7},{"id":"GO:0045736","count":7}]},{"hash":"213936455147565155","title":"NF-kappaB\u2013driven immune signaling","description":"The cluster shows strong representation of innate and adaptive immune processes and NF-kappaB regulation, including canonical and non-canonical pathways, TNF signaling, TLR pathway modulation, and T cell proliferation, with polyubiquitination as a regulatory mechanism; occasional microtubule localization may reflect protein trafficking within signaling complexes.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035372","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042098","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0051092","count":2}]},{"hash":"415606502447935268","title":"Vascular development and organogenesis","description":"The cluster is dominated by angiogenesis and morphogenesis terms (angiogenesis involved in coronary vascular morphogenesis; coronary artery morphogenesis; VEGF receptor signaling) and organ development terms (kidney development; chondrocyte development). While metabolism and transcription-related terms are present, the strongest shared theme is vascular- and organ-development programs. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006006","count":4},{"id":"GO:0002063","count":3},{"id":"GO:0060978","count":3},{"id":"GO:0048842","count":3},{"id":"GO:0060982","count":3}]},{"hash":"509041283856430901","title":"Rho/Rac\u2011driven cytoskeletal remodeling and migration","description":"This cluster is enriched for actin cytoskeleton dynamics and cell movement terms (microspike assembly; regulation of Rho and Rac signaling; cell adhesion; smooth muscle cell migration), indicating coordinated cytoskeletal remodeling and migratory behavior. A few peripheral terms relate to immune signaling and endocrine development, but the dominant theme is cytoskeletal regulation linked to cell migration.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030035","count":5},{"id":"GO:0045737","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0014911","count":5},{"id":"GO:0007155","count":4}]},{"hash":"2141002747984255282","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around developmental patterning and differentiation (left/right pattern formation, endocardial cushion EMT, cartilage morphogenesis, pancreatic cell development, endocrine system development), suggesting a cohesive theme of embryonic development and organ morphogenesis, with some general gene-expression terms (splicing, ribosomal export) likely reflecting ubiquitous cellular processes rather than a core function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":12},{"id":"GO:1903026","count":12},{"id":"GO:0003198","count":12},{"id":"GO:0060806","count":12},{"id":"GO:0060707","count":12}]},{"hash":"1438905886500438131","title":"Ubiquitin-Proteasome System and Immune Signaling","description":"This cluster is dominated by GO terms tied to ubiquitin-dependent proteolysis and related pathways (ubiquitin-dependent protein catabolic process, ERAD, SCF-dependent degradation, protein ubiquitination, autoubiquitination, K6-linked ubiquitination) as well as immune-related processes (adaptive immune response, TNF-mediated signaling, NF-kappaB activity). The confluence of protein degradation machinery with immune signaling suggests a cohesive role in ubiquitin-mediated protein turnover that regulates immune responses and chromatin dynamics (histone catabolic process). Confidence: High","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0030433","count":6},{"id":"GO:1903265","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0002250","count":6}]},{"hash":"540641595439310852","title":"Midbrain dopaminergic and GABAergic neuron development and signaling","description":"The cluster shows strong representation for dopaminergic neuron development in the midbrain/substantia nigra, plus GABAergic interneuron development in cortex and GABAergic synaptic transmission, with supporting roles in cell polarity and Rac-mediated signaling related to neuronal morphology and migration. This cohesive theme points to coordinated differentiation and synaptic maturation of dopaminergic and GABAergic neurons.","confidence":"High","size":14,"edges":7,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":7},{"id":"GO:0000001","count":6},{"id":"GO:0071963","count":6},{"id":"GO:0021762","count":6},{"id":"GO:0002093","count":5}]},{"hash":"1158903349187179277","title":"Lipid metabolism and immune signaling","description":"The cluster centers on glycerolipid and membrane lipid biosynthesis/remodeling (phosphatidylcholine remodeling, ether lipids, CDP-diacylglycerol, triglyceride, platelet activating factor, cutin biosynthesis), with a subset related to immune regulation (IL-2 production, negative regulation of T cell activation-induced death), suggesting a function in lipid metabolism linked to immune signaling.","confidence":"Medium","size":14,"edges":50,"triangles":99,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0036151","count":8},{"id":"GO:0008611","count":8},{"id":"GO:0070236","count":8},{"id":"GO:0070970","count":8},{"id":"GO:0016024","count":8}]},{"hash":"1316755954737821408","title":"Chromatin remodeling and nucleosome assembly","description":"The cluster shows strong enrichment for chromatin-related processes: DNA replication-dependent chromatin assembly, nucleosome assembly, transcription initiation-coupled chromatin remodeling, heterochromatin formation, and transcriptional regulation by RNA Pol II, with related histone modification terms. These point to a cohesive role in chromatin organization and control of gene expression, with a few tissue-specific terms as potential peripheral functions.","confidence":"High","size":14,"edges":88,"triangles":331,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0051290","count":11},{"id":"GO:0000183","count":11},{"id":"GO:0045815","count":11},{"id":"GO:0006335","count":11},{"id":"GO:0000122","count":8}]},{"hash":"1389566895109104364","title":"Chromatin regulation and ribosome biogenesis","description":"The top GO terms cluster around histone methylation (H3-K9 and H3-K4) and DNA-templated transcription, together with maturation of rRNA components (5.8S, LSU, SSU). This suggests two linked nuclear roles: epigenetic control of gene expression and ribosome biogenesis. A few terms also touch on mitotic spindle assembly and translational regulation, but the dominant theme is chromatin regulation coupled with ribosome maturation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006349","count":3},{"id":"GO:0051567","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0000466","count":3}]},{"hash":"2143074111546973807","title":"Embryonic Morphogenesis and Mesoderm Development","description":"The top GO terms are strongly centered on embryonic development, organ formation, and mesoderm-related processes (animal organ morphogenesis, mesoderm development, embryonic organ development, somitogenesis, post-anal tail morphogenesis, multicellular organism growth). This indicates a cohesive theme of embryonic morphogenesis and body axis formation. A couple of terms (negative regulation of apoptotic process and T cell signaling) are peripheral and do not undermine the core developmental signal, likely reflecting moonlighting roles of some proteins. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009887","count":1},{"id":"GO:0007498","count":1},{"id":"GO:0001833","count":1},{"id":"GO:0048568","count":1},{"id":"GO:0035264","count":1}]},{"hash":"1448337447064154361","title":"Unknown","description":"The GO terms are diverse, including mRNA splicing, ubiquitination, ER-Golgi transport, spindle assembly, translational regulation, synaptic plasticity, and kinase autophosphorylation, with no clear single function tying all proteins together. Therefore there isn\u2019t a coherent, specific label that represents the cluster as a whole.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0051441","count":2},{"id":"GO:1905705","count":2}]},{"hash":"709013006409770208","title":"Neural development and synaptic plasticity","description":"The top GO terms point to brain-specific processes: astrocyte differentiation, substantia nigra development, memory, and regulation of neuronal synaptic plasticity, suggesting a cluster devoted to neural development and synaptic function. While there are ancillary terms like hypoxia response and transcription regulation, the dominant theme is neural development and neural communication. ","confidence":"Medium","size":14,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0051290","count":4},{"id":"GO:0031954","count":4}]},{"hash":"1651977047327170471","title":"Tyrosine kinase signaling and cell division","description":"This cluster centers on RTK-like signaling and phosphorylation (protein trans-autophosphorylation, collagen-activated kinase signaling) and converges on cytoskeletal organization and mitotic processes (actin organization, centrosome duplication, sister chromatid biorientation), suggesting a cohesive role in kinase-driven signaling that coordinates movement and cell division, with some developmental signaling elements.","confidence":"Medium","size":14,"edges":84,"triangles":289,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046638","count":14},{"id":"GO:0010954","count":14},{"id":"GO:0046826","count":14},{"id":"GO:0048666","count":14},{"id":"GO:0036290","count":14}]},{"hash":"136946843982981807","title":"mRNA Splicing and Translational Regulation","description":"The cluster is dominated by GO terms for mRNA processing and splicing via the spliceosome, along with terms about regulation of translation initiation and reinitiation, and mRNA tail processing. This suggests a coherent theme around RNA processing and control of translation, with additional related terms (e.g., transcription-associated regulation) supporting a broader RNA-centric regulatory role.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":4},{"id":"GO:0006378","count":4},{"id":"GO:1903586","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0001825","count":3}]},{"hash":"1258489847390252103","title":"Embryonic organ morphogenesis","description":"The top GO terms cluster around development and morphogenesis across multiple organs during embryogenesis (gonads, heart, eye, hindlimb, placenta, Habenula, prostate), suggesting these proteins participate in broad organogenesis programs; the RNA Pol II transcription regulation term may reflect developmental gene control.","confidence":"High","size":14,"edges":17,"triangles":5,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":8},{"id":"GO:0048048","count":7},{"id":"GO:0021986","count":6},{"id":"GO:2000288","count":6},{"id":"GO:0035116","count":6}]},{"hash":"1137218663788168065","title":"Transcription Regulation in Meiosis and Tissue Development","description":"The top GO terms point to transcriptional control (DNA-templated transcription, RNA Pol II regulation) and meiosis-related processes (cell division, homologous chromosome pairing), alongside tissue differentiation signals (Leydig cell, mammary gland development). This suggests a cluster of proteins coordinating transcription, cell-cycle events, and developmental differentiation in reproductive and mammary tissues, with some signaling responses (leptin, vitamin E) that broaden regulatory context.","confidence":"Medium","size":14,"edges":18,"triangles":10,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0033327","count":5},{"id":"GO:0045737","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0060749","count":5}]},{"hash":"270119221114436875","title":"Rho/Ras/PI3K Signaling Regulators","description":"Top terms point to regulation and mediation of Rho, Ras, and PI3K signaling, phosphatidylinositol signaling, and calcium response, with additional roles in myoblast fusion and B cell differentiation. The common thread across these terms is modulation of diverse signaling pathways rather than a single specific process, suggesting a cluster of proteins that regulate multiple signaling cascades across contexts. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0043552","count":4},{"id":"GO:0046580","count":4},{"id":"GO:0007520","count":4},{"id":"GO:0038028","count":3}]},{"hash":"131464234302075027","title":"Protein quality control and degradation (ubiquitin-ERAD)","description":"The top GO terms cluster around deubiquitination, ERAD maintenance of unfolded proteins, and proteasomal regulation, which together define a core role in protein quality control and turnover; the presence of translation and DNA repair terms likely reflects additional stress-response links to proteostasis.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":8},{"id":"GO:1904378","count":6},{"id":"GO:0097237","count":5},{"id":"GO:1902283","count":5},{"id":"GO:0006412","count":5}]},{"hash":"1614394298954444110","title":"Actin Cytoskeleton Remodeling","description":"Based on the top GO terms, the cluster is enriched for regulators of actin dynamics (positive regulation of GTPase activity; positive regulation of actin filament polymerization; actin filament polymerization; microvillus assembly; ruffle assembly) and processes tied to cytoskeletal remodeling and membrane protrusions, with some association to endothelial barrier functions. The dominant theme is actin remodeling and surface structure formation, outweighing unrelated terms, so this label is representative of the cluster's function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0019933","count":2},{"id":"GO:2000670","count":2},{"id":"GO:0030838","count":2},{"id":"GO:0030033","count":2}]},{"hash":"387520370706691230","title":"Innate Immune Response and Transcriptional Regulation","description":"The cluster shows strong signals for immune/inflammatory processes (response to lipopolysaccharide, defense against fungus, leukocyte migration, complement activation) together with transcriptional control terms (negative regulation of transcription by RNA polymerase II; DNA-templated transcription). This combination suggests proteins that coordinate transcriptional regulation with innate immune responses; the presence of collagen catabolic process and outflow tract morphogenesis may reflect shared multi-function roles in extracellular remodeling and development.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0032496","count":3},{"id":"GO:0050832","count":3},{"id":"GO:0030194","count":3}]},{"hash":"2265393638066076141","title":"Neuronal synaptic plasticity and behavior","description":"The cluster centers on synapse formation and remodeling (dendritic spine morphogenesis, actin cytoskeleton organization) and synaptic strength modulation (LTD, excitatory postsynaptic potential), with ties to neural circuits governing social and vocalization behaviors and sensory perception of sound, indicating a role in neuronal signaling and behavior.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0007232","count":2},{"id":"GO:2000463","count":2},{"id":"GO:0051835","count":2},{"id":"GO:0060292","count":2}]},{"hash":"1524066426787813771","title":"Ubiquitination and SUMOylation in stress and mitosis","description":"This cluster centers on post-translational modification pathways\u2014ubiquitination (including K11-linked and polyubiquitination) and SUMOylation\u2014alongside stress-signaling (JNK cascade) and cell-cycle regulation (mitotic spindle checkpoint). The mix of ubiquitin/SUMO-related terms with DNA damage response and mitosis-related terms suggests a coherent theme of PTM-controlled stress responses and cell-cycle control.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:1902426","count":14},{"id":"GO:0043524","count":14},{"id":"GO:0070076","count":14},{"id":"GO:1903955","count":14},{"id":"GO:0007254","count":14}]},{"hash":"516284977252604580","title":"Glandular and reproductive organ morphogenesis","description":"This cluster centers on terms like pancreas morphogenesis, regulation of branching in prostate gland morphogenesis, embryo implantation, and male gonad development, with associated hormone signaling (estrogen stimulus). These points suggest a theme of development and morphogenesis of glands and reproductive tissues, though there are a few immune-related terms that are less directly connected, so the label captures the primary functional theme with some caveats.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0007169","count":3},{"id":"GO:0071391","count":2}]},{"hash":"1389539313055376967","title":"Steroid and Retinoid Lipid Metabolism","description":"The top terms cluster around lipid- and vitamin A\u2013derivative metabolism, including androgen and estrogen biosynthesis, various retinoid pathways (retinol, retinal, retinoic acid), and sphingolipid biosynthesis, suggesting a cohesive function in steroid hormone production and retinoid/lipid metabolism, with a few unrelated antibiotic-response terms as minor outliers.","confidence":"High","size":14,"edges":79,"triangles":239,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0008209","count":10},{"id":"GO:0006703","count":10},{"id":"GO:0046677","count":10},{"id":"GO:0042572","count":10}]},{"hash":"783124682957001879","title":"Innate antiviral response regulators","description":"The cluster shows coherent enrichment for innate immune response terms, including response to interferon-alpha and negative regulation of defense against viruses and viral genome replication, pointing to proteins involved in antiviral signaling and regulation. While translation and rRNA processing terms appear, the strongest shared theme is antiviral/innate immune activity, suggesting these proteins collectively modulate host-virus interactions. ","confidence":"Medium","size":14,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006364","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0050689","count":2},{"id":"GO:0045071","count":2}]},{"hash":"681513452358299407","title":"Unknown","description":"The terms span development, cardiac hypertrophy signaling, EMT regulation, metabolism, and sporulation, with several obsolete GO entries, showing no clear, unified function for this cluster. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0009097","count":2},{"id":"GO:0006740","count":2},{"id":"GO:0019310","count":2},{"id":"GO:0007498","count":2}]},{"hash":"813934539169032781","title":"Lung branching morphogenesis and planar polarity","description":"The top GO terms cluster around organ morphogenesis with a focus on lung development, including branching morphogenesis and lateral/orthogonal subdivisions of terminal units, as well as establishment of planar polarity and stereocilium organization. This suggests a shared role in directing tissue patterning, cell adhesion, and polarity during organ formation, particularly in the lung, with supporting signals from mesenchymal proliferation and synapse-related processes. Confidence reflects the coherence of these development- and polarity-focused terms.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0072137","count":5},{"id":"GO:0043931","count":5},{"id":"GO:0060489","count":5},{"id":"GO:0060122","count":5},{"id":"GO:0051965","count":5}]},{"hash":"1591804315197908801","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":13},{"id":"GO:0045623","count":12},{"id":"GO:0061158","count":12},{"id":"GO:0007026","count":12},{"id":"GO:0070535","count":12}]},{"hash":"913658014204123969","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":9,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071519","count":3},{"id":"GO:0070060","count":3},{"id":"GO:0007292","count":3},{"id":"GO:0006929","count":3},{"id":"GO:0060292","count":3}]},{"hash":"2227889923210050079","title":"Intercellular adhesion and immune signaling","description":"The top terms cluster around cell-cell adhesion (homophilic/heterophilic adhesion) and regulation of immune cell activity (macrophages, NK cells, T cells), plus related processes like synapse assembly and developmental signaling. This suggests proteins that function at intercellular contacts to modulate immune responses and tissue organization, with development/morphogenesis as a broader context.","confidence":"Medium","size":14,"edges":66,"triangles":180,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043031","count":9},{"id":"GO:0086072","count":9},{"id":"GO:0002859","count":9},{"id":"GO:0007157","count":9},{"id":"GO:0043318","count":9}]},{"hash":"1150711045501538439","title":"Immune Defense and Regulation","description":"The set of proteins is enriched for immune-related GO terms: negative regulation of macrophage activation, complement activation (classical pathway), immunoglobulin production, defense against bacteria, and NK cell\u2013related regulation. This suggests a module focused on modulating innate and adaptive immunity and antibody-mediated defense. A few terms about cardiac repolarization and lens morphogenesis appear, but likely reflect multifunctional proteins or annotation noise rather than core cluster function.","confidence":"High","size":14,"edges":4,"triangles":0,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043031","count":9},{"id":"GO:0006958","count":9},{"id":"GO:0007157","count":9},{"id":"GO:0002377","count":9},{"id":"GO:0042742","count":8}]},{"hash":"970060223898286287","title":"Neuronal Synaptic Signaling and Plasticity","description":"Reasoning: the top GO terms converge on neuronal synapses and signaling, notably regulation of short-term and long-term synaptic plasticity, glutamatergic transmission, and receptor clustering, with a tie to sensory perception of sound, suggesting an auditory synaptic signaling module. Other terms about endothelial barrier and development are present but less central to the cluster's core function.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0048169","count":2},{"id":"GO:0061028","count":2},{"id":"GO:0070830","count":2}]},{"hash":"2172911855804804656","title":"Glycinergic synaptic signaling and neural development","description":"The GO terms cluster around glycine transport/import, glycine secretion and glycinergic neurotransmission, along with neural development elements such as thalamus development and perineurial glial growth, implying a cohesive theme of glycine-mediated neural signaling in CNS development.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042066","count":3},{"id":"GO:1903346","count":3},{"id":"GO:0021984","count":3},{"id":"GO:0051610","count":3},{"id":"GO:0060092","count":3}]},{"hash":"1242630092015268148","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031408","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0019433","count":2},{"id":"GO:0060428","count":2},{"id":"GO:0019373","count":2}]},{"hash":"2047263429168628448","title":"Actin cytoskeleton remodeling in imaginal disc morphogenesis","description":"The top GO terms center on actin dynamics (Arp2/3 regulation, barbed-end capping) and imaginal disc\u2013derived developmental processes (wing hair orientation, leg segmentation), suggesting a theme of actin-driven morphogenesis in Drosophila imaginal discs, with related signaling responses (EGF, IL-1) that can modulate cytoskeletal rearrangements.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0071362","count":1},{"id":"GO:0001737","count":1},{"id":"GO:0036011","count":1},{"id":"GO:2000814","count":1}]},{"hash":"162217439296353572","title":"P450-driven lipid and hormone metabolism","description":"The cluster is enriched for cytochrome P450\u2013mediated processes, including omega-hydroxylase pathways, prostaglandin and oxylipin biosynthesis, androgen and vitamin D/steroid metabolism, and retinoic acid biosynthesis, all pointing to oxidation steps in lipid and steroid hormone pathways. Oxidant detoxification and redox homeostasis terms support the notion of P450-dependent metabolism, with one outlier term (vancomycin biosynthesis) not aligned with the main theme. Overall, the proteins likely function together in P450-catalyzed lipid and hormone biosynthesis and modification.","confidence":"High","size":13,"edges":70,"triangles":210,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":5},{"id":"GO:0001516","count":5},{"id":"GO:0045454","count":4},{"id":"GO:0042904","count":4},{"id":"GO:0008209","count":4}]},{"hash":"584040362820118914","title":"Synaptic Vesicle Trafficking and Plasticity","description":"The top GO terms center on neuronal communication and vesicle dynamics, including synaptic vesicle docking and fusion to the presynaptic membrane, long-term potentiation, and positive regulation of excitatory postsynaptic potential and norepinephrine secretion, which together point to synaptic transmission and plasticity. Supporting terms such as Golgi ribbon formation and endosome transport reflect intracellular vesicle trafficking, while autophagosome maturation suggests turnover related to neuronal maintenance. A membrane lipid metabolism term (mannosyl-inositol phosphorylceramide metabolic process) may relate to membrane biology underpinning vesicle production and trafficking, reinforcing the overall vesicle cycling theme.","confidence":"High","size":13,"edges":21,"triangles":18,"max_degree":7,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006675","count":9},{"id":"GO:0060291","count":8},{"id":"GO:0043311","count":7},{"id":"GO:0090161","count":7},{"id":"GO:0031629","count":7}]},{"hash":"411842060633051910","title":"Imaginal disc development and Notch-regulated patterning","description":"This cluster's GO terms cluster around insect developmental patterning and organogenesis, notably imaginal disc-derived leg segmentation, compartment pattern specification, and positive regulation of Notch signaling, pointing to coordinated tissue development and segmentation. Some terms reflect broader developmental processes (intestinal/ovarian/hypochord development) or annotation noise, but the core theme is patterning in disc-based development with Notch involvement. Overall, the proteins are best described as related to imaginal-disc development and Notch-regulated patterning.","confidence":"Medium","size":13,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":2},{"id":"GO:0002526","count":2},{"id":"GO:0075015","count":2},{"id":"GO:0036011","count":1},{"id":"GO:0060576","count":1}]},{"hash":"1405699322021400539","title":"Skeletal muscle excitation-contraction coupling and SR calcium handling","description":"The terms point to muscle function, especially excitation-contraction coupling: relaxation of skeletal muscle, regulation of fast-twitch contraction, T-tubule organization, and calcium import into the sarcoplasmic reticulum. A few glycan biosynthesis terms appear incidental, but the dominant pattern is muscle calcium signaling and contraction. ","confidence":"High","size":13,"edges":23,"triangles":15,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0009103","count":3},{"id":"GO:0006013","count":2},{"id":"GO:0090076","count":2},{"id":"GO:0031448","count":2},{"id":"GO:0016311","count":2}]},{"hash":"1833120474460142511","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around nervous system development (brain and nervous system development) and neural signaling processes (Smoothened and Roundabout pathways, dopamine response, and synaptic vesicle exocytosis), suggesting these proteins participate in neural development and neurotransmission rather than unrelated processes. A lone immune signaling term (T cell receptor signaling) appears incidental here.","confidence":"High","size":13,"edges":8,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001822","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0007224","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0010796","count":6}]},{"hash":"1222291752723867642","title":"RNA processing, splicing, and RNP assembly","description":"The proteins in this cluster co-occur with GO terms tied to RNA metabolism: transcription termination by RNA Pol II, spliceosome and snRNP assembly, various RNA processing steps (tRNA, rRNA maturation), mRNA decapping/turnover (P-body assembly), and nuclear import, indicating a cohesive role in RNA maturation, processing, and RNP complex assembly across nuclear and cytoplasmic contexts.","confidence":"High","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006369","count":6},{"id":"GO:0000245","count":6},{"id":"GO:0000290","count":5},{"id":"GO:0042633","count":5},{"id":"GO:0030490","count":5}]},{"hash":"1188406716751469673","title":"Embryonic organ development and morphogenesis","description":"The top GO terms indicate broad developmental roles across multiple organs (female gonad, heart atrial muscle, kidney, uterus, paramesonephric duct) and morphogenetic processes (lamellipodium assembly, anterior head development). Supporting terms like slow endocytic recycling and miRNA-mediated post-transcriptional gene silencing fit into cellular mechanisms that enable regulated development. Together, they point to a cluster of proteins involved in embryonic organogenesis and tissue morphogenesis.","confidence":"High","size":13,"edges":49,"triangles":81,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008585","count":9},{"id":"GO:0055011","count":7},{"id":"GO:0030579","count":7},{"id":"GO:0032458","count":7},{"id":"GO:0035195","count":7}]},{"hash":"1751000240601791558","title":"Glycosaminoglycan biosynthesis and xenobiotic metabolism","description":"The top GO terms point to heparan sulfate proteoglycan (a glycosaminoglycan) biosynthesis together with a set of metabolic/catabolic processes for xenobiotics and small molecules (e.g., flavonoids, estrogens, catecholamines, ethanol, bile acids). This suggests a theme around extracellular matrix glycosaminoglycan assembly coupled with broader metabolic/detoxification activities, rather than a single narrowly defined pathway.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030210","count":3},{"id":"GO:0006805","count":3},{"id":"GO:0015015","count":3},{"id":"GO:0015012","count":3},{"id":"GO:0009812","count":3}]},{"hash":"598368298683327877","title":"DNA replication and mitotic cell cycle machinery","description":"The top GO terms point to nuclear DNA maintenance and division (DNA replication, mitotic cell cycle, DNA-templated transcription, DNA repair, mitotic chromosome dynamics), with supporting signals like telomerase regulation and nuclear transport control, suggesting a core replication/mitosis protein cluster. A few unrelated terms (e.g., biofilm formation) are present but do not override the dominant theme.","confidence":"High","size":13,"edges":46,"triangles":73,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006260","count":13},{"id":"GO:0000278","count":13},{"id":"GO:0006351","count":13},{"id":"GO:0051973","count":13},{"id":"GO:0006281","count":13}]},{"hash":"506061710380748562","title":"Intracellular trafficking and lipid localization","description":"The top GO terms cluster around endosomal trafficking to lysosomes, lipid localization, and cardiolipin metabolism, pointing to a core theme of membrane trafficking and lipid handling within cells. While there are some development and immune-related terms scattered in the set, the strongest signals emphasize intracellular transport and lipid-associated processes, justifying a name centered on these functions.","confidence":"Medium","size":13,"edges":74,"triangles":244,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0048364","count":4},{"id":"GO:0008333","count":3},{"id":"GO:0010876","count":3},{"id":"GO:1903905","count":3},{"id":"GO:0072249","count":3}]},{"hash":"1372126269286491853","title":"Mitochondrial RNA processing and translation","description":"The cluster is dominated by GO terms for rRNA and tRNA methylation, rRNA maturation, transcription initiation and regulation at the mitochondrial promoter, and translation, all pointing to mitochondrial gene expression and RNA processing. A few outliers (e.g., phenazine biosynthetic process) exist but do not override the central mitochondrial RNA/translation theme.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006479","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0010801","count":2},{"id":"GO:0000462","count":1},{"id":"GO:0006391","count":1}]},{"hash":"846237496499665659","title":"Neural development and Notch signaling","description":"The cluster is dominated by GO terms related to nervous system development, neuron development, auditory receptor cell fate specification, spinal cord patterning (floor plate development, cell fate specification), and Notch signaling, plus transcriptional regulation terms common in developmental programs. While a term about metanephric nephron morphogenesis appears, the overall theme is neurodevelopment and sensory specification driven by transcriptional control. Confidence: High","confidence":"","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0042667","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0045668","count":8},{"id":"GO:0007219","count":8}]},{"hash":"436753561589392809","title":"DNA Repair and Chromosome Dynamics","description":"The top GO terms indicate roles in DNA maintenance (unwinding, repair, recombination) and chromosome handling (mitotic spindle separation and meiotic spindle orientation), with additional RNA quality control (nonsense-mediated decay). Even though several terms are obsolete, the common theme ties genome stability to chromosome dynamics and division processes.","confidence":"Medium","size":13,"edges":14,"triangles":3,"max_degree":6,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0032508","count":6},{"id":"GO:0000184","count":5},{"id":"GO:0042766","count":4},{"id":"GO:0090305","count":3},{"id":"GO:0044806","count":3}]},{"hash":"1747651332364126540","title":"Ubiquitin-Dependent Immune Signaling","description":"Dominant GO terms indicate ubiquitin-dependent protein catabolic processes, various ubiquitin linkages (K6, K63), autoubiquitination, and ubiquitin-mediated ERAD, together with innate immune response and NF-kappaB signaling. The convergence on protein turnover and immune pathway regulation suggests a cluster of proteins involved in ubiquitin-driven control of innate immunity and TNF/NF-\u03baB signaling.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:1903265","count":6},{"id":"GO:0060546","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0030433","count":5}]},{"hash":"1786781675470584432","title":"Cerebellar development and neural differentiation with mitotic regulation","description":"The top GO terms highlight cerebellar cortex formation and Bergmann glial differentiation, together with mitosis-related processes such as G2/M transition and kinetochore localization, suggesting a cluster centered on cerebellar neural development and cell cycle control. Some terms (T cell signaling, insulin signaling) are peripheral, but the core theme appears to be brain development and neural differentiation with mitotic regulation.","confidence":"Medium","size":13,"edges":69,"triangles":204,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034501","count":8},{"id":"GO:0045736","count":8},{"id":"GO:0000086","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0060020","count":6}]},{"hash":"977115082655571276","title":"Embryonic Morphogenesis and Patterning","description":"The cluster centers on diverse embryonic development and tissue morphogenesis processes (palatal and mesoderm development, left-right patterning, EMT in heart formation, cartilage and hair follicle morphogenesis, placenta-related differentiation), indicating a coherent theme of embryonic morphogenesis and patterning rather than a single pathway.","confidence":"High","size":13,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":12},{"id":"GO:0007498","count":11},{"id":"GO:0010957","count":11},{"id":"GO:0060972","count":11},{"id":"GO:1903026","count":11}]},{"hash":"1420866819736176823","title":"Developmental Signaling and Cell Fate Regulation","description":"This cluster aggregates terms tied to cell signaling pathways and fate decisions, including apoptotic processes, Wnt and Hippo signaling, keratinocyte differentiation, and immune/neuronal signaling (T cell receptor and glutamatergic transmission). While there is an outlier plant ABA pathway term, the dominant pattern points to signaling networks that govern differentiation, proliferation, and cell fate across tissues.","confidence":"High","size":13,"edges":27,"triangles":34,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":11},{"id":"GO:0060044","count":11},{"id":"GO:0030216","count":11},{"id":"GO:0090263","count":11},{"id":"GO:0035329","count":11}]},{"hash":"873838508591990920","title":"Atrial Cardiac Electrophysiology and Potassium Transport","description":"The cluster centers on membrane repolarization during atrial cardiac muscle cell action potential, potassium ion import/transport, and regulation of resting membrane potential and heart rate via cardiac conduction, indicating a cohesive module of cardiac electrical activity and potassium handling. Some terms like sensory perception of pain, diet-induced thermogenesis, and touch are peripheral annotations and not central to the core theme. Overall, the dominant signal points to atrial electrophysiology with potassium transport.","confidence":"High","size":13,"edges":8,"triangles":1,"max_degree":3,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0098914","count":9},{"id":"GO:1990573","count":8},{"id":"GO:0086002","count":8},{"id":"GO:0060075","count":8},{"id":"GO:0086091","count":8}]},{"hash":"1293876402624408236","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":2},{"id":"GO:0001782","count":2},{"id":"GO:0060669","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0002047","count":1}]},{"hash":"1052260429184813087","title":"Immune and nervous system signaling","description":"The cluster centers on immune-related processes (defense response to bacterium, T cell differentiation) and signaling pathways, including GPCR-cGMP signaling and prostaglandin response, plus nervous system\u2013associated processes (prepulse inhibition, serotonin secretion, heart rate regulation). This suggests a coherent theme of immune signaling intertwined with neuroendocrine regulation, even though a few terms (saliva secretion, cell wall breakdown) are peripheral. ","confidence":"Medium","size":13,"edges":76,"triangles":265,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016998","count":10},{"id":"GO:0042742","count":10},{"id":"GO:0006468","count":10},{"id":"GO:0046541","count":10},{"id":"GO:0060134","count":10}]},{"hash":"807344540035310491","title":"Differentiation and maturation regulation","description":"The GO terms cluster around developmental outcomes such as erythrocyte differentiation, primitive erythrocyte differentiation, and neuron maturation, with additional hints of stem cell proliferation regulation and epigenetic regulation via histone modification (even if some terms are obsolete). This suggests the proteins collectively influence differentiation and maturation processes across lineages, rather than a single metabolic or signaling pathway.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0071320","count":2},{"id":"GO:0034720","count":2},{"id":"GO:0045648","count":2},{"id":"GO:0016575","count":2}]},{"hash":"1959647603944470636","title":"Genomic stability and cell cycle control","description":"The cluster\u2019s top terms cluster around mitosis exit, chromosome segregation, nucleotide-excision repair, SCF/ubiquitin-proteasome\u2013mediated proteolysis, and apoptosis, which together point to maintenance of genomic integrity and regulation of the cell cycle as the core theme. While immune signaling terms (T cell receptor signaling, NF-kappaB) and viral process appear among the terms, they likely reflect multifunctional proteins rather than the primary function of the cluster.","confidence":"Medium","size":13,"edges":40,"triangles":84,"max_degree":9,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0010976","count":11},{"id":"GO:0050852","count":11},{"id":"GO:0006915","count":10},{"id":"GO:0006348","count":10},{"id":"GO:0010458","count":9}]},{"hash":"1761614340734717090","title":"Muscle membrane trafficking and organelle dynamics","description":"This cluster centers on endosome organization, receptor internalization, endocytic recycling, and Golgi retention, plus organelle remodeling such as mitochondrion localization and peroxisome fission. The presence of muscle-related processes (myoblast fusion, muscle adaptation) suggests these trafficking and organelle dynamics are relevant in muscle context, with oligomerization as a supporting mechanism.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":9},{"id":"GO:2001137","count":5},{"id":"GO:0098884","count":5},{"id":"GO:0007032","count":5},{"id":"GO:1903526","count":5}]},{"hash":"1421923641277307678","title":"Craniofacial and neural crest development","description":"The top GO terms point to embryonic development with emphasis on craniofacial formation (roof of mouth development, odontogenesis) and neural crest\u2013related processes (neural crest cell migration), along with related brain structure development (hypothalamus, habenula) and early embryogenesis (primitive streak). This pattern suggests a coherent cluster of proteins involved in craniofacial and neural crest\u2013driven development, with some broader developmental roles.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0090190","count":4},{"id":"GO:0042475","count":4},{"id":"GO:0001755","count":4}]},{"hash":"1273944898291408394","title":"Dopamine/adrenergic GPCR signaling and vision","description":"The cluster is dominated by GO terms tied to GPCR signaling activated by dopamine and adrenergic receptors (adenylate cyclase and phospholipase C pathways), along with phototransduction and visual learning. This points to a shared function in GPCR-mediated neural signaling linked to vision, with additional context from GTPase regulation and phosphatidylinositol biosynthesis. A heart development term is present but appears less central to the core theme. ","confidence":"High","size":13,"edges":43,"triangles":89,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0010513","count":8},{"id":"GO:0043950","count":8},{"id":"GO:0060158","count":8}]},{"hash":"231824400183792974","title":"Rab GTPase signaling in neural and immune development","description":"Centered on Rab protein signal transduction, this cluster appears to be driven by Rab GTPases that regulate vesicle trafficking. The mix of neural development terms (substantia nigra development, auditory receptor morphogenesis) with immune-related terms (macrophage differentiation, complement-dependent cytotoxicity) suggests Rab-regulated signaling impacting both neural and immune contexts, with broader roles in cytokinesis, cell proliferation, and polarity. This makes the suggested label a reasonable, specific summary of the cluster\u2019s functional theme.","confidence":"Medium","size":13,"edges":61,"triangles":147,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032482","count":13},{"id":"GO:0050771","count":13},{"id":"GO:0021762","count":13},{"id":"GO:0008283","count":13},{"id":"GO:0010738","count":12}]},{"hash":"248711477234361538","title":"Immune signaling and GTPase-driven cytoskeletal dynamics","description":"Many terms point to immune signaling (IL-7 response, IL-4 production, B cell affinity maturation) and to cytoskeletal remodeling driven by small GTPases (Rho/Ras) with lamellipodium assembly and GTPase-mediated signal transduction. While insulin-related signaling appears, the dominant pattern is immune communication coupled with actin-based migration, justifying a label focused on immune signaling linked to cytoskeleton dynamics.","confidence":"High","size":13,"edges":3,"triangles":1,"max_degree":2,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0048009","count":7},{"id":"GO:2001275","count":7},{"id":"GO:0046580","count":6},{"id":"GO:0007264","count":6},{"id":"GO:0030032","count":6}]},{"hash":"1746545212939812395","title":"TGF-beta and Integrin Signaling in Cell Adhesion and Migration","description":"The top GO terms cluster around cellular response to TGF-beta, integrin-mediated signaling, cell adhesion/spreading, and actin cytoskeleton dynamics, all of which are core to adhesion and migration processes, including blood vessel development and distal tip cell movement. Although some terms touch broader contexts, the dominant theme is ECM signaling coordinating adhesion, cytoskeletal remodeling, and migratory behavior, making this label representative of the group.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071560","count":6},{"id":"GO:0007229","count":6},{"id":"GO:0001568","count":6},{"id":"GO:0034446","count":6},{"id":"GO:1903356","count":5}]},{"hash":"1365091024366081005","title":"RNA splicing and stress granule regulation","description":"Proteins in this cluster are enriched for spliceosome-mediated mRNA processing (splicing, mRNA regulation by ncRNA), stress-responsive mRNA stability, and localization to cytoplasmic stress granules, along with regulation of translational initiation. This supports a cohesive theme of RNA processing and stress-related translational control.","confidence":"High","size":13,"edges":15,"triangles":4,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":9},{"id":"GO:0048026","count":9},{"id":"GO:1901407","count":6},{"id":"GO:0010610","count":6},{"id":"GO:0000398","count":5}]},{"hash":"206191807217328068","title":"Ubiquitin-Dependent Degradation and Autophagy","description":"The top GO terms are dominated by ubiquitin-mediated protein catabolic processes (including ERAD) and related ubiquitination, plus autophagy, which together point to protein turnover and quality control pathways as central to this cluster. A few terms (vitamin D response, histone modification regulation, V(D)J recombination, cardiac ion-channel regulation) appear less connected and may reflect annotations that are peripheral or multifunctional. Overall, the core signals support a label centered on ubiquitin-dependent degradation and autophagy, with some noise from secondary associations.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0033280","count":9},{"id":"GO:2000620","count":8},{"id":"GO:0070512","count":8},{"id":"GO:0085020","count":8}]},{"hash":"865440970470026707","title":"Embryonic Development and Morphogenesis","description":"The terms cluster around broad embryogenesis and tissue morphogenesis across multiple organ systems (cartilage, palate, heart/endocardial cushion EMT, placenta, left-right patterning, mesoderm, pancreatic endocrine development). This suggests the proteins in this cluster participate in general developmental programs rather than a single pathway, justifying a label focused on embryonic development and morphogenesis.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":8},{"id":"GO:0060021","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0032298","count":8}]},{"hash":"1873839824002086204","title":"Neural Development and Synapse Assembly","description":"The top terms cluster around nervous system development, peripheral nervous system development, myelination, and regulation/positive regulation of synapse assembly, with supporting hints from cell adhesion and Hedgehog signaling (Smoothened). These collectively point to neural development and synapse formation as the core theme, despite a few outliers like ossification and symbiont entry terms.","confidence":"High","size":13,"edges":14,"triangles":1,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0043931","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0051965","count":7}]},{"hash":"2174764637096186852","title":"Embryonic development and organogenesis","description":"The terms point to developmental processes across multiple tissues (cartilage morphogenesis, left-right patterning, placenta/trophoblast differentiation, EMT in heart cushion formation, endocrine system development), indicating a cohesive theme of embryonic development and organ formation; a couple of more general terms about transcription/translation regulation are likely ancillary. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":8},{"id":"GO:0000055","count":7},{"id":"GO:0060536","count":7},{"id":"GO:1903026","count":7},{"id":"GO:0035270","count":7}]},{"hash":"1883576810278106647","title":"RNA processing and translation regulation","description":"The top terms point to post-transcriptional control: mRNA stability regulation in stress, ncRNA-mediated gene silencing, spliceosome-mediated splicing, regulation of translational initiation and reinitiation, and poly(A) tail dynamics. This suggests a cohesive cluster focused on RNA processing and controlling gene expression at the mRNA level, rather than transcriptional or protein-level processes.","confidence":"High","size":13,"edges":46,"triangles":85,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0031047","count":9},{"id":"GO:1903586","count":8},{"id":"GO:0006446","count":8},{"id":"GO:0001825","count":8}]},{"hash":"1551245566945728973","title":"Unknown","description":"The GO terms span nuclear processes (transcription, splicing, Cajal body organization) and cytoplasmic trafficking, plus several species-specific developmental and signaling terms, with no clear single function tying them together. This makes a coherent, representative label difficult to justify.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0021942","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0030576","count":1}]},{"hash":"1515893250481307817","title":"Immune signaling and synapse development","description":"The cluster is enriched for immune-related terms (innate immune response, B cell receptor signaling, activated T cell proliferation) as well as neuronal/synaptic terms (dendritic spine morphogenesis, ephrin receptor signaling, positive regulation of synapse assembly, canonical Wnt signaling). The combination suggests a group of proteins involved in broader cell signaling with roles in both immune activation and synapse development.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0050853","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0048013","count":5}]},{"hash":"1269382218607746633","title":"Signaling-Driven Morphogenesis","description":"This cluster\u2019s GO terms cluster around signaling pathways (TORC1, EGFR, GTPase regulation) and processes that shape or develop tissues (stress fiber/cytoskeletal dynamics, phagocytosis, branching morphogenesis, thymus development, endothelial proliferation). Although some terms are diverse (e.g., social behavior), the dominant theme is how signaling controls cell behavior, movement, and tissue morphogenesis. Therefore a concise label focusing on signaling-regulated morphogenesis is appropriate.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":2},{"id":"GO:0001935","count":2},{"id":"GO:0035176","count":2},{"id":"GO:0045945","count":2},{"id":"GO:0006909","count":2}]},{"hash":"75985716667762268","title":"Neuronal development and synapse assembly","description":"Top GO terms are dominated by nervous system development, neuron differentiation, axon guidance, dendrite self-avoidance, and cell adhesion related to synapse formation, indicating a theme of neuronal development and synaptic organization. Although there is one outlier term for complement activation, the recurring terms describe the growth and patterning of neurons and their synapses, supporting a label focused on neural development and synaptic assembly.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0007157","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0021859","count":8},{"id":"GO:0001501","count":8}]},{"hash":"944736020322144165","title":"Actin cytoskeleton remodeling and cell spreading","description":"This cluster is dominated by GO terms tied to actin dynamics and cell migration, including Arp2/3 complex\u2013mediated nucleation, lamellipodium assembly, barbed-end actin capping, and Rho signaling regulation, plus adhesion-dependent substrate spreading. While there are some terms related to transcription and development, the strongest signal is cytoskeletal regulation and motility, making this a coherent cluster for actin remodeling processes.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":2},{"id":"GO:1903526","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0051146","count":2}]},{"hash":"1897213681435216173","title":"B cell and oligodendrocyte differentiation","description":"The top terms include B cell differentiation (B-1a and follicular B cells) and oligodendrocyte differentiation, indicating a shared theme around differentiation of immune and neural cell lineages. Other terms point to cellular responses to stimuli, which makes the connection looser, so the label emphasizes the strongest signal (differentiation) but with moderate confidence.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900122","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0048709","count":2},{"id":"GO:0071260","count":2},{"id":"GO:2000344","count":1}]},{"hash":"802314341077934714","title":"Dexamethasone-responsive transcription regulation","description":"This cluster is anchored by the cellular response to dexamethasone and multiple terms about transcription regulation by RNA polymerase II, including both positive and negative regulation, plus chromatin-related processes (nucleosome assembly and histone acetylation). Together these suggest a coordinated response where glucocorticoid signaling modulates gene expression through transcriptional control and chromatin remodeling. Some terms about apoptosis, axonal fasciculation, and muscle satellite cell maintenance hint broader stress and developmental effects but do not outweigh the core transcription/epigenetic theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071549","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0007413","count":2},{"id":"GO:0000122","count":1}]},{"hash":"1391620413676064669","title":"Heat shock and immune activation","description":"We see a shared theme of stress-induced proteostasis (protein refolding, chaperone-mediated assembly, heat/cadmium response) alongside immune-related activity (B cell cytokine production, T cell\u2013mediated tumor cell response, apoptosis regulation in bone marrow). A couple of terms (telomerase/telomere maintenance and virion assembly) appear less connected and may be incidental. Overall, the cluster seems to center on stress-responsive, proteostasis-linked immune signaling.","confidence":"Medium","size":12,"edges":33,"triangles":43,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0002368","count":3},{"id":"GO:0051973","count":3},{"id":"GO:0051131","count":3},{"id":"GO:0002842","count":3},{"id":"GO:0046686","count":3}]},{"hash":"604803002824312979","title":"Unknown","description":"The top terms span adipogenesis, cell migration, telomere maintenance, mechanotransduction, RNA processing, protein ADP-ribosylation, and immune cell differentiation, with several obsolete GO terms. There is no single cohesive function linking these proteins, making a meaningful, specific label unreliable.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0035994","count":3},{"id":"GO:1904355","count":3}]},{"hash":"433612214363566207","title":"RNAP I\u2013III Transcription Machinery","description":"The top GO terms cluster around transcription across RNA polymerases I, II, and III, including preinitiation complex assembly, elongation, termination, and RNA-templated transcription, with a link to ribosome biogenesis via RNAP I\u2013driven rRNA production, indicating a cohesive transcription-related machinery theme.","confidence":"High","size":12,"edges":48,"triangles":110,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006363","count":1},{"id":"GO:0006366","count":1},{"id":"GO:0051123","count":1},{"id":"GO:0006362","count":1}]},{"hash":"1453775144811482510","title":"NFAT-regulated T cell signaling","description":"This cluster is driven by GO terms pointing to T cell biology and NFAT signaling, including regulation of calcineurin-NFAT signaling, T cell homeostasis, and negative regulation of inflammatory response, suggesting an immune signaling module centered on NFAT pathways. Additional terms related to lymphangiogenesis and extrinsic apoptotic signaling align with immune regulation and vascular homeostasis, while a couple of RNA polymerase II transcription termination terms hint at broader transcriptional regulation. Overall, the dominant pattern supports NFAT-mediated T cell signaling as the core theme.","confidence":"Medium","size":12,"edges":11,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070940","count":2},{"id":"GO:0050728","count":2},{"id":"GO:0030846","count":2},{"id":"GO:0043029","count":2},{"id":"GO:2000002","count":2}]},{"hash":"2220535146993116070","title":"Ribosome biogenesis and rRNA processing","description":"This cluster is dominated by GO terms for ribosomal RNA maturation (SSU/LSU/5.8S) and ribosome subunit biogenesis, indicating a core role in ribosome assembly and RNA processing; additional signals for DNA repair and development are present but less central.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0042273","count":5},{"id":"GO:0000462","count":5},{"id":"GO:0000466","count":5},{"id":"GO:0000463","count":5}]},{"hash":"1224122770947750041","title":"Neurodevelopment and organogenesis","description":"The cluster has strong signals for neural development and neurogenesis (GO:0007399, GO:0022008, GO:0001822) along with several organogenesis terms such as kidney and salivary gland development. There are also apoptosis-related terms (GO:0006915, GO:0043277), and adhesion/migration-related terms (GO:0034446, GO:0043087) that fit with tissue morphogenesis. Taken together, these terms point to a group of proteins involved in developmental programs spanning neural differentiation and broader organ formation, with cell adhesion and signaling modulation supporting these processes.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0022008","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0043277","count":3}]},{"hash":"450740280304174223","title":"Cell Cycle and Protein Quality Control","description":"The cluster includes GO terms for DNA replication, mitotic sister chromatid separation, and cell division, alongside nuclear mRNA export and ER-Golgi vesicle transport, plus ubiquitin-proteasome quality control and ERAD pathways. This combination suggests a theme where cell cycle progression is linked with protein quality control and trafficking, indicating coordinated cellular maintenance during division.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:0051306","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0071630","count":2}]},{"hash":"991864508696067187","title":"Neuronal signaling and behavior regulation","description":"The top GO terms are focused on neural activity and affective states (regulation of behavioral fear response, positive regulation of excitatory postsynaptic potential, determination of affect), suggesting the cluster centers on neuronal signaling and behavioral modulation. Other terms indicate general cellular processes, but the neural/behavioral theme appears dominant, supporting this label as representative though not exclusive.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000822","count":2},{"id":"GO:2000463","count":2},{"id":"GO:1904743","count":2},{"id":"GO:0050894","count":2},{"id":"GO:0060766","count":2}]},{"hash":"905417465478601173","title":"Unknown","description":"The GO terms are scattered across mitosis, vesicle trafficking, signaling, translation regulation, and neuronal plasticity, with several entries marked obsolete. There is no single cohesive function tying these proteins together, so a precise, representative label isn\u2019t supported.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051441","count":2},{"id":"GO:1905705","count":2},{"id":"GO:1902426","count":2},{"id":"GO:0090307","count":2},{"id":"GO:2001125","count":2}]},{"hash":"357775024204754822","title":"Vacuolar Autophagy and CVT Pathway","description":"This cluster is dominated by autophagy-related terms (autophagy of mitochondrion, autophagosome assembly/maturation, autophagosome formation) and vacuole-directed pathways (Cvt pathway, piecemeal microautophagy of the nucleus), with supportive signals from starvation response and protein lipidation. The cohesive theme is autophagy and vacuolar turnover in cells.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0044805","count":5},{"id":"GO:0000422","count":5},{"id":"GO:0006501","count":5},{"id":"GO:0032258","count":5},{"id":"GO:0034727","count":5}]},{"hash":"2265546454453071157","title":"Angiogenesis and Endothelial Tube Formation","description":"This cluster is most coherently tied to vascular development and endothelial morphogenesis, with GO terms like negative regulation of blood vessel remodeling, negative regulation of sprouting angiogenesis, and endothelial tube lumen extension. Additional terms for NFAT signaling regulation and GTPase activity support regulatory control of endothelial behavior. Some isolated terms (e.g., dendritic spine modification) appear as noise, but the vascular-related terms provide a plausible cohesive theme.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0060313","count":1},{"id":"GO:1904425","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0098886","count":1}]},{"hash":"229866851792339221","title":"Vertebrate Development and Gene Regulation","description":"The terms cluster around vertebrate development (forebrain, neural tube closure, skeletal and multicellular development) and gene regulation (DNA-templated transcription, imprinting), with some stress/immune terms present but not central to the theme.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0001501","count":4},{"id":"GO:0001403","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0007275","count":4}]},{"hash":"2095794051541544286","title":"ER Stress\u2013Transcription and Cell Cycle Regulation","description":"The top GO terms reveal a mix of ER unfolded protein response and nuclear processes such as DNA-templated transcription, RNA polymerase II\u2013mediated transcription regulation, cell growth, and the G1/S transition, suggesting a module that links ER stress signaling with transcriptional control and cell-cycle progression. Additional terms related to RNA and chromatin modifications support a broader regulation of gene expression and growth rather than a single enzymatic function. This points to a cohesive theme around stress-responsive transcriptional regulation coupled to the cell cycle, though the connections are not extremely tight, hence a Medium confidence.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030968","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0016049","count":4},{"id":"GO:0036265","count":4}]},{"hash":"2080013967805235148","title":"Defense signaling and skin development","description":"The top GO terms point to immune defense (defense response to Gram-positive bacteria) and signaling (phospholipase C-activating GPCR pathway), with supporting themes of skin development and multicellular growth/development. This suggests a loosely connected set of proteins involved in signaling that governs defense responses in a skin/epidermal context, even though some terms are obsolete and overall connectivity is low. Hence, a label focusing on defense signaling tied to skin development best captures the main theme.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":5},{"id":"GO:0007200","count":4},{"id":"GO:0007568","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0035264","count":3}]},{"hash":"346037244229229596","title":"Gene expression and mitotic spindle regulation","description":"The cluster is dominated by GO terms for RNA processing (mRNA splicing) and transcription, plus components of mitotic spindle assembly and spindle checkpoint processes. This suggests a core theme around regulating gene expression and cell division machinery, with some stress signaling (cadmium, TGF-beta) that can influence these pathways.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0051441","count":2}]},{"hash":"2110771338947455521","title":"Auditory and Neural Development","description":"The top GO terms cluster around neural and auditory development: inner ear development and sensory perception of sound, plus neuron\u2013neuron adhesion and corticospinal tract morphogenesis, suggesting genes involved in the development and wiring of the auditory nervous system. Additional terms on lipid metabolism (cholesterol efflux, fatty acid oxidation) may reflect neuronal membrane biology, while coagulation terms appear less central but could relate to broader developmental processes. Overall, the dominant theme is auditory-neural development.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0010745","count":4},{"id":"GO:0046321","count":4},{"id":"GO:0010875","count":4}]},{"hash":"531484142977838527","title":"Steroid hormone and retinoid metabolism","description":"The cluster is dominated by GO terms for steroid hormones (androgen metabolic process, estrogen biosynthetic process, C21-steroid hormone metabolic process, steroid catabolic process) and retinoids (retinol metabolic process, retinoic acid biosynthetic process), with supporting lipid biosynthesis (sphingolipid biosynthetic process). This points to a cohesive theme of lipid-derived hormone and vitamin A metabolism, despite a couple of outliers (sporulation, antibiotic response).","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008209","count":3},{"id":"GO:0006703","count":3},{"id":"GO:0030435","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0042572","count":3}]},{"hash":"1266944987201896812","title":"Cardiovascular development and ECM signaling","description":"This cluster combines terms linked to heart development, extracellular matrix remodeling, and cell adhesion/migration (hyaluronan metabolism, fibroblast migration, substrate adhesion-dependent spreading) along with vascular/inflammatory signaling (thrombin receptor, prostaglandin response), supporting a theme of cardiovascular development and ECM-mediated cell dynamics.","confidence":"Medium","size":12,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051298","count":2},{"id":"GO:0030500","count":2},{"id":"GO:1900026","count":2},{"id":"GO:0070493","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1924719464562144848","title":"RNA processing and translation control","description":"The top GO terms cluster around regulation of translation initiation (formation of the preinitiation complex, translation reinitiation, and regulation of translational initiation) and RNA processing (spliceosome-mediated splicing and poly(A) tail regulation), indicating proteins involved in post-transcriptional RNA maturation and control of translation. Some terms are obsolete or unrelated (blastocyst formation), but the dominant signal reflects RNA processing and initiation control.","confidence":"Medium","size":12,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":10},{"id":"GO:0002188","count":9},{"id":"GO:1903586","count":8},{"id":"GO:0006446","count":8},{"id":"GO:0001825","count":8}]},{"hash":"789306420507176689","title":"Cardiac and neural development signaling","description":"This cluster\u2019s top GO terms center on developmental processes (heart development; forebrain development; neural tube closure; multicellular organism development) and signaling activities (positive regulation of ERK1/ERK2 cascade; peptidyl-tyrosine autophosphorylation). The combination suggests proteins involved in developmental signaling programs coordinating cardiac and neural formation, with additional neurophysiological signaling indicated by terms like behavioral response to cocaine and prostaglandin stimulus.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0071380","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0030900","count":4}]},{"hash":"492406902493045054","title":"Neuronal development and transcriptional regulation","description":"The GO terms are dominated by neural-related processes (memory, midbrain development, neurotransmitter secretion) and transcriptional regulation (positive/negative regulation of RNA polymerase II), suggesting proteins involved in neural development and control of gene expression. Other terms are broader cellular processes (hypoxia response, apoptosis, digestion) that are less central to the cluster\u2019s core theme, but do not override the neural/transcriptional emphasis. Overall, this cluster seems to reflect neural development and gene regulation activities.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007613","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0007269","count":4},{"id":"GO:0019800","count":4},{"id":"GO:0071456","count":4}]},{"hash":"289257839440448364","title":"Organelle protein import to mitochondria and chloroplasts","description":"Most frequent GO terms point to import of proteins into mitochondrial matrix, mitochondrial inner membrane, and chloroplast stroma, indicating a cluster centered on organelle targeting/biogenesis. Other terms (chromosome segregation, transcription regulation, response signals) are less represented, so the primary theme is organelle protein import, with some auxiliary regulatory signals.","confidence":"Medium","size":12,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032094","count":5},{"id":"GO:0045039","count":4},{"id":"GO:0030150","count":4},{"id":"GO:0045037","count":4},{"id":"GO:0000002","count":4}]},{"hash":"1644029069509853642","title":"Cholesterol Homeostasis and Lipoprotein Clearance","description":"The dominant GO terms point to cholesterol homeostasis and regulation of LDL particle clearance, indicating a core theme around lipid metabolism and lipoprotein handling. Other terms (circadian rhythm, thyroid hormone signaling, keratinocyte migration, developmental processes) appear ancillary or noisy, so the central cluster label centers on lipid regulation rather than a single cohesive multi-pathway function.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000189","count":5},{"id":"GO:1901522","count":4},{"id":"GO:0010988","count":4},{"id":"GO:0042753","count":4},{"id":"GO:0051546","count":4}]},{"hash":"214858724042473709","title":"Neuronal development and signaling","description":"The GO terms center on brain development (cerebellum, hippocampus, cortex layer formation) and axon guidance, with associated signaling (ephrin receptor, STAT phosphorylation) and exocytosis processes, suggesting a cluster of proteins involved in neural development and neuronal communication.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018107","count":2},{"id":"GO:0030517","count":2},{"id":"GO:0021819","count":2},{"id":"GO:0090314","count":2},{"id":"GO:0070059","count":2}]},{"hash":"959820315319820061","title":"Dopaminergic GPCR signaling","description":"The cluster is dominated by GO terms for dopamine receptor signaling that activates adenylate cyclase or phospholipase C via GPCRs, with related adrenergic signaling terms, suggesting a core dopaminergic GPCR signaling theme. Additional terms touching thermogenesis and sensory perception may reflect broader neural regulatory roles, but the central pattern points to dopaminergic GPCR pathways.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0007191","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0002024","count":5}]},{"hash":"491458558844657452","title":"MAPK signaling in development and neural function","description":"Top terms point to MAPK cascades (ERK/JNK) with neural phenotypes (sensory pain perception, behavioral response to cocaine) and developmental processes (multicellular organism development, heart development), suggesting a cohesive cluster of proteins involved in MAPK-mediated signaling that links neural function with development and cytoskeletal dynamics.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0070374","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0046330","count":3},{"id":"GO:0048148","count":3}]},{"hash":"557678667864867936","title":"Retinoic acid signaling and neural development","description":"The top GO terms cluster around retinoid metabolism (9-cis-retinoic acid biosynthetic process, retinol metabolic process) and developmental pathways (neural tube development, inner ear morphogenesis), suggesting a group of proteins involved in retinoic acid signaling guiding neural development and sensory organ formation. Ancillary terms like GABA catabolic and endothelial proliferation likely reflect broader metabolic context but do not override the dominant retinoid-development theme.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0042904","count":11},{"id":"GO:0036293","count":11},{"id":"GO:0006537","count":11},{"id":"GO:0001936","count":11},{"id":"GO:0009450","count":11}]},{"hash":"47591758783097743","title":"Spliceosome Assembly and RNA Processing","description":"The cluster is strongly enriched for RNA-centric functions: mRNA splicing via the spliceosome, spliceosomal complex/snRNP assembly, and related RNA maturation processes including rRNA and tRNA processing, mRNA decapping/processing, and P-body assembly with nuclear import. Although a couple terms touch on cell-cycle aspects (G0 to G1 transition, hair cycle), the dominant signal is RNA processing and splicing machinery, justifying a cohesive RNA processing label.","confidence":"High","size":12,"edges":63,"triangles":193,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":12},{"id":"GO:0000290","count":11},{"id":"GO:0042633","count":11},{"id":"GO:0030490","count":11},{"id":"GO:0008033","count":11}]},{"hash":"1680309052515205224","title":"Ubiquitin-Regulated Innate Immune Signaling","description":"The top GO terms center on defense against Gram-positive bacteria, Nod signaling, NF-kappaB regulation, and ubiquitin-related post-translational modifications, which together suggest a module of proteins that modulate innate immune responses via ubiquitination and related signaling cascades. While some terms like Wnt or histone methylation are less directly tied, the dominant theme is innate immune signaling governed by ubiquitin pathways.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0070431","count":2},{"id":"GO:0016567","count":2}]},{"hash":"82219773193262826","title":"Embryonic organogenesis and placental development","description":"The top GO terms cluster around embryonic development and tissue differentiation, including left/right pattern formation, heart cushion EMT, trophoblast/placental differentiation, cartilage morphogenesis, and endocrine pancreas development. Together these point to a coordinated role in embryogenesis and organ formation, with a few general RNA processing/regulatory terms likely reflecting broader gene expression control during development. High","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":12},{"id":"GO:0003198","count":12},{"id":"GO:0060806","count":12},{"id":"GO:0060707","count":12},{"id":"GO:0060536","count":12}]},{"hash":"466669117331062379","title":"Embryonic Development and Morphogenesis","description":"This cluster shows a cohesive emphasis on developmental processes, including embryogenesis, tissue morphogenesis, left-right patterning, and lineage-specific development (endocrine pancreas, placental-related differentiation). While one term touches ribosome export, the dominant theme ties to development and differentiation rather than metabolism or signaling, suggesting these proteins function together in developmental patterning and organogenesis.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":5},{"id":"GO:0060536","count":5},{"id":"GO:1903026","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0003198","count":5}]},{"hash":"682568352886841132","title":"Lung branching morphogenesis and axon guidance","description":"This cluster centers on lung morphogenesis and neuronal axon guidance, with terms describing lung branching and lateral sprouting as well as serotonergic/dopaminergic axon guidance and PCP-related guidance. Receptor clustering and cell adhesion terms further support coordinated cell signaling and interactions during morphogenesis. Overall, it seems to reflect a morphogenesis-guidance module linking lung development with guidance cues.","confidence":"High","size":12,"edges":57,"triangles":148,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060488","count":10},{"id":"GO:0007213","count":10},{"id":"GO:0036515","count":10},{"id":"GO:0036514","count":10},{"id":"GO:1904938","count":10}]},{"hash":"1879521820351019498","title":"Embryonic Patterning and Organogenesis","description":"The enriched GO terms cluster around left/right pattern formation, heart cushion EMT, cartilage morphogenesis, endocrine and pancreatic cell development, and placental differentiation, all pointing to embryonic development and tissue/organ formation.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0060806","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0060536","count":7}]},{"hash":"428855348879809611","title":"Embryonic development and tissue morphogenesis","description":"This cluster centers on developmental processes across embryogenesis, including eye morphogenesis, mesoderm formation, somitogenesis, forebrain proliferation, endothelial and smooth muscle differentiation, and pigmentation. The enrichment of signaling and differentiation terms suggests a cohesive theme of early tissue development, despite a few outlier terms such as adaptive immune response.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048596","count":2},{"id":"GO:0007498","count":1},{"id":"GO:0010224","count":1},{"id":"GO:0045602","count":1},{"id":"GO:0090243","count":1}]},{"hash":"1262157509428127257","title":"Negative Regulation of Signaling and Gene Expression","description":"The top GO terms point to down-regulation or modulation across diverse processes: NF-kappaB signaling, translational initiation, miRNA-mediated gene silencing, receptor internalization, and cellular responses like IL-1 signaling. There are also neural-plasticity-related terms (olfactory learning, long-term potentiation), all centered on suppression or fine-tuning rather than activation, with a few less direct connections. This suggests a cohesive theme of negative regulation across signaling and gene expression, hence the label. Confidence: Medium","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042051","count":2},{"id":"GO:0043007","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0071347","count":2},{"id":"GO:0002091","count":2}]},{"hash":"133098325138189864","title":"Neural development and synapse formation","description":"The cluster is dominated by terms related to neural development and synapse biology: regulation of synapse assembly, cell adhesion (homophilic and heterophilic), axon guidance, and nervous system development, with signaling inputs from Hedgehog (smoothened) and ERK cascades. This points to a cohesive theme of neural patterning and synapse formation, despite a few outlier terms like kidney development and ossification present in the set.","confidence":"Medium","size":12,"edges":15,"triangles":0,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051963","count":8},{"id":"GO:0046718","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0001822","count":7}]},{"hash":"1293241397080230785","title":"GTPase-driven neuronal development and synaptic signaling","description":"This cluster centers on nervous system development and synaptic function, with strong representation of small GTPase\u2013mediated signaling, regulation of GTPase activity, and dendritic spine development. Vesicle trafficking between ER and Golgi and adhesion-related processes align with neuronal growth and synaptic formation, reinforcing a theme of GTPase-regulated neuronal development and synaptic signaling.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":5},{"id":"GO:0007264","count":5},{"id":"GO:0060999","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0090162","count":4}]},{"hash":"63304737290280804","title":"Developmental signaling and cell migration","description":"The cluster is enriched for GO terms linking cell migration, signaling (integrin, GTPase), and developmental processes such as heart and cranial skeletal development, along with Wnt pathway modulation and proliferation/apoptosis balance. This suggests a group of proteins involved in guiding tissue morphogenesis through signaling cues and cell movement.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016477","count":6},{"id":"GO:0043065","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0090090","count":5},{"id":"GO:0008285","count":5}]},{"hash":"899371919562535675","title":"Neuronal vesicle trafficking and membrane turnover","description":"The top GO terms converge on synaptic vesicle maturation and exocytosis, neurotransmitter release, endosome-to-lysosome transport, and autophagy, with additional references to plasma membrane repair and brain development. This pattern points to a cohesive set of neuronal proteins involved in vesicle trafficking at synapses and broader membrane remodeling/turnover, integrating both secretory and degradative pathways. ","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0001778","count":4},{"id":"GO:0006914","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0016188","count":3},{"id":"GO:0008333","count":3}]},{"hash":"1741692529089135533","title":"Unknown","description":"The top GO terms span immune-related processes (neutrophil chemotaxis, respiratory burst regulation, response to muramyl dipeptide) as well as developmental and muscle/heart-related processes (midbrain morphogenesis, cell morphogenesis, microspike assembly, M-band localization, adrenergic signaling in heart). There is no single cohesive function linking these terms, and the cluster shows no internal edges, suggesting a heterogeneous or noisy set rather than a distinct biological module.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060268","count":3},{"id":"GO:0090307","count":3},{"id":"GO:1904693","count":3},{"id":"GO:0030593","count":3},{"id":"GO:0000902","count":3}]},{"hash":"944802518296645779","title":"Nuclear Telomere Maintenance and RNA Processing","description":"This cluster centers on telomere biology, including telomerase-mediated telomere maintenance, telomere-telomerase complex assembly, and regulation of telomere capping, alongside nuclear RNA metabolism processes such as mRNA export, nonsense-mediated decay, and RNA stability. The presence of G-quadruplex DNA formation and meiotic spindle terms suggests additional nuclear DNA structure and division-related themes, but the dominant signal is nuclear telomere regulation intertwined with RNA processing.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055072","count":2},{"id":"GO:1904354","count":1},{"id":"GO:0007004","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0000184","count":1}]},{"hash":"2180688681270431136","title":"Coagulation and vascular inflammatory response","description":"The top GO terms cluster around blood coagulation, inflammatory response, vasoconstriction, and regulation of smooth muscle; together they point to proteins involved in vascular inflammation and coagulation processes, with a few peripheral terms (saliva secretion, visual learning) likely due to broader cellular roles or annotation noise, while energy-related terms (electron transport) may reflect metabolic demand in active cells.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0046541","count":5},{"id":"GO:0032496","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0045986","count":5}]},{"hash":"708409591721479943","title":"Signaling Regulation and Differentiation","description":"This cluster seems to group proteins involved in regulating signaling pathways (ephrin receptor signaling and receptor localization at synapses) and differentiation-related processes (epithelial cell polarity and maturation, follicular dendritic cell differentiation), with supporting roles in mRNA processing and telomere maintenance regulation, suggesting a broader theme of regulated signaling linked to cell fate and growth.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901187","count":6},{"id":"GO:1900383","count":6},{"id":"GO:0016049","count":6},{"id":"GO:0006397","count":6},{"id":"GO:0002268","count":5}]},{"hash":"53383471936718082","title":"Epidermal differentiation and apoptosis signaling","description":"The GO terms cluster around programmed cell death, keratinocyte differentiation, and key signaling pathways (Wnt, Hippo, JNK) that regulate epithelial cell proliferation and fate, with supporting processes in protein turnover and trafficking. This points to a cohesive module governing epidermal differentiation and apoptosis, despite one outlier term. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006915","count":9},{"id":"GO:0060044","count":9},{"id":"GO:0030216","count":9},{"id":"GO:0090263","count":9},{"id":"GO:0035329","count":9}]},{"hash":"715445040279188205","title":"Neural synaptic signaling and plasticity","description":"Top terms are dominated by neural function: vocalization behavior, sensory perception of light stimulus, excitatory postsynaptic potentials, and long-term synaptic depression, along with positive regulation of synapse structural plasticity. While a couple terms touch centrosome localization, the strongest signals describe neuronal communication and synaptic plasticity, supporting a label focused on neural synaptic signaling.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071625","count":5},{"id":"GO:0070433","count":4},{"id":"GO:0097291","count":3},{"id":"GO:1904781","count":3},{"id":"GO:0051835","count":3}]},{"hash":"934355214223961592","title":"Neuronal synaptic signaling and plasticity","description":"These proteins show enrichment for GO terms tied to synaptic function and plasticity, including chemical synaptic transmission, regulation of short-term neuronal synaptic plasticity, and dendritic spine development, as well as GABA transport. This points to a neural communication cluster with components involved in inhibitory signaling and synaptic remodeling. Occasional non-synaptic terms like transcription and cell volume homeostasis likely reflect broader housekeeping roles or annotation noise, but the dominant theme is neuronal synaptic activity.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007268","count":1},{"id":"GO:0060996","count":1},{"id":"GO:0006884","count":1}]},{"hash":"967238814395164734","title":"RNA-mediated gene expression regulation and chromatin remodeling","description":"The dominant GO terms point to transcriptional regulation (negative regulation of transcription by RNA polymerase II), chromatin remodeling, and ncRNA-mediated post-transcriptional gene silencing, suggesting a core function in regulating gene expression at epigenetic and RNA levels. Some terms also imply neuronal or behavioral contexts, but these may reflect downstream effects or broader regulatory roles. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":1},{"id":"GO:0090502","count":1},{"id":"GO:0042321","count":1},{"id":"GO:0016246","count":1},{"id":"GO:0007630","count":1}]},{"hash":"835782878761393100","title":"Magnetoreception and circadian rhythm","description":"The top GO terms cluster around magnetism and light sensing (response to magnetism, detection of light stimulus involved in magnetoreception) and circadian processes (circadian regulation of calcium oscillation, locomotor rhythm, negative regulation of circadian rhythm), suggesting these proteins participate in magnetoreception-linked circadian signaling, with some ancillary metabolic terms.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071000","count":1},{"id":"GO:0010617","count":1},{"id":"GO:0050980","count":1},{"id":"GO:0045475","count":1},{"id":"GO:0019915","count":1}]},{"hash":"2175770183097627637","title":"Retroviral integration and proviral latency","description":"The top GO terms cluster around viral-host interactions\u2014viral entry into the host cell and nucleus, reverse transcription (RNA-templated DNA synthesis), DNA integration, and establishment of integrated proviral latency\u2014titting a retrovirus-like life cycle. A few non-viral terms appear as noise, but the core signal points to retroviral genome integration and latency.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0039651","count":2},{"id":"GO:0006278","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0075732","count":2},{"id":"GO:0046718","count":2}]},{"hash":"1261870646634907752","title":"Embryonic Development and Morphogenesis","description":"This cluster appears to group proteins involved in tissue and organ development and morphogenesis across different systems (atrial cardiac muscle differentiation, renal vesicle morphogenesis, uterine epithelium and paramesonephric duct development, anterior head development, and pole plasm/oskar mRNA localization). It also includes processes tied to cell movement and gene regulation (lamellipodium assembly, endocytic recycling, and miRNA-mediated silencing), supporting a broader developmental/morphogenetic theme rather than a single pathway.","confidence":"Medium","size":11,"edges":13,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055011","count":4},{"id":"GO:0030579","count":4},{"id":"GO:0032458","count":4},{"id":"GO:0035195","count":4},{"id":"GO:0030032","count":4}]},{"hash":"2095891474088902020","title":"Neurodevelopment and Notch signaling","description":"This cluster is dominated by GO terms tied to nervous system and neuron development, including auditory receptor cell fate specification, spinal cord and midbrain-hindbrain patterning, floor plate development, and Notch signaling. The presence of multiple neuron/neural development terms suggests a core function in neural development, with Notch signaling as a central pathway. A few terms related to transcription regulation and a single morphogenesis term for the kidney are less central outliers, but do not outweigh the neural-development theme.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0042667","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0045668","count":8},{"id":"GO:0007219","count":8},{"id":"GO:2000678","count":8}]},{"hash":"708280592294928432","title":"Endocrine hormone response and lipid metabolism","description":"The GO terms cluster around cellular responses to peptide and endocrine hormone stimuli (FSH, peptide hormones) and metabolic processes tied to lipids and related pathways (cholesterol biosynthesis, flavonoid metabolism), indicating a hormone-responsive metabolic protein group. Some terms (IL-8 production, S-nitrosylation) are peripheral annotations but do not override the main hormone/metabolism theme.","confidence":"Medium","size":11,"edges":13,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0018119","count":5},{"id":"GO:0072606","count":5},{"id":"GO:0071372","count":5},{"id":"GO:0071375","count":5},{"id":"GO:0090346","count":5}]},{"hash":"1072706833260275388","title":"Ribosome Biogenesis and Translation","description":"This cluster's top GO terms cluster around ribosomal production and protein synthesis (translation, ribosome biogenesis, ribosome assembly, cytoplasmic translation). A secondary association with the cell cycle is noted, but the core theme is ribosomal function.","confidence":"High","size":11,"edges":10,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042255","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1159057290894062324","title":"Embryonic neural and organ morphogenesis","description":"The cluster centers on developmental processes spanning nervous system formation (neuron commitment to forebrain, spinal cord neuron differentiation, hypothalamus development, oligodendrocyte fate) and morphogenesis of other tissues (myotome, forelimb, renal vesicle) and organ induction, suggesting a shared theme of early embryonic patterning and tissue formation across neural and non-neural lineages.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021902","count":10},{"id":"GO:0001759","count":10},{"id":"GO:0061055","count":10},{"id":"GO:0043524","count":10},{"id":"GO:0021985","count":10}]},{"hash":"728352164479848845","title":"Ubiquitin-Proteasome Mediated Cell Cycle and DNA Repair","description":"The terms cluster around ubiquitin-proteasome pathways (SCF and APC/C\u2013dependent proteolysis, ERAD), cell-cycle processes (mitotic cell cycle, cell division), and DNA damage response (homologous recombination repair, chromatin organization), with ER stress\u2013related apoptosis, suggesting a coherent module linking proteolysis to genome maintenance and cell-cycle control.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0031145","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0000724","count":4},{"id":"GO:0007275","count":4}]},{"hash":"394086502634705839","title":"Embryonic Morphogenesis and Organogenesis","description":"The top GO terms are strongly centered on developmental processes\u2014cartilage morphogenesis, left-right pattern formation, and various organ development terms (endocrine system, palate/rm roof, placenta, heart tissue formation, etc.). This points to a cohesive theme of embryonic tissue morphogenesis and patterning. Some general cellular processes appear but do not define the cluster\u2019s main function. ","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060536","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0060806","count":8},{"id":"GO:0060972","count":8}]},{"hash":"1544937267139670498","title":"Amino acid catabolism","description":"The top GO terms are dominated by catabolic processes for specific amino acids (threonine, alanine, leucine) and related amino-acid degradation pathways, including the Ehrlich pathway to alcohol. This suggests a shared theme of amino acid breakdown across the cluster. Some other terms (retinoic acid metabolism, estradiol response, response to antineoplastic agents) may be peripheral or context-specific, but do not negate the primary signal of amino acid catabolism.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0019518","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0006552","count":2},{"id":"GO:0071392","count":2}]},{"hash":"1376154517697737952","title":"RNA processing and antiviral regulation","description":"The cluster is dominated by RNA metabolism and post-transcriptional control terms: translation and rRNA processing show core gene expression regulation, while adenosine-to-inosine editing, RISC complex assembly, and regulation of viral transcription/replication point to RNA-based regulation and antiviral responses. Some neural/development terms are present but the strongest signature centers on RNA processing and RNA interference/antiviral pathways.","confidence":"Medium","size":11,"edges":44,"triangles":89,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006364","count":3},{"id":"GO:0045071","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1448561864076963730","title":"Mitochondrial gene expression and translation","description":"The top GO terms concentrate on mitochondrial transcription initiation and regulation, maturation and methylation of mitochondrial rRNA and tRNA, and mitochondrial translation/translation initiation, pointing to a module of mitochondrial gene expression and protein synthesis. A couple of outliers (thrombocyte differentiation, nucleosome mobilization) likely reflect incidental annotations rather than core functions.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":1},{"id":"GO:0006391","count":1},{"id":"GO:1903108","count":1},{"id":"GO:0006479","count":1},{"id":"GO:0030488","count":1}]},{"hash":"2068777005283815765","title":"Proteostasis and TLR signaling regulators","description":"This cluster centers on post-translational control of proteins (proteasome-mediated degradation and sumoylation) and modulation of innate immune signaling (MyD88-dependent TLR signaling and TLR3 pathway). Cadmium response suggests stress-related regulatory roles, with some connection to cell cycle/DNA processes (G1/S transition, DNA replication) as broader contextual functions. Overall, it points to proteins that regulate protein turnover while tuning immune signaling pathways.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043433","count":3},{"id":"GO:0032436","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0016925","count":3},{"id":"GO:0034126","count":3}]},{"hash":"2225415278253771991","title":"Diverse Developmental and Cellular Processes","description":"The top GO terms in this cluster span multiple tissue development processes (atrial cardiac muscle cell differentiation, metanephric renal vesicle morphogenesis, uterine epithelium development, paramesonephric duct development, anterior head development) as well as general cellular processes (lamellipodium assembly, slow endocytic recycling, miRNA-mediated post-transcriptional gene silencing) and even an antibiotic biosynthetic process, indicating a heterogeneous set with a leaning toward developmental regulation and cell morphology. This justifies a broad label rather than a narrow function, hence \u201cDiverse Developmental and Cellular Processes.\u201d","confidence":"Medium","size":11,"edges":34,"triangles":43,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0055011","count":4},{"id":"GO:0030579","count":4},{"id":"GO:0032458","count":4},{"id":"GO:0035195","count":4}]},{"hash":"709063757674425187","title":"Ribosome Biogenesis and Translation Regulation","description":"The cluster\u2019s terms center on rRNA maturation (5.8S and LSU), mRNA transport, and regulation of translation (including translational frameshifting and protein autophosphorylation), with TORC1 signaling linking to growth control. While mitotic spindle assembly and brain development appear less directly connected, the dominant theme ties ribosome biogenesis to translational regulation and growth signaling.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0070262","count":3},{"id":"GO:0051028","count":3}]},{"hash":"33112033823027451","title":"Pain and Temperature Sensing Neural Signaling","description":"This cluster is dominated by terms related to neural signaling and sensory processing, especially pain perception (GO:0019233) and temperature stimulus response (GO:0071502), plus associated signal transduction like GTPase regulation, membrane potential regulation, and protein phosphorylation, which together point to neural pathways governing nociception and thermosensation. Additional terms such as defense response to bacterium and saliva secretion appear as broader tissue contexts or multifunctional roles of the proteins, but do not define the core theme. Overall, the cluster seems best described as neural signaling tied to pain and temperature sensing.","confidence":"Medium","size":11,"edges":22,"triangles":9,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0002024","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0042391","count":7}]},{"hash":"173411628166469794","title":"Unknown","description":"The top GO terms span diverse areas: sensory and stress responses (response to cocaine, response to immobilization stress, response to interleukin-1, visual learning, retina vasculature development) alongside metabolic processes and development (cholesterol and polyamine biosynthesis, mitotic cell cycle, juvenile hormone biosynthesis). There is no single coherent biological theme linking these terms, suggesting the proteins may be multifunctional or misannotated; thus no clear cluster function can be assigned beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042220","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0048240","count":4},{"id":"GO:0035902","count":3},{"id":"GO:0061298","count":3}]},{"hash":"584990717111620686","title":"Neural development and dopaminergic neuron differentiation","description":"This cluster is enriched for neural development terms, including forebrain development and midbrain dopaminergic neuron differentiation, suggesting proteins involved in neural lineage specification and brain development. While some terms also touch on cell cycle and ribosome biogenesis, the neural-development theme appears most representative of the cluster\u2019s functional signal.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0046677","count":2}]},{"hash":"1932721697165207572","title":"Glial development and cytoskeletal signaling","description":"Based on GO terms, this cluster centers on glial lineage processes (radial glial scaffold formation, oligodendrocyte differentiation) together with cytoskeletal remodeling and signaling (stress fiber assembly, ERK/MAPK regulation, adhesion). The overlap suggests a module coordinating glial development with cytoskeletal dynamics and cell migration.","confidence":"Medium","size":11,"edges":7,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043149","count":6},{"id":"GO:0033138","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0050975","count":5},{"id":"GO:0016567","count":5}]},{"hash":"1065695222163530095","title":"Unknown","description":"The terms are scattered across oxidation/reduction, detoxification, bone ossification, antibiotic and poly-hydroxybutyrate biosynthesis, smooth muscle proliferation, heart development, pain perception, lymph vessel branching, and memory\u2014covering diverse, unrelated processes with no single shared function. This suggests the cluster does not reflect a coherent molecular theme.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0098869","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0017000","count":2},{"id":"GO:0042619","count":2}]},{"hash":"1582467801250002457","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048339","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0050808","count":2},{"id":"GO:0097067","count":2},{"id":"GO:0006508","count":2}]},{"hash":"496246715898334479","title":"Developmental Morphogenesis Across Tissues","description":"The cluster centers on broad developmental and morphogenetic processes across multiple tissues and organs, including neural development (hypothalamus migration, floor plate, tract formation), vascular and lymphatic development, cardiac, respiratory, hematopoietic differentiation, and prostate morphogenesis. The repeated appearance of terms related to tissue development, EMT regulation, and growth factor signaling (e.g., TGF-beta production) suggests a cohesive theme of developmental regulation rather than a single tissue-specific function.","confidence":"High","size":11,"edges":46,"triangles":104,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0021855","count":11},{"id":"GO:0010719","count":11},{"id":"GO:0033504","count":11},{"id":"GO:0001945","count":11},{"id":"GO:1902691","count":11}]},{"hash":"2142356396662620864","title":"Enteric neural signaling and gut motility","description":"The terms point to nervous system and gut function (peristalsis, enteric nervous system development, regulation of membrane potential, sodium ion transport) with related signaling (ERK cascade) and xenobiotic response. Some outliers (visual learning, mammary gland development, bud neck localization, cardiac proliferation) suggest broader signaling roles, but the core theme centers on enteric neural control of motility.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0030432","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0048484","count":3},{"id":"GO:0008542","count":3}]},{"hash":"1929529187360648642","title":"Proteolysis and protein catabolic processes","description":"Dominant GO terms are proteolysis and protein catabolic process, with protein deglycosylation and some amino-acid catabolism notes, suggesting a theme of protein degradation despite a few unrelated terms.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0006559","count":2},{"id":"GO:0006517","count":2},{"id":"GO:0033345","count":2},{"id":"GO:0030163","count":1}]},{"hash":"1758687381522859632","title":"RNA processing and translation initiation","description":"The proteins in this cluster show strong enrichment for translation-related terms (translation reinitiation, formation of translation preinitiation complex, regulation of translational initiation) along with RNA processing and export processes (mRNA splicing via spliceosome, mRNA export from nucleus, poly(A) tail regulation). This points to a cohesive module linking RNA processing with translation control, though a couple of terms (blastocyst formation, histone deubiquitination regulation) may be incidental. ","confidence":"Medium","size":11,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0006378","count":6},{"id":"GO:0006406","count":6},{"id":"GO:1903586","count":5}]},{"hash":"1576011357928578294","title":"Embryogenesis and Organogenesis","description":"The top GO terms point to broad embryonic development processes, including endocrine system development, mesoderm and cartilage formation, left-right patterning, placental and pancreatic cell development, and tissue differentiation. A unifying theme is early development and organ patterning, with a general splicing term reflecting gene expression activity during these processes.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0060536","count":5}]},{"hash":"1342701747221655396","title":"Embryonic development and patterning","description":"The top GO terms cluster around developmental processes across tissues and organs (heart cushion EMT, placental and pancreatic development, left-right patterning, cartilage morphogenesis, endocrine system development) plus related regulatory activities, suggesting proteins involved in embryogenesis and tissue differentiation rather than a single pathway.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":6},{"id":"GO:0060536","count":6},{"id":"GO:1903026","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0003198","count":6}]},{"hash":"2090483984632505315","title":"Embryonic mesoderm and placental development","description":"The top GO terms cluster around early development: mesoderm formation, left/right patterning, palate/face formation, EMT-related heart cushion formation, and trophoblast/placental differentiation, pointing to embryogenesis with emphasis on mesoderm and extraembryonic lineages. A couple of broader terms exist, but the dominant signal is developmental specification rather than a single tissue type.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":7},{"id":"GO:0003323","count":7},{"id":"GO:0060021","count":7},{"id":"GO:0010957","count":5},{"id":"GO:0060972","count":5}]},{"hash":"1330290445231154402","title":"Mesodermal and craniofacial development","description":"Most of the top GO terms point to tissue morphogenesis and organ formation (mesoderm development, cartilage morphogenesis, hair follicle morphogenesis, roof of mouth development, endocrine system development, epithelial-to-mesenchymal transition in endocardial cushion formation), suggesting a cohesive theme of developmental processes affecting mesodermal and craniofacial structures. A couple of terms (ribosomal export, regulation of transcription/DNA replication) may reflect housekeeping needs or annotation noise rather than a core cluster function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":8},{"id":"GO:0000055","count":8},{"id":"GO:0060536","count":8},{"id":"GO:0031069","count":8},{"id":"GO:0060021","count":8}]},{"hash":"325660382906235905","title":"Amino acid neurotransmitter transport and glycinergic signaling","description":"These proteins show a clear enrichment for amino acid transport (proline, glycine, taurine) and neurotransmitter-related processes, including glycinergic synaptic transmission, serotonin uptake, and dopamine metabolism. While there are some development-related terms (glial growth, pituitary development), the dominant theme is neural amino acid transport and modulation of inhibitory signaling via glycine, which supports this label.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015824","count":3},{"id":"GO:0042066","count":2},{"id":"GO:1903346","count":2},{"id":"GO:0021984","count":2},{"id":"GO:0051610","count":2}]},{"hash":"2036322179439402911","title":"Innate Immune Activation and Xenophagy","description":"These proteins show enriched GO terms related to innate immune responses, including responses to dsRNA and LPS, interferon-beta production, and defense against bacteria, as well as positive regulation of xenophagy (autophagic clearance of pathogens). Additional terms for apoptosis and cell migration point to immune cell remodeling during infection. Overall, the cluster reflects innate immune signaling with autophagic pathogen control, hence the name.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016477","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0006915","count":4},{"id":"GO:1904417","count":4},{"id":"GO:0046827","count":4}]},{"hash":"22560113336447659","title":"Mitochondrial energy metabolism in auditory cells","description":"The top GO terms strongly point to mitochondrial energy production (electron transport, complex II assembly), while several terms reference auditory/vestibular biology (auditory receptor development, sound perception, vestibular reflex). This suggests a cluster centered on mitochondrial function associated with auditory sensory cells, with other terms representing general regulatory processes that can tie into mitochondria. Confidence: Medium","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":1},{"id":"GO:0034553","count":1},{"id":"GO:0070478","count":1},{"id":"GO:0032460","count":1},{"id":"GO:0060117","count":1}]},{"hash":"1873518111649738117","title":"Rho GTPase signaling and actin remodeling","description":"Based on the strong representation of GO terms for Rho/small GTPase signaling and regulation of actin filament binding, this cluster appears to group proteins involved in signaling pathways that control cytoskeleton dynamics via Rho-family GTPases. Additional terms point to related receptor and kinase signaling (e.g., IGF receptor signaling and tyrosine autophosphorylation), suggesting a broader but still cohesive signaling network that influences cytoskeletal organization and associated cellular responses.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007264","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0048009","count":5},{"id":"GO:0010954","count":4}]},{"hash":"1720412700810224609","title":"Unknown","description":"The GO terms cover immune signaling (adaptive immune response, LPS response), JNK pathway regulation, protein phosphorylation and ubiquitination, plus scattered processes such as tip-cell migration, fear behavior, and osteoclast development. The terms do not converge on a single, cohesive function or pathway for all members, so a precise, representative label cannot be reliably inferred.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0071222","count":2},{"id":"GO:0016567","count":2}]},{"hash":"2004974069201166256","title":"DNA Repair and Replication Factors","description":"The cluster is dominated by nuclear genome maintenance processes: DNA replication and various DNA repair pathways (base-excision repair, single-strand break repair, DNA ligation in recombination), along with PARP-mediated poly-ADP-ribosylation and related ATP metabolism, all pointing to a DNA damage response/repair and replication role; mRNA export is secondary but consistent with nuclear processes.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":2},{"id":"GO:0070651","count":2},{"id":"GO:2001170","count":2},{"id":"GO:0006288","count":2},{"id":"GO:0000012","count":2}]},{"hash":"1262236599858233869","title":"Glycinergic signaling and amino acid transport","description":"Top terms cluster around glycine-related transport and synaptic function (glycine import/secretory and glycinergic transmission), along with taurine transport and other neurotransmitter-related processes, indicating a theme of neuronal signaling modulated by amino acid transport. Some terms (e.g., adenohypophysis development) are less connected, but the core appears to be glycine-centric neurotransmission and amino acid transport.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":2},{"id":"GO:0042066","count":1},{"id":"GO:1903346","count":1},{"id":"GO:0021984","count":1},{"id":"GO:0051610","count":1}]},{"hash":"1608302658177514783","title":"Photoreceptor GPCR trafficking and signaling","description":"This cluster is dominated by GO terms related to visual perception and phototransduction (visual perception, photoreceptor maintenance, regulation of opsin-mediated signaling), GPCR internalization and clathrin-dependent endocytosis, and receptor trafficking processes, including GTPase regulation and ER-Golgi transport, pointing to proteins involved in photoreceptor GPCR signaling and trafficking.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0002031","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0072583","count":3},{"id":"GO:0016567","count":3}]},{"hash":"418555771909705964","title":"Unknown","description":"The terms span diverse processes (iron transport/homeostasis, detoxification, ER quality control, signal proteolysis, plant development, immune switching, and an obsolete neurotransmitter term) with no single coherent function linking the proteins. Hence a meaningful, specific label isn\u2019t supported.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0033572","count":2},{"id":"GO:0042135","count":2},{"id":"GO:0006760","count":2},{"id":"GO:0031293","count":2}]},{"hash":"387672255824793465","title":"Proteoglycan and glycan biosynthesis","description":"This cluster is dominated by GO terms for proteoglycan biosynthesis (heparan sulfate, chondroitin sulfate, and heparin proteoglycans) and other glycosylation-related processes, pointing to a common theme of glycan/glycosaminoglycan biosynthesis and post-translational modification. A few terms touch broader carbohydrate metabolism (glucose, starch, sucrose response) and an outlier in bacillithiol biosynthesis, but the core signal is glycan biosynthesis, especially proteoglycans.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":2},{"id":"GO:0030210","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0015012","count":2},{"id":"GO:0050650","count":2}]},{"hash":"1695843405587874414","title":"Embryonic Morphogenesis and Organ Development","description":"The top GO terms point to embryo development and organ formation (inner ear morphogenesis, forelimb morphogenesis, pancreas development, pituitary gland development, and anterior/posterior pattern specification), with metabolic terms appearing less central. This suggests a cohesive theme of embryonic morphogenesis and organogenesis, despite some metabolic annotations.","confidence":"Medium","size":10,"edges":32,"triangles":62,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0009450","count":2},{"id":"GO:0006069","count":2},{"id":"GO:0042472","count":2}]},{"hash":"1252671183890946005","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms for translation (cytoplasmic and mitochondrial), mRNA export, LSU rRNA maturation, and ribosome biogenesis, pointing to a core of protein synthesis machinery and ribosome assembly. The presence of Ran-mediated signaling aligns with nucleocytoplasmic transport relevant to ribosome export. A couple of development terms likely reflect context-specific annotations rather than a core function. Overall, the group appears to represent ribosome-related processes.","confidence":"High","size":10,"edges":31,"triangles":41,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006406","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0001825","count":2}]},{"hash":"415310483231773556","title":"Translation and Ribosome Biogenesis","description":"Based on the top GO terms, the cluster centers on protein synthesis and ribosome assembly: translation, ribosome biogenesis, ribosomal large subunit assembly, regulation of translation, and RISC complex assembly. This points to proteins functioning together in the protein synthesis machinery and RNA processing/regulation. A few unrelated terms likely reflect annotation noise but do not override the dominant translation/RNA-processing theme.","confidence":"High","size":10,"edges":41,"triangles":92,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0071353","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0009615","count":2}]},{"hash":"2027958069349036665","title":"Embryonic patterning and organ morphogenesis","description":"The cluster\u2019s top GO terms cluster around developmental processes across multiple tissues (left-right patterning, heart cushion formation, cartilage morphogenesis, endocrine and pancreatic development, placental differentiation). This suggests a broad embryonic development/morphogenesis theme rather than a specific pathway, hence a label focused on patterning and tissue formation. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":2},{"id":"GO:0009410","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060707","count":2}]},{"hash":"128231598078011757","title":"Neural development and glial fate specification","description":"Top terms center on neural development and glial fate decisions (superior colliculus development, glial cell fate determination, CNS vasculogenesis), suggesting a theme of neural differentiation and lineage specification. Other terms (GTPase activity regulation, transcription regulation, nucleus\u2013vacuole junction assembly, proteasome localization, proton transport) point to broader cellular roles, making the connection only partial. Thus the label reflects the strongest cohesive signal, with limited confidence.","confidence":"Low","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0071562","count":2},{"id":"GO:0061380","count":2},{"id":"GO:0032467","count":2}]},{"hash":"1160979097116009702","title":"Mitotic Chromosome Assembly and Division Machinery","description":"The cluster is dominated by mitosis-related terms (CENP-A chromatin assembly, cell division, mitotic cell cycle, and microtubule severing), pointing to chromosome organization and spindle dynamics as the core theme. Additional terms like ribosome biogenesis and transport processes reflect the biosynthetic needs of proliferating cells but are secondary to the mitotic focus.","confidence":"Medium","size":10,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0061641","count":2},{"id":"GO:0051013","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0051260","count":2}]},{"hash":"152418078554757970","title":"Angiogenesis and Endothelial Tube Formation Signaling","description":"This cluster centers on endothelial tube lumen extension and regulation of sprouting angiogenesis, with related hormone-response signals (growth hormone and luteinizing hormone). Additional terms for ceramide transport and copper homeostasis may reflect membrane trafficking and metabolic context in endothelial cells, but the strongest consistent theme is angiogenesis and vascular development.","confidence":"Medium","size":10,"edges":25,"triangles":36,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006878","count":2},{"id":"GO:0090051","count":1},{"id":"GO:0035621","count":1},{"id":"GO:0071373","count":1}]},{"hash":"929852386387383572","title":"Spliceosome Regulation and Translation Initiation","description":"The GO terms cluster around RNA processing and regulation of gene expression at the RNA level: splicing via the spliceosome, spliceosomal disassembly, regulatory ncRNA-mediated gene silencing, and regulation of mRNA stability, plus signals for ribosome biogenesis and translation initiation. This suggests a cohesive module controlling RNA maturation and the onset of translation, with a few peripheral terms.","confidence":"Medium","size":10,"edges":17,"triangles":21,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:0010610","count":5},{"id":"GO:0042273","count":4},{"id":"GO:0000390","count":4}]},{"hash":"194787911337458330","title":"Embryonic organ morphogenesis","description":"The top GO terms cluster around development and morphogenesis across multiple organs during embryogenesis (forebrain neuronal commitment, pharyngeal system development, inner ear morphogenesis, pancreatic cell differentiation, gonadal and uterus development, ureteric bud branching, and embryonic digestive tract morphogenesis). This suggests a general embryonic organogenesis theme rather than a single tissue-specific pathway, with a note that transcriptional regulation can play a role in these processes.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021902","count":6},{"id":"GO:0060037","count":6},{"id":"GO:0042472","count":6},{"id":"GO:0003309","count":6},{"id":"GO:0008584","count":6}]},{"hash":"480194905527125719","title":"Cerebellar development and neural signaling regulation","description":"This cluster is dominated by GO terms tied to cerebellar development (cerebellar cortex formation, Bergmann glial cell differentiation) and neural signaling pathways (T cell receptor signaling, insulin receptor signaling, ERK/MAPK modulation, axon regeneration). Together they point to neural development in the cerebellum and modulation of intracellular signaling, though one term (negative regulation of T cell signaling) may reflect broader signaling regulation or annotation noise. ","confidence":"Medium","size":10,"edges":34,"triangles":71,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008285","count":7},{"id":"GO:0050860","count":6},{"id":"GO:0070373","count":6},{"id":"GO:0000200","count":6},{"id":"GO:0050852","count":6}]},{"hash":"1029725226340413302","title":"Small-molecule metabolism and xenobiotic response","description":"This cluster shows enrichment for several metabolic processes (carnitine metabolism, fatty acid beta-oxidation, amino acid catabolism/biosynthesis, pyridoxine biosynthesis, lipid A biosynthesis) and includes regulatory/response terms (cellular response to xenobiotic stimulus, miRNA-mediated post-transcriptional gene silencing). The dominant theme is metabolism of small molecules and cofactors, with ancillary regulatory responses, making a metabolism-centric label appropriate.","confidence":"Medium","size":10,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009437","count":3},{"id":"GO:2000324","count":3},{"id":"GO:0033539","count":2},{"id":"GO:0042853","count":2},{"id":"GO:0006564","count":2}]},{"hash":"446468556101881834","title":"Embryonic organ morphogenesis","description":"The top GO terms cluster around development and morphogenesis across multiple embryonic tissues (heart/outflow tract, hindlimb, placenta, habenula, etc.), indicating proteins involved in broad embryonic organ formation rather than a single tissue. This suggests a theme of embryonic organ development and morphogenesis for the cluster.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0048048","count":7},{"id":"GO:0021986","count":6},{"id":"GO:2000288","count":6},{"id":"GO:0035116","count":6}]},{"hash":"532090484261932037","title":"DNA replication and telomere maintenance","description":"The proteins map to processes centered on DNA replication dynamics (recombination, fork reversal, RNA primer removal) and telomere maintenance, with additional signal for mitochondrial DNA repair, suggesting a cohesive role in genome stability during replication and telomere upkeep.","confidence":"High","size":10,"edges":10,"triangles":1,"max_degree":5,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":5},{"id":"GO:0071932","count":4},{"id":"GO:0032508","count":4},{"id":"GO:0044806","count":4},{"id":"GO:1902983","count":4}]},{"hash":"601406889380806706","title":"Developmental gene expression and tissue formation","description":"This cluster mixes transcription (DNA-templated transcription, mRNA processing) and cell-cycle related processes (mitotic cell cycle, centrosome duplication) with several development-related terms (angiogenesis, skeletal system development, layer formation in the cerebral cortex). The common thread appears to be regulation of gene expression during development that drives tissue morphogenesis and growth.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0006915","count":6},{"id":"GO:2000641","count":6},{"id":"GO:0051298","count":6},{"id":"GO:0001403","count":6}]},{"hash":"2073455057073473164","title":"Rho-regulated development and cytoskeleton remodeling","description":"Top terms show a combination of Rho signaling, neural/developmental processes, and actin cytoskeleton dynamics, which points to proteins coordinating morphogenesis via Rho-driven cytoskeletal changes. Additional terms like mRNA processing, transcription, and cell cycle support a role in developmental gene expression and cell proliferation. Together these indicate a cluster centered on development with a cytoskeletal signaling axis.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007266","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0001403","count":3},{"id":"GO:0031532","count":3}]},{"hash":"117500218215857434","title":"Developmental signaling and cell-cycle regulation","description":"The cluster includes GO terms tied to development (heart development, angiogenesis, visual perception) as well as cell-cycle and protein localization/modification processes (mitotic centrosome separation, protein localization to kinetochore, protein phosphorylation, regulation of protein targeting to membrane), suggesting a shared role in coordinating developmental signaling with cell division and protein trafficking.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0007100","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0007118","count":3}]},{"hash":"1532738285366825151","title":"Embryonic organogenesis and morphogenesis","description":"The GO terms cluster around developmental processes across multiple vertebrate organs\u2014hypothalamus, habenula, forelimb, eye, cranial skeleton, dentin tooth, and digestive tract morphogenesis\u2014along with transcriptional regulation during development. This points to a common theme of embryonic organ formation and tissue morphogenesis, justifying a label centered on embryonic organogenesis.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0042475","count":5},{"id":"GO:0021854","count":4},{"id":"GO:0035115","count":4},{"id":"GO:0021986","count":4}]},{"hash":"1662757561370986213","title":"Lung development and surfactant homeostasis","description":"The top GO terms strongly point to lung-related biology, with surfactant homeostasis and lung branching morphogenesis as clear themes, supported by basement membrane remodeling. Thyroid hormone responsiveness may influence maturation, and mitophagy/mitochondrial targeting regulation suggests metabolic adjustments during development. Some terms about neural proliferation and memory appear as less-connected outliers, but the lung-related terms dominate the cluster\u2019s functional signature.","confidence":"Medium","size":10,"edges":16,"triangles":11,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0097067","count":5},{"id":"GO:0050790","count":4},{"id":"GO:0043129","count":4},{"id":"GO:1903146","count":4},{"id":"GO:1903955","count":4}]},{"hash":"1263879528456329565","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0070842","count":8},{"id":"GO:0030433","count":8},{"id":"GO:1903265","count":8},{"id":"GO:0051865","count":8},{"id":"GO:0048536","count":7}]},{"hash":"58401570224402695","title":"Retroviral genome integration and proviral latency","description":"The GO terms point to retroviral life cycle steps: RNA-templated DNA synthesis (reverse transcription), DNA integration, establishment of integrated proviral latency, viral entry/penetration into the host nucleus, and viral release. While some terms show general DNA processing, the combination strongly suggests retroviral genome integration and latent infection as the core theme.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0039651","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0006278","count":2},{"id":"GO:0046718","count":2}]},{"hash":"655490101798289401","title":"Chromatin Remodeling and Histone Modification","description":"The top GO terms cluster around chromatin remodeling, nucleosome disassembly, and histone acetylation, indicating proteins involved in modifying chromatin state and regulating transcription. A few terms relate to development or metabolism and seem incidental, but the strongest common thread is chromatin-based regulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002574","count":1},{"id":"GO:0043044","count":1},{"id":"GO:1900051","count":1},{"id":"GO:0006337","count":1},{"id":"GO:1902661","count":1}]},{"hash":"1143380065496793167","title":"Embryogenesis and organ patterning","description":"Most terms describe embryonic development across diverse organs (palate, cartilage, heart cushion morphogenesis, pancreas, placenta) and left-right patterning, pointing to a shared theme of embryogenesis and organ morphogenesis. A minor term about ribosomal subunit export is more general. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060806","count":5}]},{"hash":"1056639349209294146","title":"Sex Hormone Signaling and Mitotic Regulation","description":"Top GO terms cluster around steroid hormone receptor complex assembly and developmental processes tied to male differentiation, notably prostate gland development and male sex differentiation. They are reinforced by terms for cell division and regulation of the mitotic cell cycle, as well as asymmetric neuroblast division, suggesting a theme of growth and developmental timing. A few terms (innate immune response, ER stress\u2013related translation initiation, non-motile cilium assembly) are present but less central, likely reflecting broader cellular regulation rather than a core function of the cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006463","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0030850","count":4},{"id":"GO:0046661","count":4},{"id":"GO:0051291","count":4}]},{"hash":"144858319097494748","title":"Immune Receptor Signaling and Cytotoxic Differentiation","description":"The top GO terms are dominated by adaptive immune signaling: B cell receptor signaling, Fc receptor signaling, NK cell cytokine production, cytotoxic T cell differentiation, and regulation of NK T cell activation. These point to a cluster characterized by immune receptor\u2013mediated signaling and the development of cytotoxic lymphocyte function. A few terms related to cardiac action potentials, lens morphogenesis, and bone ossification appear, suggesting some noise or pleiotropy, but the core signal aligns with adaptive immune signaling.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0042742","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0060307","count":2},{"id":"GO:0002729","count":2}]},{"hash":"354300697070464707","title":"Rho-Dependent Actin Cytoskeleton Remodeling","description":"This cluster\u2019s top GO terms are dominated by actin cytoskeleton dynamics and Rho-family signaling, including lamellipodium morphogenesis, regulation of Rho GTPase activity, barbed-end actin capping, and GTPase signaling. The presence of PDGF receptor signaling and Fc receptor\u2013related signaling links suggests integration of cytoskeletal remodeling with growth and immune signaling. A minor note is ribosome biogenesis and xenobiotic response, which appear less central to the core theme. Overall, the dominant theme is Rho/GTPase-driven actin remodeling.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000394","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0048008","count":2},{"id":"GO:0060368","count":2},{"id":"GO:0050731","count":2}]},{"hash":"1213725403272732612","title":"Cell\u2013Matrix Adhesion and Basement Membrane Dynamics","description":"This cluster is enriched for GO terms tied to cell\u2013extracellular matrix adhesion, substrate adhesion, and basement membrane development, plus epithelial polarity and cell migration, pointing to a shared role in ECM interaction and tissue architecture. Additional signals like prostaglandin biosynthesis and vitamin D response suggest regulatory inputs that modulate adhesion and remodeling in epithelial contexts; the presence of hepatocyte apoptosis hints at broader tissue homeostasis connections. Overall, the proteins likely coordinate ECM adhesion with basement membrane organization and related signaling.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":3},{"id":"GO:0001516","count":3},{"id":"GO:0019800","count":3},{"id":"GO:0010811","count":3},{"id":"GO:0032836","count":3}]},{"hash":"734497799895081343","title":"Melanin biosynthesis and pigmentation","description":"The cluster is dominated by melanin-related GO terms: melanosome organization, melanin biosynthetic process from tyrosine, pigmentation, and positive regulation of melanin biosynthetic process, pointing to a shared role in pigment production and pigment-containing organelle function. Some terms (translation, tRNA processing) reflect general cellular protein synthesis and may be incidental to the core pigment-related theme, while a few neuroblast-related terms appear less connected. Overall, pigmentation-related processes best explain the cluster\u2019s annotations.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0032438","count":1},{"id":"GO:0006583","count":1}]},{"hash":"288265719297897397","title":"Transcription and signal transduction","description":"The top GO terms show both DNA-templated transcription and multiple signal transduction and regulatory processes (protein autophosphorylation, receptor signaling, cytoskeleton organization, development), suggesting the cluster centers on regulators that link gene expression with signaling pathways rather than a single, narrow function.","confidence":"Medium","size":9,"edges":6,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0046638","count":5},{"id":"GO:0010954","count":5},{"id":"GO:0046826","count":5},{"id":"GO:0048666","count":5}]},{"hash":"1168660449955950975","title":"Neural and hematopoietic differentiation","description":"The top GO terms point to differentiation processes across neural lineages (forebrain commitment, GABAergic neuron differentiation, nerve branching) and hematopoietic lineages (erythrocyte and basophil differentiation, erythrocyte development). While some terms touch on regulatory or immune responses, the dominant theme is the development and specialization of neural and blood cell types, suggesting a cluster of proteins involved in broad differentiation programs across these lineages.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0021902","count":9},{"id":"GO:0048821","count":9},{"id":"GO:0097154","count":9},{"id":"GO:0010724","count":9},{"id":"GO:0035457","count":9}]},{"hash":"2234852716115577001","title":"Actin remodeling and endocytosis in signaling and adhesion","description":"This cluster features actin cytoskeleton processes (Arp2/3-mediated actin nucleation, actin filament polymerization, cortical patch assembly) alongside regulation of clathrin-dependent endocytosis and cell-substrate junction assembly. The presence of signaling-related terms (AMPA receptor activity, Notch signaling) suggests roles in signaling contexts linked to cytoskeletal dynamics and adhesion, possibly affecting endocytic trafficking and synaptic-like regulation. Overall, the proteins likely participate in actin-driven remodeling coupled to endocytosis and signaling rather than a single narrow function.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045746","count":2},{"id":"GO:0051123","count":2},{"id":"GO:0034314","count":1},{"id":"GO:0030041","count":1},{"id":"GO:0000147","count":1}]},{"hash":"1708771895861976766","title":"Embryonic Development and Organ Morphogenesis","description":"The top GO terms cluster around embryonic development, morphogenesis, and tissue-specific formation (cartilage morphogenesis, placental/trophoblast differentiation, left-right patterning, endocrine system development, and endocardial cushion EMT), suggesting a shared developmental program guiding organogenesis. Some terms are more general (ribosomal export, transcription regulation), but the dominant theme is developmental processes across tissues. Edges are absent, so this is inferred from GO annotations rather than direct interactions.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":4},{"id":"GO:0060536","count":4},{"id":"GO:1903026","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0003198","count":4}]},{"hash":"1877463213806797722","title":"Chromatin Remodeling and Transcription Regulation","description":"The cluster centers on histone modification and nucleosome dynamics (H3K27 acetylation/trimethylation, nucleosome assembly, deacetylase activity) and transcriptional control by RNA polymerase II, suggesting epigenetic regulation of gene expression as the common function. Some terms are peripheral or obsolete, but the dominant signal points to chromatin remodeling and transcription regulation.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0045190","count":2},{"id":"GO:0006334","count":1},{"id":"GO:1901674","count":1},{"id":"GO:0007098","count":1}]},{"hash":"1675915462497209742","title":"Mitotic Cycle and Vesicle Trafficking","description":"The top terms cluster around mitosis (mitotic cell cycle, spindle assembly) and vesicle trafficking (COPII-coated vesicle budding, Golgi-to-ER transport), with cell proliferation also represented. This suggests proteins involved in cell division coupled with the secretory pathway, rather than a single function. Some terms (skeletal development, aging, invasive growth) appear peripheral or annotation noise but do not override the main pattern.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0090307","count":3},{"id":"GO:0090114","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0007568","count":3}]},{"hash":"1240289329227202521","title":"Embryonic morphogenesis and patterning","description":"The terms point to broad embryonic development and organogenesis: left/right pattern formation, mesoderm development, cartilage morphogenesis, roof of the mouth, endocardial cushion formation, placenta-related differentiation, and endocrine/pancreatic cell development. One term about ribosomal export seems incidental. Together they suggest a cluster focused on embryonic morphogenesis and patterning rather than a single tissue, hence this name.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060707","count":4},{"id":"GO:0000055","count":4}]},{"hash":"1198167130096414527","title":"Neurodevelopment and Glutamatergic Synapse Assembly","description":"This cluster is enriched for nervous system development, brain and inner ear development, and glutamatergic synaptic transmission, with a strong signal for positive regulation of synapse assembly. Together, these terms point to neural development and the formation/maintenance of glutamatergic synapses as the core theme of the proteins, despite a few ancillary terms related to cell cycle or adhesion.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0035249","count":3}]},{"hash":"1930918518178752247","title":"Cofactor and coenzyme biosynthesis","description":"The GO terms are dominated by biosynthetic and maturation processes for essential cofactors and metabolites\u2014lipoylation, molybdopterin cofactor, thiamine, menaquinone, protoporphyrinogen IX, and tRNA modification pathways\u2014suggesting a shared role in assembling or modifying cofactors that enable enzyme activity. A few terms like choline catabolism or antibiotic response appear peripheral, but the core theme points to biosynthesis and maturation of cofactors and related metabolites. ","confidence":"Medium","size":9,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009249","count":1},{"id":"GO:0042426","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0006777","count":1},{"id":"GO:0030488","count":1}]},{"hash":"2191724705993139654","title":"Unknown","description":"The nine proteins carry a mix of developmental terms (pollen tube guidance, mesoderm/left-right patterning, pulmonary artery morphogenesis) and trafficking/secretion terms (intracellular protein transport, COPII vesicle coating). Because there is no single, cohesive functional theme across the cluster, a concise, representative label cannot be assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010183","count":2},{"id":"GO:0007498","count":1},{"id":"GO:0061156","count":1},{"id":"GO:0010957","count":1},{"id":"GO:0060972","count":1}]},{"hash":"733132107087122348","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms related to protein synthesis and ribosome assembly (translation, cytoplasmic translation, translational termination, translational elongation) and ribosome biogenesis, with additional terms pointing to cell growth (cell division and cell cycle). A few outliers (glial cell proliferation, antibiotic response, cellular fusion) do not change the overall theme, which is core components of the translation machinery and ribosome production. Therefore, the label reflects the predominant function of the cluster.","confidence":"High","size":9,"edges":28,"triangles":44,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042254","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0006415","count":2}]},{"hash":"1066134163583981810","title":"Chromatin regulation during development","description":"The cluster is dominated by chromatin- and transcription-related terms (negative regulation of transcription by RNA Pol II, nucleosome assembly, negative regulation of chromosome condensation) and paired with a broad set of developmental processes (brain/midbrain morphogenesis, male gonad development, muscle differentiation, fertilization). This suggests a theme where chromatin state modulates gene expression to drive developmental programs, despite some outlier terms like innate mucosal immunity. Confidence: Medium","confidence":"","size":9,"edges":31,"triangles":55,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0008584","count":8},{"id":"GO:0035264","count":7},{"id":"GO:0007338","count":7},{"id":"GO:0007420","count":7}]},{"hash":"1464477117757616232","title":"Neuronal Differentiation and Epigenetic Regulation","description":"This cluster centers on motor neuron and midbrain dopaminergic neuron differentiation and transcriptional control, with chromatin-associated processes such as nucleosome positioning and histone deacetylation, indicating a module where neuronal fate is governed by epigenetic regulation and gene expression programs.","confidence":"High","size":9,"edges":27,"triangles":36,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021520","count":3},{"id":"GO:1904948","count":3},{"id":"GO:0060303","count":3},{"id":"GO:0016584","count":3},{"id":"GO:0045668","count":3}]},{"hash":"1198481427725908385","title":"Unknown","description":"The top GO terms are a scattered mix: execution of apoptosis, nucleotide salvage and catabolic processes, various immune functions (defense against fungus, IL-2 production, T cell differentiation) and transcription regulation. There is no clear, dominant functional theme tying these proteins together, and the lack of edges supports a heterogeneous set of roles rather than a single pathway.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097194","count":2},{"id":"GO:0009097","count":2},{"id":"GO:0050832","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0046638","count":1}]},{"hash":"1220995361337673958","title":"Calcium-regulated muscle sarcomere and proteostasis","description":"Top terms show muscle-related structural organization (sarcomere) and calcium signaling, suggesting a focus on calcium-driven muscle architecture. Additional terms point to protein turnover (ubiquitin-dependent catabolism) and post-transcriptional regulation (miRNA silencing), fitting a theme of proteostasis in muscle cells. Some developmental terms appear, likely due to broader regulatory roles or annotation noise, but the core signal remains muscle calcium\u2013dependent organization with protein regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":3},{"id":"GO:0071277","count":3},{"id":"GO:2000637","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0097050","count":2}]},{"hash":"1876164501278322117","title":"Mitochondrial localization and endomembrane trafficking","description":"The top terms point to mitochondrion localization and distribution (mitochondrial transport/localization via microtubules), along with endomembrane system processes such as endosome organization, Golgi retention, and receptor internalization. Together these suggest a cohesive theme around intracellular trafficking and organelle positioning, with some cell fate processes (apoptosis, cell division) appearing as supporting roles. Confidence is medium due to some terms being more peripheral to trafficking.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0048312","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0006915","count":4},{"id":"GO:2001137","count":3},{"id":"GO:0098884","count":3}]},{"hash":"114485454748889003","title":"Cell division and cytoskeletal regulation","description":"This cluster centers on processes linked to cell division and cytoskeletal dynamics, with notable GO terms for cell division, Arp2/3-mediated actin nucleation, and Rho signaling, plus related differentiation and protein interaction processes. The recurring themes point to coordination between the cell cycle and cytoskeletal remodeling, despite some tissue-specific terms like lens fiber differentiation. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0050731","count":2},{"id":"GO:0000747","count":2},{"id":"GO:2000601","count":2}]},{"hash":"1283347550948833536","title":"Proteostasis and Heat Stress Response","description":"The cluster is dominated by ubiquitin-proteasome\u2013related protein catabolism, nuclear quality control, and heat response terms, pointing to a proteostasis and stress-response module. Some terms (DNA replication, mesoderm formation) are less connected but do not outweigh the main theme.","confidence":"Medium","size":9,"edges":18,"triangles":13,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0071374","count":5},{"id":"GO:0001707","count":5},{"id":"GO:1901621","count":5},{"id":"GO:0006469","count":5}]},{"hash":"773488072787802953","title":"Ubiquitin-Driven JNK Signaling and Stress Response","description":"The cluster centers on ubiquitin-related regulation (K11-linked ubiquitination, polyubiquitination) and JNK signaling, with supporting themes in stress response, apoptosis regulation, and DNA damage tolerance. Despite some obsolete terms, the dominant pattern is post-translational modification\u2013driven signaling linked to cellular stress responses.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:1902426","count":9},{"id":"GO:0043524","count":9},{"id":"GO:0070076","count":9},{"id":"GO:1903955","count":9},{"id":"GO:0007254","count":9}]},{"hash":"1728418872086591634","title":"Cardiac and Visual GPCR Signaling","description":"The top GO terms coalesce around GPCR-driven signaling and downstream calcium and cAMP modulation, linking cardiac muscle contraction regulation and visual/opsin signaling. Terms like activation of adenylate cyclase, regulation of calcium release, heart development, and opsin-mediated signaling point to a shared theme of GPCR-related signaling that affects both heart and eye function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0006468","count":3},{"id":"GO:0051281","count":3},{"id":"GO:0022400","count":3},{"id":"GO:0043950","count":3}]},{"hash":"331353712170583981","title":"Developmental transcriptional regulators","description":"The cluster centers on negative regulation of transcription by RNA polymerase II, with several development-related terms spanning heart/outflow tract, hindlimb, trachea cartilage, habenula, and neuron/gonad maturation. This pattern suggests transcriptional regulators that coordinate broad developmental programs across multiple tissues, rather than a single tissue-specific function.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0060534","count":2},{"id":"GO:0021986","count":2},{"id":"GO:2000020","count":2},{"id":"GO:2000288","count":2}]},{"hash":"905556183938380641","title":"Bacterial Carbohydrate and Lipid Biosynthesis","description":"GO terms point to central carbohydrate metabolism (glycogen and glucose pathways, TCA cycle) and lipid/glycan biosynthesis (phospholipids, GPI anchors), with bacillithiol biosynthesis indicating a bacterial context. The common thread is core metabolism combining energy production with building blocks for membranes and glycoprotein anchoring, rather than signaling or transport. ","confidence":"High","size":9,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":2},{"id":"GO:0006006","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006490","count":1}]},{"hash":"1674992120718990114","title":"DNA/RNA Repair and tRNA Modification","description":"The cluster shows strong enrichment for DNA repair (DNA repair, DNA alkylation repair) and RNA-related processes (RNA repair, mRNA processing, tRNA wobble uridine modification, regulation of translational initiation by tRNA modification). This points to a cohesive role in maintaining nucleic acid integrity and translation fidelity, with additional associations to programmed cell death via mitochondrial membrane permeability, suggesting a link between nucleic acid maintenance and cell-death pathways. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035552","count":2},{"id":"GO:0042245","count":2},{"id":"GO:1990983","count":2},{"id":"GO:0012501","count":2},{"id":"GO:0006307","count":2}]},{"hash":"1334328579957829948","title":"Bacterial cell wall biosynthesis and envelope metabolism","description":"The top GO terms point to peptidoglycan and lipopolysaccharide biosynthesis, plus antibiotic response and cell morphogenesis, all indicative of bacterial cell envelope construction and remodeling. The presence of diverse carbohydrate catabolic processes suggests associated envelope-associated metabolism, despite some terms being obsolete. Overall, the cluster seems tied to cell wall/envelope biogenesis and related metabolic remodeling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019877","count":4},{"id":"GO:0009089","count":4},{"id":"GO:0042838","count":2},{"id":"GO:0019262","count":2},{"id":"GO:0019470","count":2}]},{"hash":"1690572797698145017","title":"ER stress and protein quality control","description":"The top terms cluster around proteostasis and ER-stress responses, including ubiquitin-proteasome\u2013mediated quality control, chaperone-assisted refolding, heat response, misfolded protein transport, and ER-stress\u2013driven translation initiation. A couple of terms on eye morphogenesis and hemopoiesis are present but less central. Overall, the main theme points to ER stress\u2013driven protein quality control.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048050","count":2},{"id":"GO:0048048","count":2},{"id":"GO:0060216","count":2},{"id":"GO:0090084","count":1},{"id":"GO:0071630","count":1}]},{"hash":"197783447412135695","title":"Developmental RTK Signaling","description":"The GO terms center on receptor tyrosine kinase activity and signaling, with several developmental processes (nervous system development, peripheral nervous system development, axial mesoderm formation, pericyte differentiation) and organ boundary/specification terms, indicating RTK-driven signaling in development as the common theme.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0007432","count":6},{"id":"GO:0007169","count":6},{"id":"GO:1904238","count":6},{"id":"GO:0048320","count":6}]},{"hash":"1736579845675770254","title":"Planar polarity and axon guidance","description":"The cluster\u2019s top GO terms center on establishing planar polarity (proteins localizing to planar polarity, planar morphogenesis in lung and body hair) and on axon guidance for serotonergic and dopaminergic neurons, with supporting roles for cell adhesion. This points to a developmental program linking planar polarity with neural pathfinding and tissue morphogenesis. ","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0007156","count":5},{"id":"GO:0060489","count":4},{"id":"GO:0060488","count":4},{"id":"GO:0060490","count":4}]},{"hash":"1540010184599590731","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090084","count":1},{"id":"GO:0071630","count":1},{"id":"GO:0070389","count":1},{"id":"GO:0009408","count":1},{"id":"GO:0070843","count":1}]},{"hash":"206071995660670167","title":"Cytoskeletal regulation and cell signaling","description":"The top GO terms point to cytoskeletal dynamics and signaling: barbed-end actin filament capping, and positive regulation of GTPase activity and peptidyl-tyrosine phosphorylation, which together drive remodeling of the actin cytoskeleton via signaling pathways. Additional terms reference cellular responses to TGF-beta and mitotic spindle assembly, suggesting broader cell-cycle\u2013related signaling roles. A synaptic plasticity term hints at neuronal signaling contexts, but the common thread remains signaling-linked cytoskeletal regulation. Some terms are obsolete, indicating annotation noise, but the core theme of cytoskeletal regulation tied to signal transduction supports this label.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0051441","count":1}]},{"hash":"2234784940716238395","title":"Neutrophil migration and adhesion signaling","description":"The top GO terms point to immune cell trafficking (positive regulation of neutrophil extravasation) alongside inflammatory signaling (TNF response), cell\u2013cell and cell\u2013ECM adhesion (integrin-mediated adhesion, collagen biosynthesis), Notch signaling, and cytoskeletal remodeling (myosin II). This combination suggests a coherent theme around neutrophil movement through tissues and its regulation by signaling and adhesion processes, with supporting membrane and proteolytic activities. Confidence: Medium","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000391","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0032964","count":1},{"id":"GO:0033631","count":1},{"id":"GO:0007219","count":1}]},{"hash":"853892487689485114","title":"Membrane protein proteolysis and Notch/APP processing","description":"This cluster is driven by proteolytic processing of membrane proteins, including Notch receptor processing, membrane protein ectodomain and intracellular domain proteolysis, and amyloid-beta formation, suggesting a coherent theme around proteolysis-activated signaling pathways. Some other terms (photosynthesis, mitochondrial respiration, pharynx development) appear ancillary and do not strongly define the core theme, hence the moderate confidence.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019684","count":1},{"id":"GO:0006810","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0042775","count":1},{"id":"GO:0007219","count":1}]},{"hash":"953171173523000835","title":"Embryogenesis and organogenesis","description":"The GO terms are dominated by developmental processes: endocrine system development, EMT in endocardial cushion formation, left-right pattern formation, placental and trophoblast differentiation, cartilage morphogenesis, and pancreatic cell development, suggesting a cluster of proteins involved in embryogenesis and tissue differentiation. Some metabolism-related terms may reflect membrane remodeling during differentiation but do not override the developmental signal. Confidence: Medium","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0060536","count":1}]},{"hash":"1273956383086053991","title":"Hexosamine metabolism (GlcNAc)","description":"Most terms cluster around glucosamine and N-acetylglucosamine catabolism and UDP-N-acetylglucosamine biosynthesis, with connection to the pentose-phosphate shunt. These point to a hexosamine metabolism core driving the cluster. The other terms (mating behavior, hair follicle morphogenesis, cerebellar granule cell differentiation) seem ancillary and do not form a tight, shared functional theme, so the primary signal remains hexosamine metabolism.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060179","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0006043","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0006098","count":1}]},{"hash":"335679265491267822","title":"Energy metabolism and temperature-stress signaling","description":"The top GO terms point to mitochondrial energy production (electron transport chain) and GPCR/cAMP signaling (adenylate cyclase activation) with temperature-related responses (thermogenesis, cellular temperature stimulus) and physiological effects like blood pressure regulation. While a few terms (defense response, cell wall catabolic process) are less central, the dominant pattern fits energy metabolism tied to temperature/stress signaling and metabolic regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":4},{"id":"GO:0010579","count":4},{"id":"GO:0007190","count":4},{"id":"GO:0045777","count":4},{"id":"GO:0019233","count":4}]},{"hash":"1827773992188393417","title":"Developmental signaling and immunity","description":"These terms point to mesodermal development (heart and outer ear morphogenesis, lateral mesoderm specification) and related signaling (ERK cascade, erythropoietin signaling, B cell receptor signaling), along with immune activities (defense to bacteria, dendritic cell cytokine production). The consolidated theme appears to be developmental signaling intersecting with immune pathways rather than a single cohesive process, hence this label is a reasonable representation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010765","count":5},{"id":"GO:0042742","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0048378","count":4}]},{"hash":"1236710050965456938","title":"Neuronal signaling and sensory perception","description":"The enriched GO terms cluster around neural activity: excitatory postsynaptic potentials, ion (sodium/potassium) transport and membrane depolarization, sensory perception of sound, GABA signaling, and regulation of nerve impulse transmission, all aligning with neuronal signaling and sensory processing, along with locomotory behavior. A few terms like acrosome-related processes are peripheral, but the dominant signal is neurotransmission and sensory/ motor function. ","confidence":"High","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":7},{"id":"GO:0035725","count":7},{"id":"GO:0071805","count":7},{"id":"GO:0050910","count":6},{"id":"GO:0051899","count":6}]},{"hash":"354050592545743163","title":"Chromatin regulation and transcription control","description":"The cluster is dominated by GO terms tied to chromatin state and gene expression: histone methylation marks (H3K4, K27, K79), DNA-templated transcription, and mRNA processing. This points to a core theme of chromatin-mediated regulation of transcription. The TORC1 signaling terms (and its regulation) connect nutrient sensing to growth and transcriptional programs, reinforcing a link between chromatin state, transcription, and cellular growth control, with spindle assembly suggesting coordination with the cell cycle. Overall, it suggests chromatin regulation of transcription in response to nutrient-status signals.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0034729","count":2}]},{"hash":"2258718409145124817","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning immune signaling (NK/T cell regulation, Fc signaling, cytotoxic differentiation), cardiac electrophysiology (AV node action potential, ventricular repolarization), sensory and developmental topics (sound detection, lens morphogenesis), and viral attachment processes. There is no single cohesive function connecting these terms, suggesting a mixed cluster rather than a specific biological module.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":2},{"id":"GO:0042742","count":2},{"id":"GO:0060307","count":2},{"id":"GO:0002729","count":2},{"id":"GO:0051134","count":2}]},{"hash":"1102990667761046678","title":"Mesodermal and craniofacial morphogenesis","description":"This cluster centers on developmental and morphogenetic processes affecting mesoderm-derived tissues and craniofacial structures, including mesoderm development, cartilage morphogenesis, roof of mouth development, hair follicle morphogenesis, and EMT in heart cushion formation, with additional endocrine development signals. Some terms related to basic cellular processes appear less related but do not outweigh the overall developmental theme.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0060021","count":2}]},{"hash":"1915269961952077832","title":"Unknown","description":"Top terms span phosphorylation, cardiac signaling, xenobiotic response, memory, and mammary gland involution, with no single cohesive biological theme linking all proteins. Because there isn't a clear unifying function across the cluster, a specific label isn't warranted; thus Unknown with confidence None.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0006468","count":1}]},{"hash":"1461308521209565149","title":"Unknown","description":"The top terms span vitamin A metabolism (retinol/retinal), JAK-STAT signaling regulation, carbohydrate/hormone-related processes, renal water homeostasis and urine volume regulation, androgen metabolism, and male gonad development. There is no single coherent function tying these terms together across the proteins, so a specific, representative label is not justifiable.","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":6},{"id":"GO:0042574","count":6},{"id":"GO:0046427","count":3},{"id":"GO:0042843","count":3},{"id":"GO:0048661","count":3}]},{"hash":"1445600006662958209","title":"Spermatogenesis and Germline Translation","description":"The cluster shows strong signals for male gonad development and spermatogenesis, suggesting involvement in male germ cell formation. The translation term indicates active protein synthesis accompanying germ cell differentiation, supporting a cohesive theme around spermatogenic development with associated translation machinery. Some stress-response terms appear but are secondary to the germline development focus.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0030416","count":1}]},{"hash":"1983626978389801288","title":"Steroid and lipid metabolism","description":"Most top GO terms cluster around biosynthesis or metabolism of lipid- and steroid-derived molecules (prostaglandin, oxylipin, brassinosteroid, androgen, vitamin D, aldosterone, retinoic acid). The omega-hydroxylase P450 pathway further supports lipid metabolism. Some outliers (vancomycin biosynthesis, alkaloid catabolic process) exist, but the dominant theme remains lipid/steroid metabolism. ","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":5},{"id":"GO:0042904","count":3},{"id":"GO:0008209","count":3},{"id":"GO:0042369","count":3},{"id":"GO:0032342","count":3}]},{"hash":"1947256468078360355","title":"Transcription, splicing, and chromatin regulation","description":"These proteins show GO terms focused on transcription (DNA-templated transcription), RNA processing (mRNA splicing via spliceosome), and chromatin modification (histone methylation), as well as cell division, indicating a cluster tied to regulation of gene expression and chromatin state, potentially linked to cell cycle. Some outliers (copper ion transport, LPS biosynthesis, obsolete annotations) may be annotation noise and not reflective of a shared function. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0060416","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0034729","count":2},{"id":"GO:0051301","count":2}]},{"hash":"534310902410163342","title":"Spliceosome-Driven mRNA Processing and Translation Control","description":"The terms cluster around spliceosome-mediated regulation of mRNA splicing, along with regulation of translational initiation and reinitiation, plus ncRNA-mediated gene silencing and mRNA tail processing, indicating a cohesive post-transcriptional regulatory role in RNA maturation and translation, with some developmental context (blastocyst formation).","confidence":"High","size":8,"edges":8,"triangles":1,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:1903586","count":6},{"id":"GO:0006446","count":6},{"id":"GO:0001825","count":6}]},{"hash":"497130934669595598","title":"Mitotic spindle and centromere assembly","description":"The dominant GO terms are mitotic spindle assembly and CENP-A containing chromatin assembly, pointing to a core theme of cell division, centromere function, and chromatin dynamics; while other terms (phosphorylation signaling, GTPase activity, vesicle trafficking) are present, they are less central to the cluster\u2019s primary function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0050731","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0071560","count":6},{"id":"GO:0090307","count":5},{"id":"GO:2001125","count":5}]},{"hash":"1519344779875005163","title":"Stress-Responsive Translational Regulation and DNA Damage Response","description":"The cluster is dominated by translation-related terms (translation, ribosomal subunit assembly, translational termination) with several terms indicating regulation of translation under UV-related cellular stress, plus a few p53-mediated DNA damage signaling terms, suggesting a cohesive role in stress-responsive protein synthesis and DNA damage response.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0000027","count":3},{"id":"GO:0006415","count":2},{"id":"GO:1902167","count":1},{"id":"GO:0006353","count":1}]},{"hash":"2086002859596479904","title":"Wnt/Hippo signaling in development","description":"These proteins show strong representation of developmental signaling pathways, notably canonical Wnt and Hippo, along with differentiation programs (keratinocyte, neuron, T cell) and apoptotic regulation. This combination suggests a module coordinating development and tissue homeostasis through signaling cascades, so a concise label like \u201cWnt/Hippo signaling in development\u201d is appropriate.","confidence":"Medium","size":8,"edges":15,"triangles":12,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":8},{"id":"GO:0060044","count":8},{"id":"GO:0030216","count":8},{"id":"GO:0090263","count":8},{"id":"GO:0035329","count":8}]},{"hash":"323788009899929742","title":"Ribosome biogenesis and translation initiation","description":"The top GO terms cluster around maturation of LSU rRNA, ribosome biogenesis, translation reinitiation, and formation of the translation preinitiation complex, indicating a shared role in ribosome assembly and starting/prolonging translation. Some terms are unrelated or obsolete, but the dominant signal supports a ribosome/translation-focused group.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0002188","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0001731","count":2}]},{"hash":"1761768101513412479","title":"Protein and Polyamine Acetylation","description":"Most terms describe acetylation of biogenic amines (spermine, putrescine) or proteins (N-terminal, peptidyl-lysine acetylation), suggesting a cluster of acetyltransferases targeting polyamines and protein N-termini, with bacterial sporulation and related metabolism contexts.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032919","count":4},{"id":"GO:0019491","count":4},{"id":"GO:0030435","count":4},{"id":"GO:0060358","count":4},{"id":"GO:0032920","count":4}]},{"hash":"1105253288750927317","title":"Unknown","description":"The top GO terms are highly heterogeneous, including immune defense, multiple development processes (skeletal, forebrain, neural tube), transcription, and signaling, with no clear common function. Edges are zero, suggesting no cohesive functional grouping, so a single interpretable label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0050830","count":5},{"id":"GO:0001501","count":4},{"id":"GO:0001403","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0006349","count":4}]},{"hash":"1467169763839872920","title":"Post-transcriptional mRNA processing and translation control","description":"The cluster\u2019s top GO terms center on mRNA stability, translational initiation and reinitiation, spliceosome-mediated mRNA splicing, and poly(A) tail regulation, which together point to post-transcriptional gene regulation and RNA processing. Some terms (e.g., blastocyst formation) reflect broader developmental contexts but do not override the dominant post-transcriptional theme.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":8},{"id":"GO:1903586","count":6},{"id":"GO:0006446","count":6},{"id":"GO:0001825","count":6},{"id":"GO:0045292","count":6}]},{"hash":"999700359638261783","title":"Ubiquitination-regulated NF-kappaB and apoptosis signaling","description":"The top GO terms cluster around canonical NF-kappaB signaling, apoptosis (ER stress\u2013 and intrinsic-related), and ubiquitination (K63-linked and autoubiquitination). T cell receptor signaling and retinoic acid receptor pathways further point to immune and developmental contexts, suggesting a module where ubiquitination modulates NF-kappaB activity to govern apoptosis and immune signaling.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":4},{"id":"GO:0048384","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0043123","count":3}]},{"hash":"1761296977825636703","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034247","count":3},{"id":"GO:0036265","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0000462","count":2}]},{"hash":"157699878373527168","title":"Developmental transcriptional regulation and chromatin assembly","description":"The cluster\u2019s top GO terms span development (brain, gonad, osteoblast differentiation, multicellular growth, fertilization) and gene-expression control (negative regulation of transcription by RNA polymerase II, mRNA transport) plus chromatin assembly (CENP-A containing chromatin assembly). This suggests a theme of developmentally coordinated transcriptional regulation and chromatin dynamics, rather than a single, narrow function.","confidence":"Medium","size":8,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0061641","count":2}]},{"hash":"1650259123221518203","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":2},{"id":"GO:0061158","count":2},{"id":"GO:2000766","count":2},{"id":"GO:0006406","count":2}]},{"hash":"1919561993852976739","title":"Osteoclastogenesis and bone remodeling","description":"This cluster centers on cytoskeletal remodeling and cell fusion processes typical of osteoclast differentiation (podosome assembly, membrane and polarity regulation, and associated signaling), with bone development signals and innate immune context suggesting a module for osteoclastogenesis and bone remodeling rather than osteoblast activity.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0071800","count":2},{"id":"GO:2000769","count":2},{"id":"GO:0051044","count":2},{"id":"GO:0032005","count":2}]},{"hash":"1246490695706069973","title":"Chromatin assembly and translation initiation regulation","description":"The cluster includes a centromeric CENP-A chromatin assembly term, transcriptional regulation by RNA polymerase II, and assembly of the eIF3 translation initiation complex, alongside proteasome-dependent protein turnover. This combination points to a coordinated control of gene expression at both chromatin/transcription and translation initiation, with protein degradation contributing to dynamic regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":2},{"id":"GO:0044030","count":1},{"id":"GO:0032463","count":1},{"id":"GO:0034080","count":1},{"id":"GO:0090073","count":1}]},{"hash":"90598639237500798","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060546","count":3},{"id":"GO:0001782","count":3},{"id":"GO:0043123","count":3},{"id":"GO:1900041","count":3},{"id":"GO:0045571","count":2}]},{"hash":"1694771496031040206","title":"Skeletal muscle cytoskeleton and cell migration","description":"This cluster appears to group proteins involved in muscle cytoskeleton organization and cell movement: skeletal muscle thin filament assembly, muscle fiber adaptation, actin cortical patch localization, and mesenchyme migration, indicating coordinated cytoskeletal remodeling and cell shape/movement in muscle-related contexts. Some chromatin remodeling terms are present but seem incidental to the core function. Confidence: Medium","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":5},{"id":"GO:0042766","count":3},{"id":"GO:0030240","count":3},{"id":"GO:0090131","count":3},{"id":"GO:0043983","count":3}]},{"hash":"1054305196767223622","title":"RNA processing and ribosome biogenesis","description":"The GO terms cluster around mRNA splicing via spliceosome, rRNA maturation, ribosomal subunit biogenesis, and translation initiation components, pointing to RNA processing and assembly of ribosomal and translational machinery. Ancillary terms like transcription termination and ncRNA-mediated silencing appear but do not outweigh the main RNA-processing/ribosome biogenesis theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0002188","count":2},{"id":"GO:0006369","count":2},{"id":"GO:0001731","count":2}]},{"hash":"2217379522476666046","title":"Meiotic Chromosome Cohesion and Apoptosis Signaling","description":"The top terms are dominated by meiotic processes\u2014homologous chromosome pairing, orientation, and sister chromatid cohesion during meiosis I\u2014indicating a cluster of proteins involved in meiotic chromosome dynamics. A few terms reference intrinsic apoptosis and cytochrome c release, suggesting some proteins may also participate in apoptotic signaling, but the strongest, most coherent theme is meiotic cohesion and chromosome management. Therefore the label centers on meiotic chromosomal cohesion with a note about accompanying apoptosis signaling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090200","count":1},{"id":"GO:0097193","count":1},{"id":"GO:0043280","count":1},{"id":"GO:0034393","count":1},{"id":"GO:0030999","count":1}]},{"hash":"490072622357366034","title":"Nucleophagy-Linked Autophagy","description":"The strongest signals are for piecemeal autophagy of the nucleus and autophagy of mitochondria, indicating the cluster centers on autophagy-related processes, especially nucleophagy. Several other GO terms (tRNA modification, thiamine biosynthesis, urmylation, and amygdala development) appear peripheral or overlapping noise, but do not override the core autophagy theme.","confidence":"Medium","size":8,"edges":11,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0034727","count":3},{"id":"GO:1903833","count":2},{"id":"GO:0044805","count":2},{"id":"GO:0002143","count":2},{"id":"GO:0045892","count":2}]},{"hash":"1291646690630230740","title":"Mitotic Signaling and Cytoskeletal Remodeling","description":"The cluster combines mitosis-related terms (mitotic cell cycle, mitotic spindle assembly) with regulation of MAPK signaling (JNK and ERK cascades) and cytoskeletal remodeling (actin reorganization, synapse plasticity) along with vesicle trafficking and complex formation, suggesting proteins that coordinate cell division with signaling and cytoskeletal dynamics, including angiogenic processes (endothelial tube lumen extension).","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0046330","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0031532","count":3}]},{"hash":"1484581319752497071","title":"Unknown","description":"The top terms span immune processes (complement-dependent cytotoxicity, macrophage differentiation), neural development (auditory receptor morphogenesis, GABAergic interneuron development), epithelial polarity, cytokinesis, JNK signaling, and cytoskeletal/pseudopodium regulation, with no single unifying function across all proteins. Therefore a generic Unknown label is most appropriate, with no confidence in a cohesive theme.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010738","count":6},{"id":"GO:0097278","count":6},{"id":"GO:0032467","count":6},{"id":"GO:0002093","count":6},{"id":"GO:0090162","count":6}]},{"hash":"1767738328796319019","title":"RNA processing and translation initiation regulation","description":"The cluster centers on mRNA splicing via the spliceosome, mRNA export, and regulation of alternative splicing, together with translation initiation/preinitiation complex formation and ribosomal subunit biogenesis. This constellation points to a cohesive module coordinating RNA processing with control of protein synthesis, i.e., post-transcriptional gene expression regulation. Ancillary terms like embryonic development and histone deacetylation are less central to the core theme.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0006406","count":3}]},{"hash":"1506420323777690547","title":"Nutrient-sensing and stress signaling","description":"This label fits because the top GO terms point to nutrient- and stress-responsive signaling pathways (positive regulation of TOR signaling and amino acid\u2013stimulated responses) alongside inflammatory signaling (NF-kappaB) and protein quality control processes (unfolded protein response, chaperone-related refolding). The cluster appears to unite signaling regulators and stress-response mechanisms, though the terms span related but distinct processes rather than a single narrowly defined function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0032008","count":2},{"id":"GO:0071230","count":2},{"id":"GO:0051092","count":2}]},{"hash":"2275687998915724260","title":"Fungal mating, cell wall biosynthesis, and protein folding","description":"The top GO terms strongly indicate fungal-specific processes: karyogamy (cell fusion) and fungal-type beta-glucan biosynthesis point to mating and cell wall construction, while cellular response to unfolded protein and chaperone-dependent refolding suggest proteostasis during stress. Although there are a few broad terms like DNA replication, the dominant signals reflect mating, cell wall biosynthesis, and protein folding in a fungal context.","confidence":"High","size":8,"edges":14,"triangles":9,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000742","count":3},{"id":"GO:0090084","count":3},{"id":"GO:1902037","count":3},{"id":"GO:0034620","count":3},{"id":"GO:0070389","count":3}]},{"hash":"265277859480197400","title":"MAPK-Driven Cytoskeletal Remodeling and Immune Signaling","description":"These proteins show enrichment for MAPK pathway regulation (JNK and ERK cascades), actin cytoskeleton dynamics (pseudopodium formation, filament polymerization), and immune signaling (GPCR and T cell receptor pathways) with migration-related processes (mast cell chemotaxis) and nervous system development. The common theme is signaling-induced cytoskeletal remodeling that enables cell movement and communication in immune and neural contexts.","confidence":"Medium","size":8,"edges":20,"triangles":20,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":6},{"id":"GO:0031274","count":6},{"id":"GO:0030838","count":6},{"id":"GO:0035690","count":6},{"id":"GO:0070374","count":6}]},{"hash":"398030444761470942","title":"Unknown","description":"The top GO terms span several unrelated themes (unfolded protein response, dsRNA response, Notch signaling, smooth muscle development, androgen metabolism, lipid droplet organization, telomere maintenance, histone ubiquitination, ATP biosynthesis, and mRNA catabolic regulation), with no single coherent function tying all eight proteins together. This suggests the cluster is functionally diverse rather than representing a specific pathway.","confidence":"","size":8,"edges":11,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006987","count":2},{"id":"GO:0048745","count":2},{"id":"GO:0008209","count":2},{"id":"GO:0007219","count":2},{"id":"GO:0034389","count":2}]},{"hash":"1931857057704406592","title":"Unknown","description":"The GO terms span neural processes (visual perception, dendrite morphogenesis) and immune signaling (GM-CSF response, T cell receptor signaling, lipopolysaccharide response), plus potassium transport and transcription-related processes. The set doesn't reveal a single coherent function that unites all proteins, suggesting a heterogeneous cluster rather than a focused pathway. Therefore, a precise label is not assignable.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":7},{"id":"GO:0007601","count":5},{"id":"GO:0097011","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0050852","count":5}]},{"hash":"1087370332137546344","title":"Translation Initiation and Protein Transport","description":"The cluster is dominated by GO terms related to the initiation of translation, notably formation of the translation preinitiation complex and translation reinitiation, each with two proteins, suggesting a core role in early translation steps. Intracellular protein transport also appears with similar support, hinting at a link between translation machinery and trafficking processes. The remaining terms are diverse (neuron development, mitotic chromatid alignment, surface biofilm), which may reflect peripheral annotations or broader cellular roles, but the translation initiation/transport pattern provides the best cohesive explanation.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0046638","count":1},{"id":"GO:0010954","count":1}]},{"hash":"1100922801490615737","title":"Chaperone-assisted protein folding and quality control","description":"The cluster is dominated by GO terms related to chaperone activity, ubiquitin-proteasome\u2013mediated protein quality control, chaperone-cofactor\u2013dependent refolding, and assembly of chaperone complexes, as well as protein retention in the Golgi and ER membrane dynamics. While there are a few metabolic terms in the list, the proteostasis and trafficking signals provide a coherent theme of protein maturation and quality control. Confidence: Medium","confidence":"","size":8,"edges":9,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0006809","count":2},{"id":"GO:0016320","count":1},{"id":"GO:0071630","count":1}]},{"hash":"1767225948711054239","title":"Embryonic Mesoderm and Heart Morphogenesis","description":"The top GO terms point to embryonic development, especially mesoderm formation, left-right patterning, and epithelial-to-mesenchymal transition in heart formation, with auxiliary signals related to placental differentiation and regulatory processes, suggesting a cohesive theme of early development and heart morphogenesis.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":3},{"id":"GO:0010957","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0034396","count":3},{"id":"GO:0044571","count":3}]},{"hash":"1386032394689923623","title":"Unknown","description":"The GO terms are extremely diverse and show no single coherent biological theme (from protein phosphorylation and transcription regulation to memory, muscle development, and even fungal ascospore formation). With such heterogeneity and no dominant function, there isn\u2019t a clear, representative label for the cluster beyond Unknown.","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006468","count":3},{"id":"GO:0050906","count":3},{"id":"GO:0060056","count":3},{"id":"GO:2000678","count":3},{"id":"GO:1903244","count":3}]},{"hash":"1198289453894606097","title":"Synaptic Vesicle Trafficking and Neuronal Signaling","description":"The terms point to vesicle budding and exocytosis at synapses, with ARF and Rac signaling regulating membrane trafficking and cytoskeleton dynamics, plus associated neural development and behavior themes. This suggests a cohesive theme around neuronal synaptic vesicle dynamics and signaling rather than unrelated pathways.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1901998","count":4},{"id":"GO:0016185","count":4},{"id":"GO:0008344","count":4},{"id":"GO:0002291","count":3},{"id":"GO:1904693","count":3}]},{"hash":"929214370350362849","title":"Neural development and cell adhesion","description":"The top GO terms are dominated by cell\u2013cell adhesion (heterophilic and homophilic) and neural development signals (nervous system development, synapse assembly, nerve maturation), indicating a cohesive role in neural connectivity and related morphogenesis. Some terms also reference broader organogenesis and host interactions, but the adhesion and neural-development theme is the most representative for this cluster.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0007156","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0051965","count":4}]},{"hash":"1900510642852226670","title":"Neuronal signaling\u2013driven transcription","description":"The top terms cluster around cell surface receptor signaling and transcription initiation/regulation (RNA polymerase II preinitiation complex assembly, DNA-templated transcription initiation, Notch target transcription) with neuronal-context terms (positive regulation of synapse assembly, response to cocaine). This suggests a theme where extracellular signals influence transcriptional programs in neurons. A few peripheral terms (snoRNP assembly, replication fork processing, proteasomal regulation) are less clearly connected but do not obscure the central pattern.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007166","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0051123","count":1},{"id":"GO:0000492","count":1}]},{"hash":"1215901540291380627","title":"Embryonic development and transcriptional regulation","description":"The cluster repeatedly points to developmental processes (mesoderm development, cardiac muscle differentiation, roof of mouth development, pancreatic cell development) and regulatory activities (negative regulation of transcription by RNA Pol II, chromatin remodeling, histone acetylation). This suggests a cohesive theme where differentiation programs are coordinated via transcriptional and epigenetic regulation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0035066","count":2},{"id":"GO:0055007","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0007498","count":2}]},{"hash":"1181596864443453696","title":"Immunological synapse and T cell regulation","description":"This cluster centers on T cell\u2013mediated immune signaling and intercellular communication: GO terms for T cell costimulation and proliferation, regulation of macrophage and NK cell activity, and both homophilic/heterophilic cell adhesion, plus regulation of synapse assembly. Together they point to immune cell interactions and immunological synapse formation, with some adhesion and immune regulation components. The lone atypical term about symbiont entry does not override the dominant theme of T cell\u2013focused communication and activation.","confidence":"Medium","size":8,"edges":12,"triangles":6,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031295","count":6},{"id":"GO:0043031","count":6},{"id":"GO:0051963","count":6},{"id":"GO:0086072","count":6},{"id":"GO:0046718","count":6}]},{"hash":"861991543143458065","title":"Cardiac conduction and neural development via cell adhesion","description":"These proteins appear linked by cell\u2013cell adhesion and signaling in developing tissues, especially the cardiac conduction system (ventricular action potential regulation and Purkinje/His adhesion) and nervous system development (synapse assembly and GABAergic transmission). The prominent calcium-dependent and cadherin-type adhesion terms suggest adhesion molecules guiding tissue organization in heart and brain. Some bone/keratinization terms are present but peripheral.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0086073","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0016339","count":3}]},{"hash":"524874561784080039","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0001778","count":6},{"id":"GO:0045623","count":5},{"id":"GO:0061158","count":5},{"id":"GO:0070842","count":5},{"id":"GO:0090086","count":5}]},{"hash":"1155266226788901559","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010587","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0030260","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0000398","count":1}]},{"hash":"1073761289858513040","title":"Mitochondrial Transporters and Energy Metabolism","description":"This cluster is dominated by GO terms describing transport across mitochondrial membranes (ATP, citrate, phosphate, pyridoxal phosphate) and processes tied to energy regulation (adaptive thermogenesis, insulin response, energy homeostasis). The convergence on mitochondrial transport and metabolic regulation suggests a cohesive theme of mitochondrial transporters involved in energy metabolism and insulin signaling, with a single outlier term (female pregnancy) not defining the core function.","confidence":"High","size":8,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1990544","count":6},{"id":"GO:1990845","count":6},{"id":"GO:0046902","count":6},{"id":"GO:0007565","count":6},{"id":"GO:0061179","count":6}]},{"hash":"1687388864575368124","title":"Neural and sensory signaling","description":"This cluster\u2019s top GO terms are dominated by sensory-related processes (sensory perception of pain, visual perception, visual learning) and signaling pathways (cellular response to cAMP, prostaglandin signaling, ERK cascade regulation, membrane potential regulation). Together, they point to proteins involved in neural sensing and the signaling cascades that modulate sensory processing and related behaviors. Some terms like heart development and macrophage chemotaxis may reflect broader, pleiotropic roles of signaling molecules, but the prevailing theme appears to be neural and sensory signaling. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":4},{"id":"GO:0042391","count":4},{"id":"GO:0048148","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0071380","count":3}]},{"hash":"302217417138180731","title":"Zinc Homeostasis in Limb Development","description":"This cluster features strong signals for limb/embryonic digit morphogenesis (embryonic digit morphogenesis, limb development) together with multiple zinc-related processes (zinc ion import, intracellular zinc ion homeostasis, detoxification of zinc, cellular response to zinc ion starvation). The convergence suggests a theme where zinc regulation intersects with limb morphogenesis, with some glycosylation terms likely representing noise. Hence the label captures the core shared function of the proteins.","confidence":"High","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042733","count":2},{"id":"GO:0046329","count":1},{"id":"GO:0060049","count":1},{"id":"GO:0035269","count":1},{"id":"GO:0006882","count":1}]},{"hash":"346740372788659638","title":"GM-CSF-driven immune signaling and neutrophil chemotaxis","description":"The GO terms center on GM-CSF stimulus, neutrophil chemotaxis, and associated signaling pathways (tyrosine kinase signaling, autophosphorylation), indicating a shared role in cytokine-driven immune activation and leukocyte movement; additional terms reflect broader immune regulation and signaling cross-talk.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097011","count":2},{"id":"GO:0010954","count":2},{"id":"GO:0030593","count":2},{"id":"GO:0038063","count":2},{"id":"GO:0045953","count":2}]},{"hash":"744878397076719420","title":"Developmental differentiation and cell-cycle regulation","description":"The cluster is enriched for development- and differentiation-related GO terms, including mesoderm development, lung epithelial differentiation, and negative regulation of EMT, along with signals tied to tissue-specific responses such as cardiac muscle hypertrophy under stress. The presence of G1/S transition control also points to cell-cycle regulation as a core theme. Although some terms (ascospore formation, meiotic checkpoint signaling) are more reproductive or fungal in scope, the dominant pattern across the GO terms centers on developmental differentiation and cell-cycle processes. ","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007498","count":7},{"id":"GO:0010719","count":7},{"id":"GO:1903244","count":7},{"id":"GO:0060316","count":7},{"id":"GO:0030437","count":7}]},{"hash":"86546594774615128","title":"Chromatin organization and nucleosome assembly","description":"These proteins strongly map to chromatin-related processes: nucleosome assembly, chromatin localization to chromatin, heterochromatin organization, and regulation of nucleus size, with supporting histone modification terms. Despite some obsolete GO terms, the consistent theme is chromatin architecture and nucleosome dynamics.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":7},{"id":"GO:0016584","count":7},{"id":"GO:0071169","count":7},{"id":"GO:0070828","count":7},{"id":"GO:0097298","count":7}]},{"hash":"572399133261886730","title":"Steroid and lipid hormone biosynthesis","description":"The terms point to biosynthesis and metabolism of various lipid-based hormones (retinoic acid, androgen, vitamin D, aldosterone, brassinosteroid, ecdysone) and related lipid mediators, with the omega-hydroxylase P450 pathway highlighting cytochrome P450\u2013driven biosynthesis. This suggests a cohesive theme around P450-mediated steroid and lipid hormone production and turnover, despite cross-kingdom examples.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042904","count":3},{"id":"GO:0008209","count":3},{"id":"GO:0042369","count":3},{"id":"GO:0032342","count":3},{"id":"GO:0033072","count":3}]},{"hash":"1428007001982497587","title":"Unknown","description":"The GO terms include immune defense, neural signaling, secretion, GPCR and prostaglandin responses, and even plant-like cell wall catabolism, with no single unifying function evident across the seven proteins. This diversity suggests no cohesive cluster theme.","confidence":"","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0016998","count":4},{"id":"GO:0042742","count":4},{"id":"GO:0006468","count":4},{"id":"GO:0046541","count":4},{"id":"GO:0060134","count":4}]},{"hash":"2037323607135210852","title":"Mitotic Cell Cycle and Kinetochore Localization","description":"Top terms show a strong emphasis on mitosis and DNA replication (G1/S transition, DNA replication, meiotic cell cycle) and kinetochore localization, pointing to proteins involved in cell-cycle progression and chromosome handling. While there are some neural/immune terms present, they appear secondary to the core mitotic theme. This label captures the primary function of the cluster.","confidence":"High","size":7,"edges":9,"triangles":4,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000082","count":7},{"id":"GO:0034501","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0060079","count":7},{"id":"GO:0051321","count":7}]},{"hash":"541715049534800306","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0042403","count":3},{"id":"GO:0070588","count":2},{"id":"GO:0090084","count":2},{"id":"GO:0071630","count":2}]},{"hash":"1850493667210273876","title":"Embryonic organ development and morphogenesis","description":"The proteins are annotated with GO terms spanning development and morphogenesis in multiple tissues, including male gonad, brain (habenula), heart, hindlimb, and prostate, plus regulatory roles such as transcriptional regulation by RNA polymerase II. This points to a shared function in embryonic organ formation and tissue morphogenesis rather than a single tissue-specific activity.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0021986","count":3}]},{"hash":"1936593261155176100","title":"Ecdysone-Driven Insect Development and Morphogenesis","description":"The cluster shows enrichment for GO terms related to cellular response to ecdysone, leg disc morphogenesis, ventral midline development, female gonad morphogenesis, and larval walking behavior, all pointing to hormone-regulated insect development and morphogenesis. While a few terms are unrelated (e.g., some metabolic processes), the dominant signals suggest a cohesive ecdysone-responsive developmental program.","confidence":"Medium","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2001172","count":3},{"id":"GO:0090180","count":3},{"id":"GO:1903212","count":3},{"id":"GO:0048092","count":2},{"id":"GO:0007418","count":2}]},{"hash":"9413560755103642","title":"DNA Replication and Cell Cycle","description":"The dominant GO terms are about DNA replication, DNA-templated transcription, and mitotic cell cycle, which together point to nucleic acid metabolism and cell division as the cluster\u2019s core function. Additional terms like ribosomal large subunit assembly support active proliferation, while the other terms (stress responses, lens development, neuronal transport) may reflect broader or context-specific annotations. Overall, the main theme is nucleic acid processing during cell division.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0090261","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":3},{"id":"GO:1903936","count":3}]},{"hash":"1927349084607816741","title":"Ribosome Biogenesis and Translation Machinery","description":"The dominant GO terms are about translation and ribosome biogenesis/assembly (e.g., translation, formation of translation preinitiation complex, ribosome biogenesis, ribosomal subunit assembly), indicating the proteins function primarily in ribosome production and initiation of protein synthesis; other terms appear incidental. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0042273","count":2}]},{"hash":"1215703420221250735","title":"Glucocorticoid-regulated cytokine signaling","description":"This cluster centers on immune signaling and cytokine production (IL-2 and IL-10), with regulation of the ERK/MAPK pathway and NF-kappaB activity, plus a response to dexamethasone. Mitochondrial stress-related terms (cytochrome c release regulation and cardiolipin metabolism) fit with glucocorticoid-modulated apoptosis and stress responses, suggesting a cohesive theme of glucocorticoid-influenced inflammatory signaling linked to mitochondrial stress pathways.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090201","count":2},{"id":"GO:0045086","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0051092","count":2}]},{"hash":"2060803636923781447","title":"RNA Splicing Regulation and Chromatin Remodeling","description":"This cluster is dominated by mRNA splicing terms (spliceosome, splicing regulation) and chromatin dynamics (chromatin remodeling, nucleosome movement), with supporting signals from stress-related mRNA stability and cold response, suggesting coordinated post-transcriptional control within a chromatin context.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0031047","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0010610","count":3}]},{"hash":"834850496137007950","title":"Ubiquitin-Dependent Mitotic Regulation","description":"The top GO terms center on protein polyubiquitination and mitotic spindle dynamics (including spindle assembly and checkpoint deactivation), suggesting the proteins regulate mitosis through ubiquitin signaling. While there are also terms related to translation and synaptic plasticity, the dominant theme ties ubiquitination to cell-cycle control and spindle function during mitosis.","confidence":"High","size":7,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0051441","count":1},{"id":"GO:1905705","count":1},{"id":"GO:1902426","count":1}]},{"hash":"2053244080479130011","title":"Neural and muscular development signaling","description":"This cluster centers on developmental processes across tissues, especially neural development (axonogenesis, synaptic potentiation, excitatory postsynaptic potential) and muscular/vascular development (myoblast fusion, heart development, angiogenesis). While a couple of terms are less directly related (e.g., plant-specific abscisic acid signaling, yeast bud site selection), the overarching theme is multicellular development and tissue-specific signaling with a neural/muscular emphasis. Medium","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007121","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0060079","count":4}]},{"hash":"1746073343914705745","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0006353","count":2},{"id":"GO:0031564","count":2},{"id":"GO:0006351","count":2}]},{"hash":"2029615481071414193","title":"Unknown","description":"These terms span several unrelated biological areas: DNA replication and mitotic chromatid biorientation (cell division); neuron development and axon guidance (neural development); T cell differentiation and signaling; protein processing and nuclear export; autophosphorylation and collagen receptor signaling. The absence of a shared, coherent function across the cluster makes it impossible to assign a single, representative label.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0008045","count":3},{"id":"GO:0046638","count":2},{"id":"GO:0010954","count":2},{"id":"GO:0046826","count":2}]},{"hash":"1656863216650166418","title":"Mitotic Cell Cycle and Spindle Assembly","description":"The most represented terms are about mitosis and cell cycle progression (anaphase-promoting complex-dependent catabolic process, cell division, mitotic cell cycle, mitotic spindle assembly). A few terms touch ribosome biogenesis or histone modification, but they are not central to the cluster\u2019s main theme. Thus, labeling the cluster around mitotic processes best reflects its function.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0031145","count":3},{"id":"GO:2001162","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1320861115307332336","title":"Developmental and signaling in muscle, neural, and cardiac tissues","description":"The terms cluster around tissue development (muscle, kidney tubule), muscle/cardiac function (myosin II assembly, cardiac conduction), and neural signaling (presynaptic calcium regulation, memory), suggesting a theme of development coupled with intercellular signaling in muscle, neural, and heart contexts; a few terms are broader or unrelated, giving only moderate confidence.","confidence":"Medium","size":7,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0061087","count":2},{"id":"GO:0000272","count":2},{"id":"GO:0072286","count":2},{"id":"GO:2000678","count":2}]},{"hash":"1503020960220282544","title":"Epidermal differentiation and neural development signals","description":"Several GO terms point to epidermal/skin development (skin development, keratinization) and neural development (neuron migration), with additional hints of developmental remodeling via hormonal and apoptotic pathways (cellular response to insulin stimulus, glucocorticoid catabolic process, cytochrome c release). The cluster appears to converge on differentiation and development in epithelial and neural contexts, modulated by stress/hormonal signaling and apoptosis. ","confidence":"Medium","size":7,"edges":14,"triangles":12,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":2},{"id":"GO:0001836","count":2},{"id":"GO:0032869","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0006713","count":2}]},{"hash":"1100626560463040065","title":"NF-kappaB\u2013driven inflammatory response","description":"The top GO terms cluster around NF-kappaB signaling and inflammatory responses (positive regulation of NF-kappaB activity, inflammatory response, defense against protozoan, prostaglandin/fever-related regulation), with several cell-type-specific apoptotic terms linked to inflammation. A generic protein homotrimerization term appears incidental. Overall, the proteins seem tied to NF-kappaB\u2013mediated immune/inflammatory activity.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0070207","count":3},{"id":"GO:0071812","count":3},{"id":"GO:0007275","count":3}]},{"hash":"2070256043269090357","title":"Embryonic organogenesis regulators","description":"The Top Terms center on development and differentiation across multiple organs (ureteric bud morphogenesis, ureter development, pancreatic and gonadal development, trachea cartilage formation, and muscle/nerve lineage differentiation), with both positive and negative regulation aspects. This suggests a broad set of proteins involved in embryonic organogenesis rather than a single pathway, so a general label of embryonic organogenesis regulators fits best.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000020","count":3},{"id":"GO:0001657","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060534","count":2},{"id":"GO:0072193","count":2}]},{"hash":"1424805218666685864","title":"Neural development and TGF-beta signaling","description":"The top GO terms cluster around neural development (forebrain development, neuron and glial apoptotic processes) and signaling responses to TGF-beta, plus growth and signaling activities (positive regulation of GTPase activity and peptidyl-tyrosine phosphorylation), suggesting this protein set functions in neural tissue development with TGF-beta\u2013driven signaling and related apoptosis/growth processes.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":7},{"id":"GO:0030900","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0050731","count":6},{"id":"GO:0035264","count":6}]},{"hash":"762901105346290171","title":"Meiosis spindle assembly and oocyte maturation","description":"The top GO terms strongly point to meiotic processes in female gametogenesis, including spindle assembly in female meiosis I, oocyte maturation, and microtubule polymerization, complemented by ubiquitin-mediated regulation during the cell cycle. These together suggest a coherent theme of meiotic progression and cytoskeletal dynamics in oocytes. A couple of terms (neural tube development, circadian rhythm regulation) appear less directly connected and may reflect broader annotations, but they do not override the core ME/Oocyte maturation signal. ","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0021993","count":4},{"id":"GO:0007057","count":4},{"id":"GO:1903378","count":4},{"id":"GO:1902916","count":4},{"id":"GO:0070544","count":4}]},{"hash":"216039223355197477","title":"Transcriptional Regulation of Osteoblast and Myotube Differentiation","description":"Most frequent terms center on DNA-templated transcription and negative regulation of differentiation in bone (osteoblast) and muscle (myotube) lineages, with signals related to androgen receptor signaling and parathyroid hormone response. This points to a cluster of transcriptional regulators that modulate bone and muscle differentiation and respond to hormonal cues, possibly linking transcription control with telomere maintenance in maintaining cell state. ","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0045668","count":5},{"id":"GO:0043433","count":5},{"id":"GO:0060766","count":5},{"id":"GO:0000117","count":4}]},{"hash":"1347391615561696863","title":"ER-Golgi trafficking and stress signaling","description":"The top terms are dominated by ER-to-Golgi transport, retrograde Golgi-ER transport, SNARE disassembly, endocytosis, and unfolded protein response, pointing to vesicle trafficking and ER quality control as the core function; additional terms like transcription and Wnt signaling may reflect broader coordination with cell-cycle processes, but trafficking and ER stress are the strongest shared theme.","confidence":"Medium","size":7,"edges":9,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0060070","count":2},{"id":"GO:0030968","count":2}]},{"hash":"1267217423032062806","title":"Unknown","description":"The listed GO terms span immune differentiation, neuronal development, cell signaling, cytoskeletal organization, and various transport/processing processes with no clear shared function or pathway connecting all proteins. Edges and triangles are zero, suggesting no cohesive interaction module. Therefore there isn\u2019t a single intuitive label that accurately captures the cluster\u2019s common function.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042997","count":5},{"id":"GO:0046638","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0046826","count":4},{"id":"GO:0048666","count":4}]},{"hash":"2301655991981056228","title":"Nuclear transcription and mitotic regulation","description":"This cluster is dominated by nuclear and cell-cycle related functions: DNA-templated transcription, localization to the kinetochore, negative regulation of cyclin-dependent kinase activity, mitotic sister chromatid biorientation, protein trans-autophosphorylation, and negative regulation of protein export from the nucleus, pointing to coordinated control of gene expression and mitosis. A few terms about neuron development and T cell differentiation are less central to this core signal, suggesting some cross-functional annotations or broader regulatory roles, but they do not override the main theme. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046826","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0034501","count":6},{"id":"GO:0045736","count":6},{"id":"GO:0046638","count":5}]},{"hash":"807455404956207822","title":"Multifunctional signaling and cell-cycle regulators","description":"The top GO terms span regulation across autophagy, several signaling pathways (Notch, MAPK/ERK/JNK, T cell receptor), vascular permeability, and cell division processes (mitotic spindle elongation, kinetochore localization), plus vesicle clustering regulation. This indicates a cluster of proteins with broad regulatory roles across signaling and cell-cycle-related processes, rather than a single pathways focus.","confidence":"Medium","size":7,"edges":8,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016239","count":1},{"id":"GO:0050860","count":1},{"id":"GO:0007219","count":1},{"id":"GO:0070373","count":1},{"id":"GO:0043117","count":1}]},{"hash":"1058069984422663757","title":"Glycolysis and glycogen breakdown","description":"Dominant GO terms point to glycolysis and carbohydrate metabolism (canonical glycolysis; glycogen catabolic process; fructose-6-phosphate metabolic process; glucose-1-phosphate entry via storage polysaccharides). A few immune-related terms are present but appear secondary to the metabolic signals. Therefore, the cluster is best described as glycolysis and glycogen breakdown.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":3},{"id":"GO:0014075","count":2},{"id":"GO:0061621","count":2},{"id":"GO:0093001","count":2},{"id":"GO:0005980","count":2}]},{"hash":"679048225271470049","title":"Developmental cell migration and morphogenesis","description":"These terms point to cell movement and tissue morphogenesis (lamellipodium assembly, lateral motor column neuron migration, renal vesicle morphogenesis, cardiac muscle differentiation). While there are some unrelated or obsolete terms, the dominant theme across the top GO terms is development-related cell motility and morphogenesis.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":3},{"id":"GO:0097477","count":3},{"id":"GO:0016032","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0055011","count":2}]},{"hash":"2248234930822862415","title":"Mitotic Cell Cycle Regulation","description":"The top GO terms are dominated by mitosis- and transcription-regulation functions, including regulation of DNA-templated transcription, mitotic cell cycle, APC/C-dependent catabolic process, and K11-linked ubiquitination, which together point to controlled protein turnover and chromatin regulation during cell division. While a few metabolic terms appear in the list, they seem incidental to the main theme of cell-cycle control and chromatin-associated regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0000278","count":2},{"id":"GO:2001162","count":2}]},{"hash":"2092812348640624134","title":"NF-kappaB-driven inflammatory and apoptotic signaling","description":"The cluster is dominated by GO terms related to NF-kappaB pathways (canonical and non-canonical) and inflammatory response, plus DISC assembly and regulators of endothelial apoptosis, with oxidative stress hints. This suggests a coherent function centered on NF-kappaB\u2013mediated inflammation and cell death signaling.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0071550","count":2},{"id":"GO:0007613","count":2}]},{"hash":"1716513246782768779","title":"ER proteostasis and redox homeostasis","description":"This cluster is enriched for endoplasmic reticulum\u2013associated processes: protein folding in the ER, ER stress response, and redox detoxification/homeostasis terms, plus related oxidation-reduction activity. The combination points to a module coordinating ER proteostasis with cellular redox balance; other terms about transcription/splicing and nuclear transport are present but appear less central to the core theme.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0034975","count":2},{"id":"GO:0055114","count":2}]},{"hash":"228765547518559730","title":"Amino acid metabolism and gluconeogenesis","description":"This cluster centers on amino acid biosynthesis (lysine, leucine) and related catabolic and energy-yielding pathways (gluconeogenesis, ketone body biosynthesis), with additional catabolic processes for aromatic compounds. A starvation-response signal also aligns with metabolic reprogramming during energy shortage. Some terms (e.g., liver development) seem off-species or incidental, but the dominant theme is metabolic pathways tied to amino acids and energy production.","confidence":"Medium","size":7,"edges":15,"triangles":14,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":3},{"id":"GO:0006094","count":3},{"id":"GO:0009098","count":3},{"id":"GO:0042594","count":2},{"id":"GO:0006552","count":2}]},{"hash":"1239503910558595674","title":"Ribosome biogenesis and large subunit assembly","description":"This cluster is dominated by GO terms tied to maturation and processing of rRNA for the large subunit (5.8S/LSU), export of the LSU from the nucleus, and assembly of the large subunit/preribosome, which collectively define ribosome biogenesis and LSU maturation. While there are a few unrelated terms present, the core signals point to ribosome assembly as the shared function.","confidence":"High","size":7,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0000055","count":1}]},{"hash":"1597085379886316149","title":"Neurodevelopment and RTK signaling","description":"The most represented terms point to nervous system development (including peripheral nervous system) along with axial mesoderm formation and pericyte differentiation, and there is a clear signal of cell surface receptor tyrosine kinase signaling with autophosphorylation. This suggests a cohesive theme of neurodevelopment shaped by RTK signaling in developing tissues.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0007432","count":7},{"id":"GO:0007169","count":7},{"id":"GO:1904238","count":7},{"id":"GO:0048320","count":7}]},{"hash":"2103563079566699128","title":"Hormone and vitamin biosynthesis","description":"This cluster centers on biosynthetic pathways for various signaling and vitamin-related molecules, including steroid hormones (androgen, aldosterone, ecdysone), retinoic acid, vitamin D, brassinosteroids, and oxylipins. While not all terms point to a single direct function, the unifying theme is the synthesis of lipid- and hormone-like metabolites rather than a specific enzyme activity, making this label representative of the cluster\u2019s function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042904","count":2},{"id":"GO:0008209","count":1},{"id":"GO:0042369","count":1},{"id":"GO:0032342","count":1},{"id":"GO:0033072","count":1}]},{"hash":"2284661137018185572","title":"Mitotic cell cycle and neural development","description":"This cluster mixes strong mitotic terms (mitotic cell cycle, negative regulation of mitotic DNA replication initiation, meiotic spindle elongation, metaphase/anaphase transition) with neural development signals (nervous system development, axon extension, synaptic plasticity). The presence of stress fiber assembly also points to cytoskeletal remodeling common to both cell division and neurite outgrowth. Together, these terms suggest proteins that bridge cell cycle regulation and neural differentiation/outgrowth, though the connection is broad rather than singular. Confidence: Medium","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0045773","count":1},{"id":"GO:0007399","count":1},{"id":"GO:1903467","count":1},{"id":"GO:0031915","count":1}]},{"hash":"1449492458592361218","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0010610","count":6},{"id":"GO:0010323","count":5},{"id":"GO:0010738","count":5},{"id":"GO:0070935","count":5}]},{"hash":"1120564196837358640","title":"Neuronal axon guidance and synapse assembly","description":"This cluster is dominated by GO terms about neural development, especially synapse assembly and axon guidance (including serotonergic and dopaminergic neuron axon guidance, and positive regulation of synapse assembly), along with neuronal stem cell maintenance. A few terms relate to heart/endothelial development, which appear ancillary to the main neural theme and may reflect pleiotropy or annotation noise. Thus the core shared function is neuronal axon guidance and synapse formation.","confidence":"High","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0060488","count":2},{"id":"GO:0007416","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0003273","count":2}]},{"hash":"150529298109848424","title":"Embryogenesis and Organogenesis Regulation","description":"These proteins are linked to embryonic development and tissue formation (left-right patterning, cartilage morphogenesis, placenta and pancreatic development, EMT) and include regulation of transcription; together they point to coordination of developmental programs during organogenesis, hence this label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0035270","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060806","count":2}]},{"hash":"401243913822542601","title":"Rac-Driven Actin Remodeling in Neural Development","description":"The proteins in this cluster co-occur with GO terms centered on actin cytoskeleton dynamics (actin filament movement, lamellipodium assembly, barbed-end capping) and Rac signaling, combined with neural-development\u2013related processes (dendrite extension, floor plate development, myelination) and cellular polarity (bipolar bud site selection). A single outlier term related to T cell antigen processing is less representative, so the core theme is actin-driven remodeling in neural development.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0036292","count":2},{"id":"GO:0030048","count":2},{"id":"GO:0007121","count":2},{"id":"GO:0033504","count":2},{"id":"GO:0010592","count":2}]},{"hash":"678341819232775314","title":"Apoptosis with MOMP regulation and endosomal sorting","description":"The cluster centers on programmed cell death, with multiple terms for apoptotic processes and mitochondrial outer membrane permeabilization regulation, plus calcium transport and endosomal/vesicle trafficking (multivesicular body sorting) that connect membrane dynamics to signaling and processing pathways such as EGFR signaling and APP metabolism. This supports a coherent theme of apoptosis intertwined with membrane trafficking and protein processing.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0006919","count":3},{"id":"GO:0070588","count":2},{"id":"GO:1902004","count":2},{"id":"GO:0071985","count":2}]},{"hash":"1938376799813089841","title":"Cardiac conduction and rhythm regulation","description":"This cluster is dominated by GO terms on ventricular action potential regulation, heart rate control via cardiac conduction, and membrane depolarization/repolarization, indicating a cardiac electrophysiology/contraction theme. A few terms (ossification, cerebellum maturation, jasmonic acid biosynthesis) seem unrelated and may reflect annotation noise, but the core signal supports a cardiac rhythm/electrophysiology function.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":7},{"id":"GO:0098911","count":6},{"id":"GO:0086091","count":6},{"id":"GO:0043149","count":6},{"id":"GO:0021590","count":5}]},{"hash":"1404127788101843447","title":"Secretory pathway and vesicle trafficking","description":"GO terms in this cluster mainly point to ER-to-Golgi transport, Golgi ribbon formation, exocytosis regulation, and protein targeting to membranes and organelles (plasma membrane, vacuole). This combination strongly suggests roles in the secretory pathway and intracellular vesicle trafficking, including retrograde transport, with some sporulation-related terms reflecting vesicle dynamics in specific contexts. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031321","count":3},{"id":"GO:0090161","count":3},{"id":"GO:1903078","count":3},{"id":"GO:0045956","count":3},{"id":"GO:0006888","count":3}]},{"hash":"836466735547072314","title":"DNA Transcription Regulation & Chromatin Modification","description":"The GO terms dominant in this cluster relate to regulation of DNA-templated transcription and transcription processes, along with chromatin-related modification (histone deubiquitination and RITS complex assembly). Although a couple of terms are unrelated (axon targeting, mechanosensation, GPI anchor), the core theme appears to be control of gene expression and chromatin state.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045893","count":1},{"id":"GO:0043569","count":1},{"id":"GO:0043085","count":1},{"id":"GO:0016578","count":1},{"id":"GO:1904802","count":1}]},{"hash":"1388556705700787257","title":"Cardiac development and hormone signaling","description":"These terms point to developmental processes with hormonal regulation: cardiac muscle differentiation (ventricular and general), steroid hormone signaling, retinoic acid response, and prostate gland morphogenesis, suggesting proteins in this cluster participate in development and differentiation guided by hormonal cues.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007566","count":1},{"id":"GO:1901522","count":1},{"id":"GO:0045994","count":1},{"id":"GO:0051289","count":1},{"id":"GO:0060038","count":1}]},{"hash":"2072473260113470765","title":"Immune MAPK Signaling Regulation","description":"The top GO terms point to regulation of signaling cascades, especially MAPK pathways (JNK and ERK) and related phosphorylation, plus immune contexts like T cell receptor signaling and mast cell degranulation. While neural development terms and cell cycle are present, the strongest and most recurrent theme centers on regulation of MAPK signaling in immune-related processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0046330","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0070374","count":3}]},{"hash":"1362983488616620950","title":"RNA transcription and ribosome biogenesis","description":"This cluster combines GO terms for transcription by RNA polymerases I\u2013III, RNA-templated transcription, tRNA transcription/processing, and ribosome biogenesis with translation, indicating a coordinated group involved in RNA production and ribosome assembly.","confidence":"High","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0008033","count":2},{"id":"GO:0006366","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0006360","count":1}]},{"hash":"931281667126695771","title":"DNA damage response and repair","description":"These proteins cluster around genome maintenance: DNA replication and biosynthesis during cell division, and multiple DNA repair pathways (base-excision repair, pyrimidine dimer repair, gamma radiation response). Deubiquitination suggests regulation of DDR signaling, and inflammatory response fits downstream DDR, with V-D-J recombination reflecting DNA rearrangement mechanisms that use similar repair machinery. Overall, the theme is genome integrity maintenance under stress.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071897","count":3},{"id":"GO:0071707","count":2},{"id":"GO:0010332","count":2},{"id":"GO:1990506","count":2},{"id":"GO:0055093","count":2}]},{"hash":"2107601913234696907","title":"Arabinogalactan Protein Glycosylation and Seed Mucilage Biosynthesis","description":"This cluster is driven by GO terms tied to arabinogalactan proteins (AGPs) and their O-linked hydroxyproline glycosylation, including AGP metabolic process and poly-N-acetyllactosamine biosynthesis, along with seed coat mucilage biosynthesis. The combination of AGP metabolism, glycosylation pathways, and related developmental processes like seed mucilage and root hair development suggests a cohesive theme around AGP-rich cell walls and their biosynthesis. Confidence: High","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048354","count":1},{"id":"GO:0010493","count":1},{"id":"GO:0042248","count":1},{"id":"GO:0030311","count":1},{"id":"GO:0018258","count":1}]},{"hash":"379606963765396013","title":"Chromatin remodeling and transcription regulation","description":"The top terms cluster around nucleosome dynamics, histone acetylation, and regulation of RNA polymerase II transcription, including preinitiation complex assembly. A DNA replication term is present but less dominant, suggesting the proteins mainly function in chromatin-associated transcription control, with some replication linkage. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0001302","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0042766","count":2},{"id":"GO:1900446","count":2}]},{"hash":"1181299339022125381","title":"Oxidative Stress Response and Redox Detoxification","description":"The GO terms point strongly to redox biology: cellular response to oxidative stress, cellular oxidant detoxification, and protein deglutathionylation, plus an obsolete oxidation-reduction reference, indicating a cohesive theme of managing oxidative stress. Some terms (methylamine metabolism, sodium/cation stress response, neural crest migration) seem peripheral or context-dependent, but the dominant signal aligns with redox balance and detoxification mechanisms.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0034599","count":2},{"id":"GO:0030416","count":2},{"id":"GO:2000651","count":2},{"id":"GO:0071473","count":2}]},{"hash":"2215421336987820783","title":"Metal ion transport and calcium homeostasis","description":"The top GO terms point to transmembrane transport of zinc, cadmium, and copper, along with intracellular calcium ion homeostasis, suggesting a core theme of metal ion transport and Ca2+ regulation across the cluster. Some other terms are more peripheral (e.g., serine biosynthesis, LPS biosynthesis, stilbene catabolism) but do not override the primary signal of metal ion handling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097755","count":2},{"id":"GO:0046839","count":2},{"id":"GO:0071577","count":2},{"id":"GO:0006564","count":2},{"id":"GO:0006874","count":2}]},{"hash":"2300395707387951528","title":"Purine metabolism and phosphorylation signaling","description":"The cluster shows strong enrichment for adenosine metabolic process and purine nucleotide catabolic process, paired with phosphorylation and dephosphorylation terms, suggesting a shared role in nucleotide metabolism coupled to signaling via phosphorylation. Some other terms are minor or obsolete, so the core theme is nucleotide metabolism linked to phosphorylation-based regulation.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046085","count":3},{"id":"GO:0006195","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0016311","count":3},{"id":"GO:0080111","count":1}]},{"hash":"1175299516279204198","title":"Unknown","description":"The Top Terms span transcription, DNA replication, RNA processing, proteasome assembly, metabolism, differentiation, telomere maintenance, and cell migration, showing no single cohesive function or pathway tying all proteins together. This broad, heterogeneous mix suggests no clear, shared biological theme for a concise cluster label.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0070682","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006006","count":2},{"id":"GO:0006397","count":2}]},{"hash":"1125626105533591333","title":"Translation Initiation Regulation and eIF3 Assembly","description":"The top GO terms cluster around regulation and assembly of translation initiation: regulation of translational initiation, formation of translation preinitiation complex, formation of cytoplasmic translation initiation complex, and eIF3 complex assembly, plus IRES-dependent viral initiation. The presence of related processes like ubiquitin-dependent protein catabolic process and protein deneddylation suggests regulation of initiation factors via turnover and modification. A few terms (e.g., germ-line encapsulation) may be incidental. Overall, the proteins appear tied to assembly and control of the translation initiation machinery.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:0034260","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0048140","count":2}]},{"hash":"1156435676596471260","title":"Neurodevelopmental Embryogenesis","description":"The top GO terms center on neural development and embryonic processes, including trigeminal ganglion development, neuroblast differentiation, forebrain neuron-type commitment, spinal cord oligodendrocyte fate specification, and neurohypophysis development, with additional embryogenesis terms like in utero development and organ induction. This points to a cohesive theme of neural lineage specification during embryonic growth, spanning CNS and PNS contexts, rather than unrelated functions. High","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061551","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0014016","count":1},{"id":"GO:0021902","count":1}]},{"hash":"223127119084043183","title":"Transmembrane Ion and Small Molecule Transporters","description":"The GO terms show diverse transmembrane transport roles for ions (Na+, K+, phosphate, nitrite, nitrate), small organic molecules (arabinose, 4-hydroxyphenylacetate), and xenobiotics, plus neurotransmitter loading into synaptic vesicles. This points to a cluster of proteins functioning primarily as membrane transporters or permeases, rather than enzymes or signaling proteins, with a common theme of transporting substances across membranes.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006817","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0035725","count":1},{"id":"GO:0015751","count":1},{"id":"GO:0071805","count":1}]},{"hash":"813378973714791782","title":"Receptor tyrosine kinase signaling","description":"The top GO terms cluster around RTK activity and downstream signaling: collagen-activated tyrosine kinase receptor signaling, peptidyl-tyrosine autophosphorylation, and ERK1/ERK2 cascade regulation, with accompanying calcium signaling and cytoskeletal changes. This pattern suggests proteins in this cluster participate in RTK-mediated signal transduction that can influence proliferation and cytoskeletal dynamics.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007118","count":3},{"id":"GO:0010954","count":2},{"id":"GO:0038063","count":2},{"id":"GO:0038083","count":2},{"id":"GO:0045425","count":2}]},{"hash":"129342967591943781","title":"Viral replication, assembly, and latency","description":"The top terms cluster around stages of the viral life cycle\u2014host-mediated activation of viral genome replication, virion assembly, and proviral latency\u2014along with related processes like translation that viruses leverage in host cells. A few terms (lipid droplet organization, protein folding) are general cellular processes, but the core signal points to viral life cycle activities.","confidence":"Medium","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0044829","count":1},{"id":"GO:0034389","count":1},{"id":"GO:0019058","count":1},{"id":"GO:0019068","count":1}]},{"hash":"1836421741362889580","title":"RNAi and RNA Processing Machinery","description":"The cluster is dominated by RNA metabolism and defense-related terms: RISC complex assembly, siRNA processing, adenosine-to-inosine RNA editing, and rRNA processing, with additional signals for antiviral response and regulation of viral transcription. Translational termination and the virus-related terms fit within broader RNA processing and host defense contexts. A behavior-related term appears incidental rather than central to the core function of the cluster.","confidence":"High","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006415","count":2},{"id":"GO:0035087","count":2},{"id":"GO:0045433","count":2},{"id":"GO:0021965","count":2},{"id":"GO:0046782","count":2}]},{"hash":"1583359663990471758","title":"Central carbon metabolism","description":"The proteins are associated with core carbon pathways (glycolysis, TCA cycle, glyoxylate cycle, and related oxaloacetate/2-oxoglutarate metabolism) and extend into downstream biosynthetic processes (cobalamin, protoporphyrinogen IX, leucine). This suggests a cluster of enzymes involved in central carbon flow and the generation of biosynthetic precursors, rather than a single niche function.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":3},{"id":"GO:0009236","count":2},{"id":"GO:0002098","count":2},{"id":"GO:0006107","count":2},{"id":"GO:0019878","count":2}]},{"hash":"2061411447456013397","title":"Stress-Responsive Translational Control","description":"The cluster is dominated by GO terms related to regulation and initiation of cytoplasmic translation, and cellular responses to stress signals such as amino acid starvation, nitric oxide, and ethylene. The presence of positive regulation of GTPase activity supports a signaling layer that can modulate translation. While a few outlier terms (oligodendrocyte development, methionine salvage, viral replication) appear, the core theme ties to how cells adjust protein synthesis under stress, hence the label.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903833","count":3},{"id":"GO:0071732","count":2},{"id":"GO:0002183","count":2},{"id":"GO:0071369","count":2},{"id":"GO:0043547","count":2}]},{"hash":"465586977824216172","title":"Nuclear transcription and chromatin regulation","description":"This cluster centers on nuclear processes: DNA-templated transcription and chromatin-related regulation (nucleosome density, histone acetylation, chromatin silencing) plus a role in double-strand break repair via homologous recombination. The inclusion of metabolic stress signals (caloric restriction response, PKA activity) and senescence regulation suggests a coordinated transcriptional and chromatin-based response to metabolic cues that also involves DNA repair. Note that several GO terms are obsolete, but the core theme remains transcription/chromatin regulation linked to DNA repair and metabolic signaling.","confidence":"Medium","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0060303","count":2},{"id":"GO:0061433","count":2},{"id":"GO:0010569","count":2},{"id":"GO:2000481","count":2}]},{"hash":"681492094363830134","title":"Diverse Transmembrane Transporters","description":"The Top Terms are dominated by transmembrane transport activities for a range of substrates (ions like potassium and phosphate, metabolites like glucose and arabinose, and small molecules such as urate and nitrite) plus xenobiotic transport and a vesicular neurotransmitter loading term. This pattern points to a cluster of membrane transporter proteins with diverse substrates rather than a single substrate-specific family.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0006855","count":2},{"id":"GO:0015747","count":2},{"id":"GO:0015751","count":2},{"id":"GO:0006817","count":2}]},{"hash":"2165791421649507544","title":"Neural development and synaptic signaling regulators","description":"The proteins are annotated with GO terms tied to neural development and neuronal communication, including midbrain morphogenesis, retinal rod cell apoptotic processes, and synaptic vesicle exocytosis, along with signaling regulation (ARF, Rac) and integrin activation. An immune-related term (T cell activation) appears, likely as annotation noise or multi-function proteins, but the core theme centers on neural development and synaptic trafficking.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0002291","count":3},{"id":"GO:1904693","count":3},{"id":"GO:0032012","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0003374","count":3}]},{"hash":"1566719420395865658","title":"Mitotic spindle assembly and cytokinesis","description":"The top GO terms converge on cell division and cytoskeletal organization, notably mitotic/ cytokinetic processes (mitotic cytokinesis, spindle midzone assembly, cell division) and microtubule nucleation. This suggests the cluster reflects proteins involved in spindle formation and cytokinesis. Some terms (translation regulation, neuron differentiation, IL-4 response) are less directly linked, but the dominant signal is cytoskeletal and division machinery.","confidence":"Medium","size":6,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043093","count":3},{"id":"GO:0007020","count":3},{"id":"GO:2000767","count":3},{"id":"GO:1905792","count":3},{"id":"GO:0071353","count":3}]},{"hash":"1508555723665831716","title":"Unknown","description":"The top GO terms span diverse processes\u2014from neuropeptide signaling and substance P catabolic processes to organ development (kidney, ear), ion homeostasis, and growth factor signaling\u2014showing no single predominant function linking the proteins. With no edges and multiple disparate terms, the cluster lacks a coherent biological theme; a concise label cannot be assigned beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050435","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0043583","count":2},{"id":"GO:0001921","count":2},{"id":"GO:0010961","count":2}]},{"hash":"1952221712190772657","title":"RNA silencing and antiviral defense","description":"The top GO terms cluster around RNA interference components (siRNA processing, RISC complex assembly) and antiviral responses (response to virus, regulation of viral transcription), with RNA editing also present. While translation-related terms appear, the dominant theme is RNA silencing machinery and antiviral defense, making this the most representative label.","confidence":"High","size":6,"edges":12,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0070126","count":1},{"id":"GO:0035087","count":1},{"id":"GO:0045433","count":1},{"id":"GO:0021965","count":1}]},{"hash":"10428329500131464","title":"Embryonic Morphogenesis Across Tissues","description":"The top GO terms cluster around development and morphogenesis of various embryonic structures (palate, otic vesicle, hypothalamus, habenula, digestive tract) and related blood vessel morphogenesis. This suggests a general, multi-tissue developmental program rather than a single tissue-specific function, with transcription regulation terms likely reflecting common gene regulatory roles in development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0030916","count":3},{"id":"GO:0035019","count":3},{"id":"GO:0060033","count":3}]},{"hash":"556337704914104415","title":"Neurodevelopment and sensory organ morphogenesis","description":"GO terms indicate nervous system development, otic placode formation, neurohypophysis development, retinal and neuron-related processes, and salivary gland morphogenesis, all pointing to developmental signaling governing neural and sensory organ formation. The cluster appears to group proteins involved in neural development and related sensory/gland morphogenesis rather than a single pathway. Therefore, the label captures the central theme, with moderate confidence given term diversity and single-term counts.","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":1},{"id":"GO:0001759","count":1},{"id":"GO:0018108","count":1},{"id":"GO:0060665","count":1},{"id":"GO:0045668","count":1}]},{"hash":"1420864551628144790","title":"Muscle development and actin cytoskeleton remodeling","description":"The top GO terms point to muscle fiber formation and adaptation (skeletal muscle thin filament assembly, skeletal muscle fiber adaptation) alongside actin- and cytoskeleton-related processes (actin cortical patch localization, cell shape regulation, mesenchyme migration). Together they suggest a coherent theme of cytoskeletal remodeling driving muscle development and tissue morphogenesis, with some historical/obsolete histone terms present as less informative outliers. Overall, the cluster represents cytoskeletal dynamics linked to muscle differentiation and cell morphology.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":4},{"id":"GO:0030240","count":4},{"id":"GO:0090131","count":4},{"id":"GO:0043983","count":4},{"id":"GO:0043486","count":4}]},{"hash":"1026067377808692953","title":"Unknown","description":"This cluster's top GO terms span retina development, nucleotide biosynthesis, metal transport, protein oligomerization, immune signaling, and osmoprotectant synthesis, with obsolete annotations as well; there is no coherent, testable theme tying these proteins together, so a reliable label cannot be assigned.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0060041","count":5},{"id":"GO:0006177","count":5},{"id":"GO:1903830","count":5},{"id":"GO:0051289","count":5},{"id":"GO:0071353","count":5}]},{"hash":"1447300022628661771","title":"GPCR Signaling and Ca2+/cAMP Regulation","description":"The top GO terms point to G-protein coupled receptor signaling, including opsin-mediated pathways, calcium release, and adenylate cyclase/cAMP signaling, all tied together by phosphorylation processes. This suggests the cluster's proteins are involved in GPCR-driven signal transduction and its downstream phosphorylation cascades, rather than a single specialized process. Some terms like heart development and diet-induced thermogenesis appear tangential but do not override the dominant GPCR-centered theme.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006468","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0051281","count":5},{"id":"GO:0022400","count":5},{"id":"GO:0043950","count":5}]},{"hash":"785824478922029304","title":"Spliceosome-regulated RNA splicing and translation control","description":"The cluster is dominated by GO terms tied to spliceosome-mediated mRNA splicing (both positive and negative regulation) and regulation of translation initiation/reinitiation, plus ncRNA-mediated gene silencing and mRNA tail regulation. Together these indicate a theme of RNA processing and coordinated control of translation, despite a few outliers. ","confidence":"High","size":6,"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:1903586","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0001825","count":4}]},{"hash":"623700023036978308","title":"Ubiquitin-Dependent ERAD/Degradation","description":"Based on the GO terms, this cluster centers on ubiquitin tagging and degradation pathways (ubiquitination, polyubiquitination, ubiquitin-dependent proteolysis, ERAD, aggresome formation, autoubiquitination). The group likely comprises proteins involved in proteostasis and quality control of misfolded proteins through the ER-associated degradation pathway, with some ancillary links to immune signaling. ","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0070842","count":3},{"id":"GO:1903265","count":3},{"id":"GO:0051865","count":3}]},{"hash":"976347971887404298","title":"Meiotic division and spindle regulation","description":"The top GO terms cluster around meiotic processes (regulation of the meiotic cell cycle involved in oocyte maturation, female meiotic nuclear division, meiotic spindle elongation) and general cell division, plus related nuclear transport and GTPase-regulation signals, suggesting a coherent module governing meiosis and spindle dynamics. A single term about extrinsic apoptotic signaling is present but does not override the meiotic focus. This makes a cohesive meiotic division/spindle control label appropriate.","confidence":"High","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006607","count":3},{"id":"GO:0007050","count":3},{"id":"GO:0050790","count":2},{"id":"GO:0051291","count":2}]},{"hash":"1419192671170877269","title":"Microtubule dynamics and spindle regulation","description":"Predominant GO terms describe mitotic/meiotic spindle assembly, cytokinesis regulation, and microtubule-based processes, with additional depolymerization activities and neuron projection maintenance. Together they indicate a core theme of microtubule dynamics guiding cell division and neuronal structure, making 'Microtubule dynamics and spindle regulation' a concise, representative label for this cluster.","confidence":"High","size":6,"edges":10,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048364","count":4},{"id":"GO:0032467","count":3},{"id":"GO:0000281","count":3},{"id":"GO:0000073","count":2},{"id":"GO:0051296","count":2}]},{"hash":"1957165056109016299","title":"Proteostasis and cell cycle regulation","description":"This cluster's top GO terms center on protein homeostasis and cell-cycle processes: protein phosphorylation; ubiquitin-dependent ERAD and proteasomal degradation; and regulation of mitotic cell cycle and cell division. Together these point to proteins involved in controlling protein turnover during cell-cycle progression, with a possible link to ciliogenesis; some older terms are present but reflect annotation history rather than core function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006468","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0030850","count":2}]},{"hash":"1449728373992140544","title":"Mitochondrial Transport and Energy Regulation","description":"The prominent GO terms describe mitochondrial transmembrane transport (ATP, citrate, phosphate) and membrane permeability, indicating a mitochondria-centered role in energy metabolism. Supporting terms about insulin signaling and adaptive thermogenesis suggest metabolic regulation, with a pregnancy term likely context-specific noise; together they point to a functional cluster centered on mitochondrial transport and energy control.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990544","count":1},{"id":"GO:1990845","count":1},{"id":"GO:0046902","count":1},{"id":"GO:0007565","count":1},{"id":"GO:0061179","count":1}]},{"hash":"728222506279374822","title":"Cell signaling and cytoskeleton remodeling in diverse cells","description":"The terms point to signaling pathway regulation (JNK cascade, PKA-related regulation), cytoskeleton and movement processes (pseudopodium assembly, cytokinesis), sensory cell morphogenesis, epithelial polarity, and immune functions (macrophage differentiation, complement-mediated cytotoxicity). This suggests a broad role for proteins in signaling and structural remodeling across multiple cell types in response to stimuli, rather than a single cohesive function.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000301","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0010738","count":3},{"id":"GO:0097278","count":3},{"id":"GO:0032467","count":3}]},{"hash":"144365900004752282","title":"Ubiquitin-dependent proteolysis and cell-cycle regulation","description":"The terms cluster around ubiquitin-mediated protein degradation (polyubiquitination, autoubiquitination, ubiquitin-dependent catabolic processes, ERAD) and regulation of the cell cycle, as well as apoptosis, suggesting a group of proteins involved in protein turnover and growth control. Peroxisomal import and some transcriptional regulation terms appear secondary or peripheral.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016558","count":2},{"id":"GO:0046621","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0000209","count":2},{"id":"GO:1900095","count":2}]},{"hash":"560209683309618414","title":"Neural development and synaptic regulation","description":"The GO terms suggest a blend of neural development processes (blastocyst development, neural tube closure, gastrulation-related epiboly) with synaptic maturation and transmission (dendrite morphogenesis, excitatory postsynaptic potential, synapse maturation, prepulse inhibition). The presence of chromatin organization and chromatin assembly terms implies potential chromatin-related regulation linked to these neural processes. Taken together, the cluster seems to reflect proteins involved in neural development and modulation of synaptic function, possibly with chromatin remodeling roles.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006336","count":2},{"id":"GO:0006335","count":2},{"id":"GO:0001824","count":2},{"id":"GO:0048814","count":1},{"id":"GO:0051968","count":1}]},{"hash":"1340420139410474714","title":"Signaling and cytoskeletal remodeling","description":"The cluster centers on regulation of signaling cascades (ERK, JNK) and processes that shape cell architecture (pseudopodium assembly, cytokinesis, epithelial polarity), with additional hints of immune differentiation and sensory/morphogenesis roles, suggesting a theme of coordinated signal transduction and cytoskeletal remodeling across diverse cell types.","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0043525","count":5},{"id":"GO:0010738","count":4},{"id":"GO:0097278","count":4},{"id":"GO:0032467","count":4}]},{"hash":"996959205415210169","title":"Transcription and ribosome biogenesis","description":"The proteins show enrichment for transcription by RNA polymerase I, II, and III, RNA-templated transcription and DNA-templated transcription elongation, plus ribosome biogenesis, indicating a cohesive transcriptional machinery cluster tied to ribosome production.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":1},{"id":"GO:0006366","count":1},{"id":"GO:0006360","count":1},{"id":"GO:0001172","count":1},{"id":"GO:0070893","count":1}]},{"hash":"1261121437577050633","title":"Unknown","description":"The terms cover diverse regulatory processes (phosphorylation, mitosis exit, nuclear transport, translation, migration, adhesion, Wnt signaling, spine morphogenesis) with no single dominant function tying the proteins together; thus a concise, meaningful label cannot be inferred.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":3},{"id":"GO:0010458","count":2},{"id":"GO:0000060","count":2},{"id":"GO:0042176","count":2},{"id":"GO:0035099","count":2}]},{"hash":"1702276451192876759","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0061158","count":6},{"id":"GO:0070842","count":6},{"id":"GO:0090086","count":6},{"id":"GO:1900246","count":6},{"id":"GO:0007026","count":6}]},{"hash":"1955160037509108395","title":"Viral translation initiation and mRNA export","description":"These proteins show a common signal around viral-associated translation and mRNA handling. The most represented GO terms are about translation initiation (formation of the preinitiation complex, regulation of translational initiation, IRES-dependent viral translational initiation) and viral mRNA export/translation reinitiation, suggesting a role in viral protein synthesis or host-virus interaction. A few unrelated terms are present but do not override the dominant translation/viral theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046784","count":1},{"id":"GO:1904668","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0075522","count":1}]},{"hash":"1561754732641486483","title":"Skeletal and Cartilage Development","description":"The top GO terms point to mesodermal and skeletal organization, including cartilage condensation, skeletal system development, and outer ear morphogenesis, with supporting signals like vitamin D3 metabolism and related pathways. This suggests the proteins function together in embryonic skeletal/cartilage formation and related mesodermal differentiation, despite occasional immune-related terms that may be incidental. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038063","count":3},{"id":"GO:0001502","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0048378","count":3},{"id":"GO:0002371","count":3}]},{"hash":"752163000168959613","title":"Cardiac rhythm regulation and calcium signaling","description":"This cluster is dominated by GO terms linking to heart electrophysiology (regulation of SA and AV node action potentials, regulation of heart contraction force) and calcium transport/signaling (calcium transporter activity, responses to caffeine and epinephrine). While a couple terms touch on development or tissue maturation, the strongest signals point to cardiac excitability and calcium handling functions.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0097050","count":2},{"id":"GO:0098904","count":2}]},{"hash":"466753563506710777","title":"TOR signaling and genome maintenance regulators","description":"The top GO terms point to regulation of TORC1/2 signaling, telomere maintenance, and mitotic DNA replication checkpoint signaling, suggesting a cohesive role in coordinating cell growth with genome stability and cell-cycle control. Other terms (chromosome localization, ubiquitin-dependent protein catabolic process) indicate broader regulatory links to chromosome dynamics and protein turnover, while a couple of terms (visual perception, pheromone-related transcription) may reflect annotation noise. Overall, the cluster appears to group proteins involved in growth signaling and genome integrity.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:1904263","count":1},{"id":"GO:0034502","count":1},{"id":"GO:1904515","count":1},{"id":"GO:0072443","count":1}]},{"hash":"2238066151338296047","title":"Unknown","description":"The GO terms span diverse areas (GPI-anchoring and cell-surface localization, vacuolar processing, plant stomatal patterning, renal system, ERBB signaling regulation, arginylation, and pH response) with no clear common function tying all six proteins together, so a cohesive functional label cannot be confidently assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016255","count":1},{"id":"GO:0034394","count":1},{"id":"GO:1990019","count":1},{"id":"GO:0010447","count":1},{"id":"GO:0003014","count":1}]},{"hash":"2112582773420459979","title":"Unknown","description":"The GO terms are highly varied, covering nervous system development, protein phosphorylation, endocytosis/exocytosis regulation and growth hormone response, with each term represented by only a single protein and no coherent core function. There is only a single edge, and no triangles, indicating little functional cohesion.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":1},{"id":"GO:0048550","count":1},{"id":"GO:0061508","count":1},{"id":"GO:0046777","count":1},{"id":"GO:0060416","count":1}]},{"hash":"256410705090106821","title":"Mitochondrial energy metabolism","description":"Most terms point to central carbon metabolism in mitochondria: acetyl-CoA biosynthesis, the TCA cycle, succinyl-CoA metabolism, and ketone body catabolism, which reflect core energy-producing pathways. Redox state and hormone response terms suggest metabolic regulation, while transcriptional regulation and sporulation terms may reflect broader regulatory or conditional annotations. Overall, the cluster seems centered on mitochondrial energy metabolism with related regulatory elements.","confidence":"Medium","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051775","count":1},{"id":"GO:0006085","count":1},{"id":"GO:0006099","count":1},{"id":"GO:0006104","count":1},{"id":"GO:0045892","count":1}]},{"hash":"1432650507201345410","title":"Photoreceptor-driven circadian and magnetoreception signaling","description":"The terms center on light sensing and circadian rhythm regulation, with magnetoreception signals and light-driven stomatal responses, plus a photoreceptor-chromophore linkage hint. This suggests a coherent theme of photoreceptor-mediated signaling linking environmental light to rhythms.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071000","count":1},{"id":"GO:0010617","count":1},{"id":"GO:0050980","count":1},{"id":"GO:0045475","count":1},{"id":"GO:0019915","count":1}]},{"hash":"2009893131721092871","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051593","count":1},{"id":"GO:0032355","count":1},{"id":"GO:0006289","count":1},{"id":"GO:0006296","count":1},{"id":"GO:0006284","count":1}]},{"hash":"316580115242424072","title":"Redox regulation and ion transport","description":"This cluster is characterized by GO terms tied to redox homeostasis (GO:0045454), protein glutathionylation (GO:0010731), regulation of mitochondrial membrane potential (GO:0051881), and various ion transport activities (chloride and sodium transmembrane transport). These together suggest a common theme of cellular redox balance linked to membrane potential and ion flux, with a few outliers (nucleotide-excision repair, osteoblast differentiation) that may reflect broader, incidental annotations. ","confidence":"Medium","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0030416","count":1},{"id":"GO:1902476","count":1},{"id":"GO:0045669","count":1},{"id":"GO:0060316","count":1}]},{"hash":"2249381962666570401","title":"Unknown","description":"The GO terms are scattered across diverse processes (DNA repair, mRNA stability, peptide hormone response, glycogen synthase regulation, phosphatidylinositol signaling, and renal water transport) with several obsolete entries, indicating no coherent, shared function for this small protein set. Hence there is no clear theme to name the cluster beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080111","count":1},{"id":"GO:0071375","count":1},{"id":"GO:2000466","count":1},{"id":"GO:1903507","count":1},{"id":"GO:0046856","count":1}]},{"hash":"2250750810910551696","title":"Steroid Hormone and Lipid Metabolism","description":"The top GO terms are dominated by steroid-related processes (androgen metabolic process, estrogen biosynthetic process, C21-steroid hormone metabolic process), indicating a core theme of steroid hormone metabolism. Additional lipid-related processes (retinol/retinoic acid biosynthesis, sphingolipid biosynthesis, steroid catabolic process) reinforce a lipid signaling/hormone metabolism theme. A couple of outlier terms (response to antibiotic, sporulation) are less representative, so the label reflects the main shared function.","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":2},{"id":"GO:0006703","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0042572","count":2}]},{"hash":"60582144471829167","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007004","count":2},{"id":"GO:0048813","count":2},{"id":"GO:0006541","count":2},{"id":"GO:0021756","count":2},{"id":"GO:0042417","count":2}]},{"hash":"115253710801430327","title":"Chromatin remodeling and transcription regulation","description":"The top GO terms cluster around nucleosome assembly, transcription regulation by RNA polymerase II, and DNA-templated transcription, pointing to a shared role in chromatin organization and control of gene expression. The presence of differentiation-related terms (skeletal muscle differentiation, dendritic cell differentiation, male gonad development) suggests these factors participate in developmental gene regulation via chromatin mechanisms, reinforcing a unifying theme of transcriptional control through chromatin context.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0006334","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0010452","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1139972001878273679","title":"Embryonic Organ Development","description":"Proteins in this cluster are linked to diverse embryonic development and morphogenesis across multiple organs (heart, limb, eye, placenta, gonads, etc.), suggesting a general theme of embryonic organogenesis rather than a single tissue-specific function.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021986","count":5},{"id":"GO:2000288","count":5},{"id":"GO:0035116","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0003148","count":5}]},{"hash":"714125414384248807","title":"Neuronal RNA Processing and Synapse Regulation","description":"The cluster combines GO terms tied to neural development and signaling (brain development, neuronal signal transduction, regulation of presynapse assembly) with RNA metabolism and translation control processes (mRNA splicing, mRNA processing, regulation of translational initiation, siRNA processing), suggesting a function related to RNA-mediated regulation in neurons and synapse assembly. Some terms are obsolete, but the overall pattern points to neuronal RNA processing linked to synaptic regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":1},{"id":"GO:0023041","count":1},{"id":"GO:1905606","count":1},{"id":"GO:1905618","count":1},{"id":"GO:0006446","count":1}]},{"hash":"1019213644410820528","title":"Multilineage development and differentiation","description":"The GO terms cluster around developmental and differentiation processes across multiple lineages (lung, forebrain neurons, erythrocytes, pharyngeal system, adipocytes) and include neuron-specific differentiation and erythroid commitment, plus a miscellaneous immune signal term. This suggests a theme of broad developmental differentiation rather than a single pathway, hence the label \u201cMultilineage development and differentiation.\u201d","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045599","count":2},{"id":"GO:0060430","count":2},{"id":"GO:0021902","count":1},{"id":"GO:0048821","count":1},{"id":"GO:0097154","count":1}]},{"hash":"549646953940399646","title":"Mammary Epithelial Proliferation and Mitotic Cell Cycle","description":"The top GO terms cluster around mitotic cell cycle transitions (G1/S, G2/M, re-entry) and mammary gland epithelial cell proliferation, with regulation of insulin signaling supporting growth cues; together they point to proliferation-focused functions in mammary tissue rather than unrelated processes.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000082","count":2},{"id":"GO:0000086","count":2},{"id":"GO:0046626","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0006351","count":2}]},{"hash":"712920802608314803","title":"Calcium signaling and muscle regulation","description":"The cluster\u2019s top GO terms cluster around calcium ion response and signaling (cellular response to calcium ion, RyR channel activity) and muscle-related processes (protein phosphorylation, positive regulation of cardiac muscle hypertrophy, muscle cell fate specification). These points hint at a shared role in calcium-driven signaling pathways that influence muscle development and function. Some terms like mammary gland involution or ascospore formation appear as outliers, suggesting broader or divergent annotations, but the core theme is calcium-dependent signaling linked to muscle biology.","confidence":"Medium","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071277","count":5},{"id":"GO:0006468","count":4},{"id":"GO:0050906","count":4},{"id":"GO:0060056","count":4},{"id":"GO:2000678","count":4}]},{"hash":"1437667944630622080","title":"Vertebrate neural development and transcription","description":"The top GO terms converge on vertebrate development and neural tissue formation, including neural tube closure, forebrain development, and general multicellular organism development, with an additional tie to DNA-templated transcription. These suggest a core of proteins involved in developmental regulation and neural system formation rather than a single pathway, though some stress/immune-related terms appear peripherally. Overall, the cluster most plausibly represents vertebrate neural development and transcriptional regulation during embryogenesis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001501","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0001843","count":3}]},{"hash":"606835937219556763","title":"Signaling and cytoskeletal regulation","description":"The top GO terms point to diverse signaling activities (tyrosine kinase signaling, immune and development signaling) as well as cytoskeletal and cell cycle processes (actin organization, centrosome duplication, chromatid biorientation). The cluster appears to group proteins involved in general signal transduction and regulation of cytoskeletal dynamics and cell division, rather than a single precise function. Confidence: Medium","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046638","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0046826","count":3},{"id":"GO:0048666","count":3},{"id":"GO:0036290","count":3}]},{"hash":"1756727777541443103","title":"Developmental growth and vesicle trafficking","description":"Top GO terms indicate broad developmental processes (skin development, multicellular organism development, ossification, growth, proliferation) alongside intracellular transport functions (COPII-coated vesicle budding, retrograde Golgi-ER transport) and cell division (mitotic spindle assembly). This suggests a cluster of proteins involved in development with supporting roles in vesicular trafficking and cell cycle, rather than a single highly specific function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0090307","count":2}]},{"hash":"594923220767188206","title":"Regulation of Translation and Signaling","description":"The proteins in this cluster appear linked by a regulatory theme spanning gene expression and cellular signaling: terms for regulation of translational initiation and translation reinitiation point to control of protein synthesis; mRNA splicing via the spliceosome indicates RNA processing regulation; ubiquitin ligase regulation and histone deubiquitination reflect post-translational and chromatin-level control; and both positive/negative regulation of canonical Wnt signaling along with T cell receptor signaling suggest involvement in signaling networks. While the set is small and somewhat heterogeneous, the unifying thread is regulatory control across expression and signaling pathways, justifying a label that emphasizes regulation rather than a single pathway.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051436","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0090263","count":2},{"id":"GO:1903586","count":2}]},{"hash":"321583831317344718","title":"Neural development and Notch signaling","description":"The proteins show a cohesive theme of neural development and patterning, with frequent terms for nervous system development, neuron and floor plate/midbrain-hindbrain boundary morphogenesis, spinal cord cell fate specification, and Notch signaling, pointing to involvement in neurodevelopment and related transcriptional regulation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042667","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0045668","count":5},{"id":"GO:0007219","count":5},{"id":"GO:2000678","count":5}]},{"hash":"1524889238727052645","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000472","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2}]},{"hash":"2014402016679543361","title":"Mitotic cell cycle regulation","description":"The top terms center on mitosis (G2/M transition, mitotic cell cycle, cell division) with a few regulatory or ancillary processes, indicating this cluster represents proteins involved in controlling mitotic progression.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032515","count":1},{"id":"GO:0045792","count":1},{"id":"GO:1905287","count":1},{"id":"GO:0048255","count":1},{"id":"GO:0051301","count":1}]},{"hash":"1735796074002068726","title":"Collagen-ECM Signaling and Angiogenesis","description":"These terms point to collagen biosynthesis and collagen-activated signaling, along with endothelial proliferation and sprouting angiogenesis, and TGF-beta\u2013stimulated responses, plus chondrocyte differentiation. Collectively, they reflect ECM/collagen\u2013mediated signaling driving vascular and cartilage development, with inflammatory remodeling context. Confidence: High","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000481","count":2},{"id":"GO:0038063","count":2},{"id":"GO:0001935","count":2},{"id":"GO:0032332","count":2},{"id":"GO:0002437","count":2}]},{"hash":"503147403280889068","title":"Cell\u2013matrix adhesion and ECM organization","description":"The GO terms cluster around interactions with the extracellular matrix, including positive regulation of cell-matrix adhesion, calcium-independent adhesion, hemidesmosome assembly, and collagen fibril organization, indicating a primary theme of ECM adhesion and organization. Additional items about axon fasciculation/regeneration and development signals support roles in adhesion-related processes during tissue morphogenesis and neural guidance, rather than a distinct signaling pathway. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001954","count":2},{"id":"GO:0014012","count":2},{"id":"GO:0031581","count":2},{"id":"GO:0031623","count":2},{"id":"GO:0060739","count":2}]},{"hash":"762192688192960575","title":"Bacterial quinone biosynthesis and fatty acid catabolism","description":"The top GO terms are dominated by metabolic processes: fatty acid beta-oxidation, phenylacetate catabolic process, L-valine catabolic process, and biosynthesis of quinones (phylloquinone and menaquinone) plus antibiotic biosynthesis. This suggests a cluster centered on bacterial energy and secondary metabolism. A few meiosis-related terms appear but are likely annotations noise and do not alter the core theme. Therefore, the name reflects the main metabolic functions represented.","confidence":"Medium","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":2},{"id":"GO:0010124","count":2},{"id":"GO:0042372","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0006574","count":2}]},{"hash":"1560049550336478531","title":"Chromosome maintenance and mitosis proteins","description":"This cluster shows a pattern around chromatin assembly (CENP-A), DNA replication, and cell division, along with microtubule-related processes and regulation of GTPases\u2014all core to chromosome maintenance and mitotic progression. Some GO terms (ERAD/ER-Golgi transport, heat acclimation, lung differentiation) are less aligned with this core, but the predominant signals point to chromatin dynamics and mitotic machinery. ","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0061641","count":2},{"id":"GO:0051013","count":2},{"id":"GO:0030433","count":2}]},{"hash":"797212115975937074","title":"Chromatin regulation and RNA processing","description":"The top GO terms cluster around histone modification (H3-K4 methylation), ubiquitination, transcription elongation regulation, and mRNA splicing, pointing to control of gene expression at chromatin and RNA processing levels. A few additional terms (lipopolysaccharide response, ER-Golgi transport) seem more peripheral. Overall, the dominant theme is chromatin-mediated transcription control and RNA processing.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051568","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0021529","count":1}]},{"hash":"1510929319038205025","title":"Mesoderm development and morphogenesis","description":"This cluster shows strong enrichment for embryonic development and tissue morphogenesis terms, including mesoderm development, left-right pattern formation, epithelial-to-mesenchymal transition in heart cushion formation, and morphogenesis of cartilage and hair follicles, suggesting a shared role in embryonic tissue formation across multiple lineages. Some broader transcription/biogenesis terms are present but do not override the core morphogenetic signal.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":5},{"id":"GO:0010957","count":5},{"id":"GO:0060972","count":5},{"id":"GO:1903026","count":5},{"id":"GO:0003198","count":5}]},{"hash":"869863755292888231","title":"Mitosis and APC/C-mediated ubiquitination","description":"The cluster is dominated by GO terms related to mitosis and ubiquitin-mediated regulation: mitotic spindle assembly, mitotic cell cycle, cell division, and an APC/C-dependent catabolic process, including K11-linked ubiquitination. These terms point to a shared theme of cell-cycle control during mitosis via ubiquitin-proteasome pathways. A couple of terms (actin filament depolymerization, defense response) appear less representative, likely annotations from broader contexts. Overall, the core signal is mitotic progression and APC/C-driven protein turnover.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0050830","count":2}]},{"hash":"1617054716012243705","title":"Redox-dependent metabolism and nitrosative stress response","description":"The top GO terms cluster around redox-related processes (S-nitrosylation, nitrosative stress response) and metabolism of small molecules (retinoid, fructose, xylitol, Ehrlich pathway). Though there are few connections between proteins, the common thread appears to be redox-modulated metabolic activities and nitrosative signaling, justifying a label focused on redox metabolism with nitrosative stress involvement.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0018119","count":2},{"id":"GO:0097327","count":2},{"id":"GO:0042573","count":2},{"id":"GO:0000947","count":2}]},{"hash":"1607378553961429492","title":"Cell division and cytoskeleton dynamics","description":"This cluster is driven by terms tied to cell division and cytoskeletal organization, including FtsZ-dependent cytokinesis, microtubule nucleation, mitotic spindle midzone assembly, division site positioning, and general mitotic processes. The presence of neuronal differentiation and mechanosensory-related terms can reflect cytoskeleton-driven differentiation and signaling, but the dominant theme remains division and cytoskeletal dynamics across both prokaryotic-like and eukaryotic contexts.","confidence":"High","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0043093","count":3},{"id":"GO:0007020","count":3},{"id":"GO:2000767","count":3}]},{"hash":"537469479811035651","title":"Tissue differentiation","description":"GO terms point to differentiation of specialized tissues (Leydig cells, multi-ciliated epithelial cells, lactation), suggesting a tissue differentiation theme. However, several terms relate to transcription regulation, meiosis, and signaling, which makes the connection only partial.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033197","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0044321","count":5},{"id":"GO:0033327","count":5},{"id":"GO:2001165","count":5}]},{"hash":"1042662999913719188","title":"Unknown","description":"The top GO terms span both nuclear processes (DNA-templated transcription, DNA replication) and diverse signaling, adhesion, and immune-related pathways (Wnt signaling, integrin-mediated signaling, cell-matrix adhesion, angiogenesis, defense against Gram-positive bacteria), plus stress responses (ethanol, prostaglandin E). With no clear, cohesive function unifying these terms and no edges among proteins, there isn\u2019t a confident single label to represent the cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0071361","count":2},{"id":"GO:0071380","count":2},{"id":"GO:0007160","count":2}]},{"hash":"481572581604673528","title":"Small-molecule biosynthesis","description":"Based on the top GO terms, the cluster is enriched for biosynthetic processes, notably biotin biosynthesis, menaquinone biosynthesis, and antibiotic biosynthetic process, suggesting a shared theme of producing small molecules/secondary metabolites. Other terms (detoxification, plant shoot formation, various catabolic processes) are more heterogeneous and do not point to a single cohesive function across all members. Overall, the strongest common feature is small-molecule biosynthesis, but the connection is not universal across the cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0097755","count":1},{"id":"GO:2000124","count":1}]},{"hash":"519557530324269538","title":"Synaptic signaling and neural development","description":"Based on the enriched terms, the proteins cluster around neuronal communication and plasticity: excitatory postsynaptic potential, long-term synaptic potentiation, and regulation of synaptic vesicle endocytosis point to synaptic transmission and plasticity, while substantia nigra development suggests neural development. Some terms like mitotic cell cycle and heart development are broader or ancillary, but do not override the dominant neural synaptic theme. ","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060079","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0006468","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0060291","count":4}]},{"hash":"308843524179247587","title":"Proteostasis and Mitophagy","description":"The cluster centers on protein quality control and degradation pathways: ubiquitin-dependent proteasomal degradation, autophagy of mitochondria, and modifications by ubiquitin-like modifiers such as sumoylation and ufmylation, alongside ER-associated degradation signals. While there are also broader transcription and microtubule-related terms, the strongest signals tie to proteostasis and mitochondrial quality control, justifying a proteostasis/mitophagy-focused label.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1901799","count":2},{"id":"GO:0000422","count":2},{"id":"GO:1903378","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0016925","count":2}]},{"hash":"199577120322232392","title":"Embryonic morphogenesis and growth regulation","description":"The GO terms emphasize morphogenetic processes in axial mesoderm and foregut development, plus regulation of organ growth and Hippo signaling, with associated processes in angiogenesis, cell migration, and membrane/centrosome localization. This suggests a cluster of proteins involved in embryonic tissue morphogenesis and growth control, including cell polarity and migration components.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048319","count":3},{"id":"GO:0048617","count":3},{"id":"GO:0046621","count":2},{"id":"GO:0035330","count":2},{"id":"GO:0032803","count":2}]},{"hash":"1366762511692614910","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":1},{"id":"GO:0006189","count":1},{"id":"GO:0010323","count":1},{"id":"GO:0071039","count":1},{"id":"GO:0071028","count":1}]},{"hash":"1248876239617606931","title":"Mitotic cell cycle and DNA replication","description":"The terms cluster around core cell cycle machinery and DNA synthesis, with clear emphasis on G1/S and G2/M transitions, DNA replication, and mitotic spindle dynamics, indicating proteins involved in mitotic progression and DNA synthesis (with mammary gland proliferation reflecting a proliferation context). ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:2000775","count":3},{"id":"GO:0000082","count":3},{"id":"GO:0033598","count":3},{"id":"GO:0000320","count":3}]},{"hash":"1781608735480141009","title":"Embryonic neural and organ development","description":"This cluster centers on embryonic development with a focus on neural differentiation and organogenesis, illustrated by terms for pituitary/neurohypophysis, hypothalamus, forebrain/spinal cord development, as well as myotome, limb, and kidney morphogenesis, and neuronal survival regulation.","confidence":"High","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":3},{"id":"GO:0021902","count":2},{"id":"GO:0001759","count":2},{"id":"GO:0061055","count":2},{"id":"GO:0043524","count":2}]},{"hash":"568551469000714284","title":"Embryonic development and neural differentiation via transcription control","description":"The top GO terms point to transcriptional regulation by RNA polymerase II alongside diverse developmental processes, particularly neural development (PNS, midbrain, hypothalamus) and gastrulation (primitive streak), with some inflammatory context. This suggests a cluster of proteins coordinating transcription during embryogenesis and tissue differentiation, making this label representative.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0048935","count":3},{"id":"GO:0090009","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0007626","count":2}]},{"hash":"613646796425463281","title":"Neural development and axon guidance signaling","description":"The cluster centers on nervous system development with neurogenesis and myelination, and includes signaling pathways such as smoothened (hedgehog) and Roundabout that govern axon guidance, synapse organization, and paranode localization, suggesting a cohesive theme of neural development and neural connectivity maturation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0007422","count":5},{"id":"GO:0007224","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0045663","count":5}]},{"hash":"227357737981928611","title":"Embryonic RTK signaling in neural development","description":"This cluster is dominated by nervous system development and cell surface receptor tyrosine kinase signaling terms (peptidyl-tyrosine autophosphorylation), implying RTK-driven signaling in neural development. Additional terms on axial mesoderm formation and pericyte differentiation suggest broader embryonic morphogenesis and vasculature development.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0007432","count":4},{"id":"GO:0007169","count":4},{"id":"GO:1904238","count":4},{"id":"GO:0048320","count":4}]},{"hash":"1641928025402776306","title":"Unknown","description":"The GO terms are highly heterogeneous, covering RNA processing (negative regulation of rRNA processing, snoRNP assembly, telomerase RNA localization), mitochondrial/autophagy regulation, surfactant homeostasis, Wnt signaling localization, and neural/memory processes, with no shared theme or pathway, and no edges to indicate a cohesive module. Therefore, no reliable label beyond Unknown can be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000233","count":1},{"id":"GO:1904874","count":1},{"id":"GO:0000493","count":1},{"id":"GO:0050790","count":1},{"id":"GO:0043129","count":1}]},{"hash":"1025893106387398749","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms for ribosome assembly and function (ribosome biogenesis, translation, LSU rRNA maturation), indicating proteins primarily participate in ribosome construction and protein synthesis. A few terms about protein targeting and ER-associated degradation appear but are secondary, suggesting the core theme is ribosome-related processes.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0007338","count":2}]},{"hash":"971038930523917395","title":"Kinase-Driven Innate Immune Signaling","description":"Based on the GO terms, the cluster centers on signaling and innate immunity: receptor tyrosine kinase\u2013mediated signaling, activation of protein kinase activity, detection of bacterial lipopeptides, and MyD88-independent TLR signaling. CAMKK-AMPK signaling further ties into kinase-driven cascades, suggesting a theme of kinase-mediated signal transduction in innate responses, despite a couple of terms related to splicing or ribosome biogenesis that are less connected to this core function.","confidence":"Medium","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:0042254","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0007169","count":1},{"id":"GO:1905289","count":1}]},{"hash":"270672926139732167","title":"Neuronal synaptic signaling and brain development","description":"The cluster centers on synaptic function and neuronal maturation, with GO terms such as neurotransmitter secretion, regulation of synaptic vesicle exocytosis, long-term potentiation, and cellular responses to calcium, all pointing to neuronal communication and brain development. Some terms appear less related (e.g., plant hormone signaling) and may reflect annotation noise, but the dominant signal is neural signaling and brain development.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031384","count":4},{"id":"GO:0010796","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0048015","count":3},{"id":"GO:0071277","count":3}]},{"hash":"419747927106645451","title":"Aminoacyl-tRNA Synthetases (Translation)","description":"The GO terms are heavily centered on translation and multiple aminoacyl-tRNA synthetase activities (lysyl-, aspartyl-, asparaginyl-, including mitochondrial variants), indicating proteins that charge tRNAs for protein synthesis. Some telomere- and DNA-related terms appear but are not the primary theme, so the core function is tRNA charging for translation.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006430","count":1},{"id":"GO:0016233","count":1},{"id":"GO:0070200","count":1},{"id":"GO:0070145","count":1}]},{"hash":"344890314197066151","title":"Unknown","description":"This cluster's GO terms span immune-related processes (complement-dependent cytotoxicity, macrophage differentiation), neural development and synaptic functions (auditory receptor morphogenesis, cerebral cortex GABAergic interneuron development, dopamine uptake), and general signaling regulation (PKA, JNK), with no clear shared function and no interactions among proteins. Because the terms do not converge on a single biological theme, the label Unknown is most appropriate.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010738","count":4},{"id":"GO:0097278","count":4},{"id":"GO:0032467","count":4},{"id":"GO:0002093","count":4},{"id":"GO:0030225","count":4}]},{"hash":"2098791084317764900","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034498","count":2},{"id":"GO:0045022","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0045623","count":2},{"id":"GO:0061158","count":2}]},{"hash":"357189875806638575","title":"Immune and Endocrine Signaling Regulation","description":"The top GO terms center on regulation of signaling pathways (ERK, Wnt, PI3K) and include immune processes (adaptive immune response, NK cell regulation) as well as endocrine/hormonal contexts (angiotensin signaling in heart, parathyroid development). This mix suggests a unifying theme of signaling modulation across immune and endocrine systems, rather than a single specific pathway, hence the chosen label.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0010954","count":4},{"id":"GO:0045953","count":4},{"id":"GO:0038028","count":4}]},{"hash":"1784396751889575080","title":"Multi-substrate membrane transporters","description":"The top GO terms cluster around transmembrane transport of a wide range of substrates\u2014xenobiotics, sugars, ions, nitrite, urate, and related molecules\u2014with an additional vesicular neurotransmitter loading term. This suggests a common theme of membrane transport activity across diverse substrates, rather than a single pathway. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":1},{"id":"GO:0015747","count":1},{"id":"GO:0015751","count":1},{"id":"GO:0006817","count":1},{"id":"GO:1904659","count":1}]},{"hash":"1127076735086327087","title":"Craniofacial and sensory organ morphogenesis","description":"The top GO terms cluster around developmental processes tied to craniofacial and sensory tissues\u2014inner ear development, cartilage and hair follicle morphogenesis, roof of mouth development, and mesoderm development\u2014suggesting a shared program of craniofacial and sensory organ morphogenesis. Some terms point to peripheral cellular processes, but the dominant theme is tissue formation and patterning in the head region. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0007498","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0060536","count":2}]},{"hash":"1732671245185055701","title":"Neuronal maturation and neurotransmitter catabolism","description":"The top terms include dopamine catabolic process, neurotransmitter catabolic process, and neuron maturation, which together point to neuronal development and neuronal metabolism as the central theme of this cluster. Although there are a few unrelated terms (defense response, selenium response, thiamine biosynthesis), the neuronal-related processes appear most representative of the cluster's shared functions. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051573","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0033514","count":1},{"id":"GO:0042135","count":1},{"id":"GO:0042742","count":1}]},{"hash":"1427945261556129692","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990120","count":1},{"id":"GO:0016584","count":1},{"id":"GO:0031124","count":1},{"id":"GO:0098530","count":1},{"id":"GO:0030437","count":1}]},{"hash":"70113498338699210","title":"Unknown","description":"The GO terms are highly diverse across development (bone, craniofacial, heart field, fat body), immune regulation, reproductive cycles, bacterial turnover, and cell junctions, with no clear shared function or pathway linking the proteins; no edges or cohesive theme emerge. ","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060346","count":1},{"id":"GO:0003128","count":1},{"id":"GO:0007044","count":1},{"id":"GO:0090399","count":1},{"id":"GO:0002639","count":1}]},{"hash":"1861246064176504378","title":"RTK-driven coagulation and inflammation","description":"The terms emphasize receptor tyrosine kinase signaling (including PDGF receptor signaling) and tyrosine autophosphorylation, together with blood coagulation and inflammatory responses, suggesting proteins that mediate RTK-driven crosstalk between coagulation and immune signaling.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0002437","count":3},{"id":"GO:0010641","count":3},{"id":"GO:0032689","count":3}]},{"hash":"1544230522595801315","title":"Inflammation and barrier function","description":"This cluster shows GO terms related to immune activity (phagocytosis; IL-8 production) and regulation of inflammatory signaling (negative regulation of p38 MAPK), together with endothelial intestinal barrier establishment. Although a few terms involve hormonal responses or antibiotic response, the strongest common thread is inflammatory signaling intertwined with barrier integrity, justifying a label focused on inflammation and barrier function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009952","count":2},{"id":"GO:0006909","count":2},{"id":"GO:1903753","count":2},{"id":"GO:0090557","count":2},{"id":"GO:0018119","count":1}]},{"hash":"134627101907393054","title":"Collagen-Activated Signaling and Immune Development","description":"The top GO terms point to collagen-activated receptor tyrosine kinase signaling, innate immune responses, and cartilage condensation, with several terms tied to immune cell differentiation. This suggests a cluster centered on collagen-mediated signaling that links developmental processes (like cartilage formation) with immune-related functions, rather than a single, narrow function. The presence of related terms such as apoptotic cell clearance and T cell differentiation reinforces a theme of immune development alongside ECM signaling.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038063","count":5},{"id":"GO:0043277","count":5},{"id":"GO:0001502","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0046638","count":4}]},{"hash":"1540004608097481330","title":"Unknown","description":"The GO terms are highly diverse (salt stress response, vesicle trafficking, fibrinolysis, Notch signaling, thyroid hormone response, membrane raft assembly, neutrophil clearance, water homeostasis) with no single cohesive theme and no edges or interactions to tie them together, so a concise, representative label cannot be confidently assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009651","count":1},{"id":"GO:0031340","count":1},{"id":"GO:1905597","count":1},{"id":"GO:0042730","count":1},{"id":"GO:0001921","count":1}]},{"hash":"784006465885656708","title":"Peripheral nerve development and myelination","description":"Top GO terms indicate neural development and nerve structure, including somatic motor neuron differentiation, neurofilament cytoskeleton organization, and Schwann cell migration/regulation, pointing to peripheral nervous system formation and motor function. The presence of sensory-related and myelin-associated processes supports a coherent theme of nerve development and maintenance, with cytoskeletal and myelin dynamics central to axonal integrity. Overall, the cluster appears to represent PNS development and myelination processes.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":1},{"id":"GO:0030968","count":1},{"id":"GO:0046513","count":1},{"id":"GO:0032964","count":1},{"id":"GO:1900148","count":1}]},{"hash":"52794216055153194","title":"Peripheral nerve development and axon domain organization","description":"This cluster centers on nervous system development, including nerve maturation, trigeminal nerve structure, neural crest migration, and axon domain localization (paranode/juxtaparanode). A few terms such as defense response to bacterium appear but are not representative of the main function; overall, the proteins seem tied to peripheral nerve formation and axon targeting.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":3},{"id":"GO:0042742","count":3},{"id":"GO:0021682","count":3},{"id":"GO:0021637","count":3},{"id":"GO:0036486","count":3}]},{"hash":"769588621406918802","title":"Differentiation across immune, epithelial, and adipose lineages","description":"This cluster shows top GO terms spanning immune differentiation (follicular dendritic cell differentiation; CCL5 production), epithelial development (epithelial cell polarity, epithelial maturation, prostate gland development), and adipose differentiation (fat cell differentiation). The terms are diverse and each appears only once, and there are no edges connecting proteins, suggesting no tight, single pathway. The common thread is differentiation and maturation across multiple cell types rather than a single cohesive function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002268","count":1},{"id":"GO:0071651","count":1},{"id":"GO:0090162","count":1},{"id":"GO:1904743","count":1},{"id":"GO:1904357","count":1}]},{"hash":"106388851268366730","title":"Innate Immune Defense and Complement Activation","description":"The GO terms strongly point to innate immune processes, including defense response to bacterium, innate immune response, and classical complement activation. A few terms related to neuronal development (pyramidal neuron differentiation, axon guidance, synapse assembly) appear less central and may reflect cross-talk or gene multifunctionality, but the core theme is host defense and complement pathways.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0021859","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0006958","count":2}]},{"hash":"323131863467303943","title":"Embryonic Mesoderm and Placental Development","description":"The top GO terms cluster around mesoderm formation, left-right patterning, and differentiation toward placental lineages (trophoblast), including EMT processes in cardiac development. While a few terms relate to general cellular machinery, the dominant signal is embryonic lineage specification involving mesoderm and placenta, suggesting this cluster represents embryonic development programs rather than broad metabolic functions.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":3},{"id":"GO:0010957","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0051881","count":3},{"id":"GO:1903026","count":3}]},{"hash":"444908439143596893","title":"Gene Expression and Stress Response Regulators","description":"The top GO terms cluster around transcriptional regulation (RNA Pol II), translation, DNA repair, and cellular response to toxic substances, suggesting a module of proteins involved in managing gene expression and cellular stress. Despite some weaker or obsolete terms, the strongest shared theme is regulation of transcription/translation and stress-response pathways, including interferon signaling.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":4},{"id":"GO:0097237","count":4},{"id":"GO:0043433","count":4},{"id":"GO:0060334","count":4},{"id":"GO:1902283","count":4}]},{"hash":"2030859015475840768","title":"Redox Detox and Immune Regulation","description":"The enriched GO terms point to cellular redox balance and detoxification (cell redox homeostasis, xenobiotic catabolic process, nitric oxide storage, detoxification of nitrogen compounds) alongside immune signaling modulation (negative regulation of leukocyte proliferation, negative regulation of canonical NF-kappaB signaling, negative regulation of acute inflammatory response). There is also a transient hint of metabolic/translation activity (response to amino acid, cytoplasmic translational elongation). Together, these suggest a cluster of proteins involved in maintaining redox and chemical balance while modulating immune/inflammatory signaling, particularly in myeloid contexts. Confidence is Medium.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":4},{"id":"GO:0035726","count":3},{"id":"GO:0070458","count":3},{"id":"GO:0043200","count":3},{"id":"GO:0070664","count":3}]},{"hash":"823313161520510572","title":"Innate Immune Signaling and Nuclear Protein Quality Control","description":"The GO terms point to innate immune pathways (regulation of type II interferon signaling and MyD88-dependent TLR signaling) alongside nuclear-associated protein handling (aggresome assembly, PML body organization, and protein localization to the nuclear pore). This suggests a theme where immune signaling interfaces with nuclear structures and protein quality control, despite some broader terms like translation. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0060334","count":2},{"id":"GO:0070842","count":2},{"id":"GO:0034126","count":2},{"id":"GO:0090204","count":2}]},{"hash":"1223505816724008798","title":"Unknown","description":"These four proteins have GO annotations spanning sensory perception, cytoskeletal remodeling, cell junctions, vascular and immune signaling, and stress responses. There is no clear, cohesive function that ties all terms together, so a single intuitive label isn\u2019t defensible; the annotations appear too heterogeneous to define a specific cluster function.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0045216","count":2},{"id":"GO:0042311","count":1},{"id":"GO:0002862","count":1}]},{"hash":"1061730074531572606","title":"Endothelial Stress and Vascular Regulation","description":"This cluster\u2019s GO terms cluster around endothelial cell development, vasodilation, modulation of inflammatory responses, and oxidative/detoxification processes (cellular oxidant detoxification, response to xenobiotic stimulus, triglyceride metabolism). Together they point to endothelial cell\u2013associated vascular function and cellular stress responses rather than a single, narrow enzyme activity, so a label emphasizing endothelial vascular regulation and stress response fits best.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042311","count":2},{"id":"GO:0002862","count":2},{"id":"GO:0010332","count":2},{"id":"GO:0010269","count":2},{"id":"GO:1902176","count":2}]},{"hash":"143678597582428806","title":"Developmental proteoglycan biosynthesis and ossification","description":"GO terms indicate a focus on proteoglycan biosynthesis (heparan sulfate and chondroitin sulfate) and key developmental processes (mesoderm and endoderm development) with ossification, suggesting an extracellular matrix\u2013related biosynthetic theme linked to developmental and skeletal formation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":2},{"id":"GO:0030210","count":2},{"id":"GO:0001503","count":2},{"id":"GO:0015014","count":2},{"id":"GO:0006486","count":2}]},{"hash":"409499068687694570","title":"Unknown","description":"The GO terms are highly diverse, spanning embryonic development, dendrite extension, organ development, blood pressure regulation, immune signaling, calcium channel activation, and phosphorylation regulation. There is no single cohesive biological process linking these functions; they indicate broad regulatory roles across multiple systems. Because of this heterogeneity, a concise, accurate functional label is not discernible.","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0040019","count":3},{"id":"GO:0030579","count":3},{"id":"GO:0032237","count":3},{"id":"GO:1903861","count":3},{"id":"GO:1901002","count":3}]},{"hash":"38887988459279360","title":"Plant cell wall biosynthesis and glycosylation","description":"The top GO terms point to plant cell wall polysaccharide production (glucuronoxylan, homogalacturonan, mucilage) and plant-type secondary cell wall biogenesis, along with protein O-linked glycosylation and glycosphingolipid biosynthesis, suggesting a cohesive role in cell wall construction and its glycosylated components.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016266","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0006688","count":2},{"id":"GO:0010192","count":1},{"id":"GO:0043403","count":1}]},{"hash":"2274848224917943222","title":"Cardiovascular and lymphatic development","description":"This cluster\u2019s top GO terms converge on heart and vascular development, including atrioventricular node development and ventricular septum development, along with lymphangiogenesis and lymph vessel morphogenesis. Wnt signaling regulation and integrin-mediated cell adhesion further support a developmental pattern related to cardiovascular and lymphatic tissue formation. A few terms (pain, respiratory system, GnRH response) appear as background annotations but do not override the core developmental theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048661","count":1},{"id":"GO:0060828","count":1},{"id":"GO:0033631","count":1},{"id":"GO:0003162","count":1},{"id":"GO:0003016","count":1}]},{"hash":"1629395037263597876","title":"DNA Replication and Telomere Maintenance","description":"This cluster centers on GO terms related to DNA replication and telomere biology, including replication fork reversal, DNA unwinding, RNA primer removal during mitotic replication, DNA strand elongation, DNA recombination, and telomere maintenance/regulation, as well as mitochondrial DNA repair. The mix of replication, repair, and telomere-associated activities suggests a cohesive function in DNA replication fidelity and telomere integrity.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071932","count":2},{"id":"GO:0032508","count":2},{"id":"GO:0044806","count":2},{"id":"GO:1902983","count":2},{"id":"GO:0032211","count":2}]},{"hash":"797113510792061574","title":"Amino acid and vitamin biosynthesis","description":"The top GO terms cluster around biosynthetic processes for amino acids (alanine, aspartate, histidine) and vitamins (biotin, cobalamin), indicating a metabolic biosynthesis theme. The Notch signaling term appears to be an outlier, possibly due to annotation noise or multifunctional proteins. ","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":3},{"id":"GO:0042218","count":3},{"id":"GO:0007219","count":3},{"id":"GO:0019441","count":3},{"id":"GO:0006532","count":3}]},{"hash":"1423724049010012747","title":"Meiotic DNA replication and genome maintenance","description":"This cluster centers on DNA replication and genome stability: mitotic and premeiotic DNA replication, MCM complex assembly, replication fork protection, and double-strand break repair via break-induced replication, along with regulation of cell proliferation and female gamete generation, all pointing to a coordinated meiotic DNA replication/maintenance module. A few obsolete terms and an outlier photosynthesis term appear but do not dominate the signal.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902450","count":2},{"id":"GO:1902969","count":2},{"id":"GO:0007292","count":2},{"id":"GO:0048478","count":2},{"id":"GO:0042127","count":2}]},{"hash":"411101853362204463","title":"Unknown","description":"The top GO terms are diverse, including fat cell differentiation, cell migration, telomere maintenance, mRNA processing, and immune-related differentiation, with no single dominant function linking the proteins. This heterogeneity makes it hard to assign a concise, specific theme to the cluster, so an Unknown label is appropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0035994","count":2}]},{"hash":"108111910133238820","title":"Developmental Epigenetic Regulation","description":"These proteins cluster around epigenetic control of gene expression, highlighted by chromatin modifications (histone H3 acetylation and H3-K36 methylation), chromatin organization, and maintenance of nuclear protein localization, with developmental terms such as multicellular organism development and atrial septum morphogenesis also present. This suggests a shared function in regulating gene expression during development through chromatin-based mechanisms.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045190","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0010529","count":1},{"id":"GO:1903758","count":1},{"id":"GO:0043966","count":1}]},{"hash":"1892437688167569735","title":"Stress-Response Proteostasis and NF-kB Signaling","description":"The cluster shows enrichment for stress-related processes (response to salt and cadmium), immune signaling regulation (negative regulation of inflammatory response) and non-canonical NF-kappaB pathways, along with proteostasis-related activities (proteasomal degradation independent of ubiquitin and deubiquitination) and RNA stability. This combination suggests a theme where protein turnover and mRNA regulation intersect with NF-kB\u2013driven immune signaling under stress, including viral processes. Confidence is moderate given the diverse yet related terms.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009651","count":2},{"id":"GO:0002862","count":2},{"id":"GO:0038061","count":2},{"id":"GO:0010499","count":2},{"id":"GO:0016032","count":2}]},{"hash":"1728521798246555164","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009432","count":3},{"id":"GO:0009252","count":3},{"id":"GO:0043200","count":3},{"id":"GO:0006541","count":3},{"id":"GO:0019240","count":3}]},{"hash":"1826631062131009560","title":"Post-transcriptional mRNA processing and translation regulation","description":"The top GO terms cluster around post-transcriptional control of gene expression: regulation of mRNA stability in response to stress, regulation of translational initiation and reinitiation, spliceosome-mediated mRNA splicing (and its negative regulation), and regulation of poly(A) tail processing. These themes point to coordinated control of RNA processing and translation rather than a single anabolic or developmental function; the blastocyst term is an outlier among otherwise RNA-processing\u2013centric terms. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":4},{"id":"GO:1903586","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0001825","count":3},{"id":"GO:0045292","count":3}]},{"hash":"266023853439538033","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":2},{"id":"GO:1903586","count":2},{"id":"GO:1900365","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0001825","count":2}]},{"hash":"1569931972208954895","title":"Transcription Regulation and Heterochromatin Formation","description":"The cluster\u2019s top GO terms center on regulation of DNA-templated transcription and heterochromatin formation, suggesting a shared role in controlling gene expression via chromatin state. A few development- and metabolism-related terms are present but appear less cohesive with the core transcription/ chromatin theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":1},{"id":"GO:0090053","count":1},{"id":"GO:0007469","count":1},{"id":"GO:2001172","count":1},{"id":"GO:0090180","count":1}]},{"hash":"925525806430568320","title":"Nuclear DNA Processing and Chromatin Assembly","description":"The top GO terms cluster around nuclear functions: mRNA splicing, DNA repair via homologous recombination, DNA-templated transcription, and chromatin assembly (CENP-A) with related histone methylation and cell-cycle related processes, suggesting a genome maintenance/gene expression module. Outlier terms like COPII vesicle budding and growth hormone response are peripheral, indicating the core theme is nuclear rather than vesicular signaling. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0090307","count":1},{"id":"GO:2001125","count":1}]},{"hash":"2142839577065716042","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0000465","count":1},{"id":"GO:0039651","count":1}]},{"hash":"2154852629920475069","title":"Neuronal development and synaptic signaling","description":"The dominant GO terms point to neural development (substantia nigra development, retina development) and synaptic function (regulation of vesicle exocytosis/endocytosis, excitatory postsynaptic potential), suggesting the proteins cluster around neuronal maturation and neurotransmission. A few terms (ossification, GMP biosynthesis, magnesium transport) are less central, but do not override the main neural theme.","confidence":"High","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0021762","count":2},{"id":"GO:1900242","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0035690","count":2}]},{"hash":"936696771779161891","title":"RNA Pol II Regulation and mRNA Export","description":"The top GO terms center on RNA polymerase II-driven transcription regulation (both initiation and elongation) and mRNA export from the nucleus, indicating a coherent theme of nuclear gene expression control. Some terms are peripheral (e.g., Golgi retention, chaperone-related), but the dominant signal is transcriptional regulation and mRNA processing, justifying a label focused on that function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001824","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0045899","count":1},{"id":"GO:0070389","count":1}]},{"hash":"430096695874515850","title":"Embryonic organogenesis and morphogenesis","description":"The cluster's GO terms are dominated by developmental and morphogenesis processes (organ induction, salivary gland morphogenesis, lateral mesoderm fate, angiogenesis, ossification, auditory receptor development). A couple of tRNA biosynthesis terms appear less related, likely annotation noise, but the overarching signal points to embryonic tissue development and organ formation. Confidence: Medium.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008616","count":1},{"id":"GO:0101030","count":1},{"id":"GO:0001759","count":1},{"id":"GO:0048661","count":1},{"id":"GO:0060665","count":1}]},{"hash":"100270356332209581","title":"Cytoskeletal Dynamics and Cytokinesis","description":"The top GO terms point to assembly and function of the cell's division machinery: microtubule nucleation, mitotic cytokinesis, and division site positioning, complemented by FtsZ-dependent cytokinesis and protein polymerization. While other terms like glucose stimulus response and dsRNA response appear, the strongest signal is toward cytoskeletal organization and cell division processes.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":2},{"id":"GO:0043330","count":2},{"id":"GO:0043093","count":1},{"id":"GO:0006276","count":1},{"id":"GO:0007020","count":1}]},{"hash":"2203168646104436588","title":"Synaptic signaling and receptor recycling","description":"The cluster\u2019s top terms emphasize receptor recycling, positive regulation of presynapse assembly, and visual perception, all aligning with neuronal signaling and synaptic maintenance. Additional signals point to general trafficking and signaling pathways (GTPase activity, Ran transduction), with a few stress/chemosensory responses (UV-B, pheromone) that are less central. Overall, the cohesive theme is neuronal communication involving vesicle trafficking and receptor regulation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001881","count":4},{"id":"GO:0035330","count":4},{"id":"GO:0031291","count":4},{"id":"GO:0010224","count":4},{"id":"GO:0019236","count":4}]},{"hash":"709355270576165537","title":"Mitotic spindle assembly and cytokinesis regulation","description":"The top GO terms are dominated by mitosis-related processes: mitotic centrosome separation, mitotic spindle assembly, and positive regulation of cytokinesis, with supporting mitotic cell cycle activity. While there are some signaling and cytoskeletal terms, the recurring theme centers on the machinery and regulation of cell division, particularly spindle function and cytokinesis, making this label representative and specific.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007100","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0032467","count":3},{"id":"GO:0046330","count":2},{"id":"GO:0031532","count":2}]},{"hash":"278103277657787767","title":"Mitotic spindle assembly and cytokinesis","description":"The top GO terms converge on microtubule organization and mitotic processes\u2014microtubule nucleation, mitotic spindle midzone assembly, and mitotic cytokinesis/division site positioning\u2014indicating the cluster centers on spindle dynamics and cytokinesis. A few terms related to other processes (neuron differentiation, interleukin-4 response) appear but are likely incidental in this small cluster. Overall, the dominant theme is mitotic spindle assembly and cytokinesis.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":2},{"id":"GO:0043093","count":1},{"id":"GO:0007020","count":1},{"id":"GO:2000767","count":1},{"id":"GO:1905792","count":1}]},{"hash":"1022202368872312520","title":"Innate immune signaling and chemokine production","description":"This cluster centers on innate immunity and inflammatory signaling, with GO terms pointing to innate immune response, cell surface receptor signaling, inflammatory response, and positive regulation of chemokine production (e.g., CXCL2). The combined terms suggest proteins that participate in initiating and modulating immune cell recruitment and inflammatory signaling.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007569","count":1},{"id":"GO:0070207","count":1},{"id":"GO:0006954","count":1},{"id":"GO:0048146","count":1},{"id":"GO:2000343","count":1}]},{"hash":"1226870944378474805","title":"ER stress and redox homeostasis","description":"Most terms cluster around ER stress response and redox/homeostasis, with some links to transcriptional regulation and transport under stress, suggesting a general protein quality-control/stress response module rather than a single precise function. However the low term diversity and small size make the connection tentative.","confidence":"Low","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":1},{"id":"GO:0046826","count":1},{"id":"GO:0034976","count":1},{"id":"GO:0015693","count":1},{"id":"GO:0016032","count":1}]},{"hash":"613735608233940269","title":"Unknown","description":"The GO terms span xenobiotic and hypoxia responses, multiple metabolic pathways, and even developmental/behavioral processes, with no single dominant shared function tying the proteins together. This diversity prevents a coherent, specific label beyond Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0071456","count":2},{"id":"GO:0043052","count":1},{"id":"GO:0033327","count":1},{"id":"GO:0006665","count":1}]},{"hash":"302868170661383951","title":"Embryonic neural and craniofacial development","description":"The top GO terms cluster around neural development and craniofacial formation, including brain and inner ear development, embryonic cranial skeleton morphogenesis, neuronal differentiation (forebrain neuron commitment, oligodendrocyte fate), and neurohypophysis development. These together point to an embryonic program governing nervous system and cranial structure formation, with supporting roles in neuron survival. A few terms like myotome development may reflect broader embryogenesis, but the central theme is neural and craniofacial development.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0021902","count":2}]},{"hash":"1001524078001804464","title":"Mitochondrial autophagy and nucleophagy","description":"The strongest signals are autophagy-related: autophagy of mitochondrion and (obsolete) late nucleophagy, pointing to degradation pathways targeting mitochondria and nuclear/nucleolar components. Other terms in the list are more heterogeneous (tRNA thiolation, transcription regulation, urmylation, fungus defense), so the central theme is autophagy-associated processes, justifying the label, though some terms are outdated or less cohesive with the core signal.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0044805","count":3},{"id":"GO:0002143","count":3},{"id":"GO:0045892","count":3},{"id":"GO:0018192","count":3},{"id":"GO:0009228","count":3}]},{"hash":"557579534753488144","title":"Neural Development and Axon Guidance","description":"The top GO terms cluster around neural development, axon guidance, and synaptic maturation\u2014optic nerve morphogenesis, retinal ganglion cell axon guidance, corpus callosum development, dendritic spine morphogenesis, and ephrin signaling\u2014indicating a cohesive theme of neural connectivity and synapse formation, with supporting developmental context.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048320","count":2},{"id":"GO:0060044","count":2},{"id":"GO:0021631","count":2},{"id":"GO:0031290","count":2},{"id":"GO:0051965","count":2}]},{"hash":"1590153285807996544","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034244","count":1},{"id":"GO:0045190","count":1},{"id":"GO:0000494","count":1},{"id":"GO:0072383","count":1},{"id":"GO:0021685","count":1}]},{"hash":"1363232429975144172","title":"Ubiquitin-like Protein Conjugation and Autophagy","description":"The top GO terms cluster around ubiquitin-like modification: protein ubiquitination (GO:0016567), urmylation (GO:0032447), and ISG15-protein conjugation (GO:0032020), with autophagy of mitochondrion (GO:0000422) suggesting a connection to protein turnover. Other terms (tRNA wobble thiolation, thiamine biosynthesis, amygdala development) are less clearly related, making the core theme ubiquitin-like conjugation with possible links to autophagic turnover. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0044805","count":1},{"id":"GO:0002143","count":1},{"id":"GO:0045892","count":1},{"id":"GO:0018192","count":1}]},{"hash":"189245020156206330","title":"RNA processing and ribonucleoprotein assembly","description":"This cluster is dominated by RNA metabolism processes: spliceosome and snRNP assembly, tRNA processing, rRNA maturation, and histone mRNA metabolism, with related mRNA decay and nuclear import activities and P-body association. The shared GO terms suggest a cohesive role in RNA processing and ribonucleoprotein complex formation, spanning both nuclear and cytoplasmic RNA handling.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000290","count":3},{"id":"GO:0042633","count":3},{"id":"GO:0030490","count":3},{"id":"GO:0008033","count":3},{"id":"GO:0070317","count":3}]},{"hash":"327983321304364758","title":"Translation Initiation Regulation","description":"The top GO terms are centered on translation initiation, including regulation, reinitiation, IRES-dependent initiation, and preinitiation complex formation, suggesting these proteins function together in controlling the start of translation. A few development-related terms appear but are less frequent, so the cohesive signal is translation initiation control.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0075525","count":3}]},{"hash":"2031989220481544411","title":"Embryonic vascular and hematopoietic development with inflammation","description":"Top GO terms indicate processes in early development of the vasculature and blood cells (blastocyst development, angioblast differentiation, erythrocyte differentiation, blood circulation) together with broader developmental contexts (intestinal epithelial development, mammary gland involution) and immune/inflammatory responses (inflammatory response, cellular response to GM-CSF stimulus). The co-occurrence of these terms suggests a cluster of proteins involved in embryonic vascular/hematopoietic development and related inflammatory regulation, rather than a single tight pathway. Negative regulation of transcription by RNA polymerase II and negative regulation of T cell receptor signaling point to regulatory roles that could modulate these developmental and immune processes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001824","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0050860","count":3},{"id":"GO:0030218","count":3},{"id":"GO:0060576","count":3}]},{"hash":"991431286419097343","title":"Embryonic development and tissue morphogenesis","description":"The GO terms focus on patterning and differentiation during embryogenesis across various tissues (left/right patterning; EMT in endocardial cushion formation; placental and trophoblast differentiation; cartilage morphogenesis; endocrine system development; pancreatic cell development). This suggests a cohesive theme of early development and organ morphogenesis, supporting this label.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060707","count":4},{"id":"GO:0060536","count":4}]},{"hash":"1527533372206064678","title":"DNA Replication and Telomere Maintenance","description":"The terms cluster around core genome maintenance: DNA replication and processing (replication fork reversal, DNA unwinding, removal of RNA primers during mitotic replication), DNA recombination, and mitochondrial DNA repair, plus telomere maintenance regulation. A hair follicle morphogenesis term appears infrequently and does not define the group; overall the cluster represents replication/repair and telomere-associated functions.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":2},{"id":"GO:0071932","count":1},{"id":"GO:0032508","count":1},{"id":"GO:0044806","count":1},{"id":"GO:1902983","count":1}]},{"hash":"2003297012044330111","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009396","count":1},{"id":"GO:0046657","count":1},{"id":"GO:0015942","count":1},{"id":"GO:0035999","count":1},{"id":"GO:1990120","count":1}]},{"hash":"701619887720590921","title":"Unknown","description":"The GO terms span metabolism (adenosine, purine catabolism), signaling/modification (phosphorylation/dephosphorylation), transcription initiation regulation, protein folding/inclusion bodies, and Golgi/SCF complex\u2013related trafficking stress responses, with no dominant shared function across the four proteins. This diversity makes a cohesive label unlikely.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046085","count":1},{"id":"GO:0006195","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0016311","count":1},{"id":"GO:0045899","count":1}]},{"hash":"722822983283420447","title":"Ubiquitin-dependent regulation of transcription, apoptosis, and immunity","description":"These proteins are enriched for ubiquitination and proteasomal degradation processes, along with roles in regulating transcription, cell death pathways, and innate immune signaling (dsRNA response and TLR pathways). The common thread appears to be ubiquitin-mediated modulation of protein turnover and signaling that influence transcription, survival, and immune responses, justifying this label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0042787","count":2},{"id":"GO:0071360","count":2},{"id":"GO:0043066","count":2}]},{"hash":"2207829505842256325","title":"Neural development and synapse assembly","description":"These proteins are associated with nervous system development, synapse assembly, and neuron-cell adhesion terms, suggesting a cohesive role in neural development and synaptic organization, supported by terms related to nerve morphogenesis and neuron adhesion.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0007156","count":2},{"id":"GO:0007158","count":2},{"id":"GO:1902378","count":1}]},{"hash":"1340154001802811026","title":"Synaptic plasticity and maturation regulation","description":"This cluster is driven by GO terms related to neural connectivity modulation, notably positive regulation of synaptic plasticity (GO:0031915) and positive regulation of synapse maturation (GO:0090129). While there are outliers involving immune/metabolic or vascular-related terms, the strongest and most coherent theme among the top terms points to neural signaling and synaptic development, justifying a label focused on synaptic regulation. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0046677","count":2},{"id":"GO:0042619","count":2},{"id":"GO:0048661","count":1},{"id":"GO:0050754","count":1}]},{"hash":"795759576782859931","title":"Unknown","description":"The top GO terms are highly diverse and include obsolete terms (histone acetylation, L-cysteine biosynthesis), retina development, nucleotide biosynthesis (GMP, GTP), magnesium transport, protein tetramerization, cytokine response, and hydrogen sulfide biosynthesis. With no clear shared pathway or function and no edges connecting the proteins, there is no coherent theme to anchor a meaningful label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016573","count":1},{"id":"GO:0060041","count":1},{"id":"GO:0006177","count":1},{"id":"GO:1903830","count":1},{"id":"GO:0051289","count":1}]},{"hash":"618549536672009608","title":"Nuclear import and Golgi-to-ER trafficking","description":"The cluster enriched for nuclear import/localization (nuclear pore), retrograde Golgi-to-ER transport, and membrane-associated protein movement, with supporting hints from ubiquitination and ribophagy, pointing to intracellular trafficking and protein turnover pathways.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000060","count":2},{"id":"GO:0071806","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0016567","count":2},{"id":"GO:1904046","count":1}]},{"hash":"1565746111364208446","title":"Innate dsRNA response","description":"The top GO terms highlight cellular response to exogenous dsRNA and innate immune response, indicating a cluster of proteins likely involved in sensing dsRNA and triggering innate antiviral defense. Other terms in the list are mixed and include older/obscure annotations, but the core theme centers on dsRNA recognition and innate immunity.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071360","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0051348","count":1},{"id":"GO:0050689","count":1}]},{"hash":"1566168057991875992","title":"RNA transcription and ribosome biogenesis","description":"The dominant GO terms cover transcription by RNA polymerases I, II, and III (including tRNA transcription and transcription elongation/termination) together with ribosome biogenesis, suggesting a cohesive theme of RNA synthesis linked to ribosome assembly.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":1},{"id":"GO:0006366","count":1},{"id":"GO:0006360","count":1},{"id":"GO:0001172","count":1},{"id":"GO:0006386","count":1}]},{"hash":"2015285891504817337","title":"Mitochondrial fission and mitophagy in development","description":"The cluster\u2019s top terms are dominated by mitochondrial processes (type 2 mitophagy and mitochondrial fission), suggesting a core theme of mitochondrial turnover. While several development-related terms appear (embryonic patterning, organ morphogenesis), they likely reflect broader roles in developing tissues rather than a single pathway. Thus, the shared function centers on mitochondrial dynamics in developmental contexts.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034394","count":2},{"id":"GO:0061734","count":2},{"id":"GO:0000266","count":2},{"id":"GO:0035270","count":1},{"id":"GO:0003198","count":1}]},{"hash":"244387204692055704","title":"mRNA processing and translational control","description":"The top GO terms cluster around post-transcriptional regulation: regulation of translational initiation and translation reinitiation; spliceosome-mediated mRNA splicing and its negative regulation; and regulation of mRNA tail processing, indicating a group of proteins involved in RNA maturation and control of translation rather than transcription. The blastocyst formation term is developmental context rather than core function. Overall, these terms point to mRNA processing and translational regulation as the shared theme.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1903586","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0001825","count":4},{"id":"GO:0045292","count":4},{"id":"GO:1905663","count":4}]},{"hash":"639417117505559935","title":"Neural development with ciliary and sensory roles","description":"The top GO terms cluster around brain development and sensory functions (striatum development, brain morphogenesis, visual perception, photoreceptor maintenance) and ciliary biology (non-motile cilium assembly), suggesting a theme of neural development linked to ciliary/sensory processes, even though a few terms are peripheral. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":2},{"id":"GO:0042311","count":1},{"id":"GO:0045494","count":1},{"id":"GO:1905515","count":1},{"id":"GO:0021756","count":1}]},{"hash":"541610039482617827","title":"Unknown","description":"The GO terms are highly diverse, spanning sporulation, nervous system development, signaling regulation, mitotic spindle/cytokinesis, apoptosis, exocrine development, immune cytotoxicity, and bone ossification, with no clear shared function or connections among the proteins. This lack of a cohesive theme makes a specific label inappropriate.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031321","count":1},{"id":"GO:0007399","count":1},{"id":"GO:0010738","count":1},{"id":"GO:0090307","count":1},{"id":"GO:1905289","count":1}]},{"hash":"1518720711024580674","title":"Diverse MAPK and immune signaling regulators","description":"The top GO terms cluster around regulation of signaling cascades, especially MAPK pathways (JNK and ERK), coupled with immune signaling (T cell receptor signaling, mast cell degranulation) and neural development signals (axon guidance, Hedgehog/Smoothened pathway). This pattern suggests the proteins act as regulators across multiple signaling networks rather than a single pathway, justifying a label of diverse signaling regulators with emphasis on MAPK and immune/neural signaling. Some terms like kidney development and mitotic cell cycle may reflect broader roles of multifunctional signaling regulators.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0070374","count":3}]},{"hash":"349189386969956981","title":"Neural development and differentiation","description":"Most of the top terms focus on neuron formation and brain region\u2013specific differentiation (midbrain dopaminergic neuron differentiation, cerebellar Purkinje cell precursor signaling, and medial motor column neuron differentiation). Other terms point to morphogenesis and actomyosin organization, which are involved in shaping neural tissues, as well as RNA silencing pathways that can regulate neural gene expression. Taken together, the cluster seems centered on neural development rather than unrelated processes.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030579","count":2},{"id":"GO:0035195","count":2},{"id":"GO:0072283","count":2},{"id":"GO:2000744","count":2},{"id":"GO:0031032","count":2}]},{"hash":"1241509927171043068","title":"Potassium Transport and Cardiac Membrane Potential","description":"The cluster is dominated by GO terms for potassium ion transport and intracellular potassium ion homeostasis, alongside cardiac electrophysiology terms such as membrane depolarization and repolarization (e.g., His bundle action potential, ventricular repolarization). While a couple of terms (cerebellum maturation, jasmonic acid regulation) are less directly related, they do not override the core theme of potassium handling linked to cardiac membrane potential regulation.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097623","count":4},{"id":"GO:1990573","count":4},{"id":"GO:0030007","count":4},{"id":"GO:0021590","count":3},{"id":"GO:0080141","count":3}]},{"hash":"1523534175905217613","title":"T cell immune signaling and ER protein processing","description":"The GO terms cluster around T cell\u2013related functions (apoptotic process in T cells, cytokine production, regulatory T cell differentiation) and innate immune signaling, with additional mentions of protein transport and retention in the ER lumen. This suggests a coherent theme where immune signaling is tied to endoplasmic reticulum\u2013associated protein processing/trafficking. Some terms are obsolete or peripheral (glycosylation, neuronal stem cell maintenance), but the dominant signal points to T cell\u2013focused immune activity linked to ER protein handling.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070231","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0002369","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0010204","count":1}]},{"hash":"1773636849963614078","title":"Growth Factor\u2013Triggered ERK/MAPK Signaling","description":"The dominant GO terms point to cellular responses to growth factor stimuli (EGF, PDGF, VEGF) and to the ERK1/ERK2 cascade, indicating activation of the MAPK signaling pathway by growth factors. While a few terms touch on neural development and metabolism, the clearest, most representative theme in this cluster is growth factor\u2013driven MAPK signaling, particularly the ERK cascade. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":3},{"id":"GO:0071364","count":2},{"id":"GO:0007257","count":2},{"id":"GO:0021819","count":2},{"id":"GO:0030325","count":2}]},{"hash":"1380880956263325467","title":"Inflammatory lipid mediator and immune signaling","description":"The set centers on oxylipin and leukotriene biosynthesis (lipoxin B4, oxylipin biosynthesis, leukotriene production) and immune-regulatory processes (regulation of NK T cell activation, NK cell cytokine production, Fc receptor signaling, defense response to bacterium). While a few terms relate to other tissues (AV node action potential, lens morphogenesis), the dominant theme is inflammatory lipid mediator production coupled with immune communication. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":1},{"id":"GO:0031408","count":1},{"id":"GO:2001306","count":1},{"id":"GO:0060307","count":1},{"id":"GO:0002540","count":1}]},{"hash":"2157491043783404503","title":"Unknown","description":"The GO terms are broad and scattered across different biological areas, including neutrophil functions (degranulation, chemotaxis, respiratory processes), cytoskeletal dynamics (actin filament binding), signaling through calcium channels, and unrelated processes like RNA splicing and endothelial responses to shear stress. There isn\u2019t a single cohesive function that ties all four proteins together, so a precise, representative label cannot be confidently assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010954","count":1},{"id":"GO:0097699","count":1},{"id":"GO:1904425","count":1},{"id":"GO:0032237","count":1},{"id":"GO:1904531","count":1}]},{"hash":"2106762661412448918","title":"Wnt Signaling Inhibitors and Cell Fate Regulators","description":"These proteins appear linked by the regulation of the canonical Wnt pathway (negative regulation), along with control of cell proliferation, apoptosis, and cell migration. The combination suggests a theme of signaling modulation that guides cell fate decisions during development, with calcium signaling possibly modulating these effects. While some terms point to broader developmental processes (e.g., CNS vasculature, endoderm fate), the core pattern centers on inhibiting Wnt signaling and coordinating survival, division, and movement.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090090","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0070509","count":2}]},{"hash":"2076110961193843802","title":"Immune cell activation and NK/T cell signaling","description":"The top GO terms are dominated by immune-related processes: defense against bacteria, NK cell cytokine production, positive regulation of NK T cell activation, T cell costimulation, cytotoxic T cell differentiation, Fc receptor signaling, and coreceptor-mediated virion attachment. While a couple terms relate to non-immune tissues, the prevailing pattern points to immune activation and signaling involving NK and T cells, which justifies this label.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":3},{"id":"GO:0060307","count":3},{"id":"GO:0002729","count":3},{"id":"GO:0051134","count":3},{"id":"GO:0086016","count":3}]},{"hash":"1045735078466352176","title":"Developmental morphogenesis and signaling","description":"The GO terms cluster around organ induction, morphogenesis across multiple tissues (salivary gland, auditory, ossification, lateral mesodermal fate, ventricular muscle), tissue specification, and regulation of angiogenesis, all pointing to development and differentiation processes with signaling involvement (evidenced by protein autophosphorylation). A few terms (defense response to bacterium) are less related, but they do not outweigh the dominant developmental theme.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001759","count":2},{"id":"GO:0060665","count":2},{"id":"GO:0042742","count":2},{"id":"GO:0048661","count":2},{"id":"GO:0060117","count":2}]},{"hash":"2089146320996452960","title":"Unknown","description":"The GO terms span insulin signaling, various forms of cell migration, neural signaling, and centrosome localization, with no single unifying function evident across all four proteins. Given the lack of cohesive biology and no interaction edges, a confidently representative label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":2},{"id":"GO:0014911","count":2},{"id":"GO:1903356","count":1},{"id":"GO:2000822","count":1},{"id":"GO:0010923","count":1}]},{"hash":"2288048189529250878","title":"Purine nucleotide metabolism","description":"These proteins are linked by GO terms centered on purine nucleotide metabolism: ITP metabolic process, ADP/CDP biosynthesis, AMP salvage, nucleoside monophosphate phosphorylation, and purine ribonucleotide interconversion. Brain and liver development terms likely reflect incidental tissue annotations rather than a core function, and coenzyme A biosynthesis is a minor outlier. Overall, the dominant pattern points to metabolism and interconversion of purine nucleotides.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046041","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0046705","count":2},{"id":"GO:0046940","count":2},{"id":"GO:0001889","count":2}]},{"hash":"216227081043556875","title":"Chromatin organization and nucleosome assembly","description":"This cluster is enriched for terms on nucleosome assembly, chromatin localization to chromatin, and heterochromatin organization, with related (obsolete) histone modification terms. The common thread is chromatin structure regulation and nucleus organization, justifying a chromatin/nucleosome\u2013focused label.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":3},{"id":"GO:0016584","count":3},{"id":"GO:0071169","count":3},{"id":"GO:0070828","count":3},{"id":"GO:0097298","count":3}]},{"hash":"1148588574323058609","title":"Proteostasis and ubiquitin\u2013proteasome regulation","description":"Three proteins show GO terms centered on proteostasis: aggresome assembly, protein deubiquitination, and regulation of proteasomal degradation, alongside broader stress-related processes (cellular response to toxic substances). This combination points to a coherent theme of maintaining protein quality control via the ubiquitin\u2013proteasome system and related pathways.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097237","count":3},{"id":"GO:1902283","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0006289","count":3},{"id":"GO:0014070","count":3}]},{"hash":"1497323736577002476","title":"Anti-inflammatory regulation and xenobiotic detoxification","description":"The top GO terms point to down-regulation of inflammatory responses (negative regulation of acute inflammatory response; negative regulation of canonical NF-kappaB signaling) and control of leukocyte activity, alongside detoxification processes (xenobiotic catabolic process; cellular detoxification of nitrogen compounds). This pattern suggests a cluster of proteins that collectively dampen inflammation while managing xenobiotic/nitrogen metabolism, rather than a single, cohesive metabolic pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":2},{"id":"GO:0035726","count":1},{"id":"GO:0070458","count":1},{"id":"GO:0070664","count":1},{"id":"GO:0043200","count":1}]},{"hash":"1131323413594344887","title":"Unknown","description":"The listed GO terms span diverse areas\u2014from metabolic catabolism (xanthine, phenylacetate) and energy metabolism (ATP synthesis via electron transport) to developmental and signaling roles in vascular biology (endothelial differentiation, vasculogenesis, VEGF signaling) plus ion transport and lactation. With no evident shared pathway or interactions (Edges 0), there isn\u2019t a cohesive biological theme tying these proteins together. Therefore Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009115","count":1},{"id":"GO:0042773","count":1},{"id":"GO:0045602","count":1},{"id":"GO:0006814","count":1},{"id":"GO:2001213","count":1}]},{"hash":"1442075295765789813","title":"Unknown","description":"The proteins are annotated with a highly diverse set of GO terms spanning transcription regulation, chromatin remodeling, development, immunity, muscle differentiation, morphogenesis, and plasmid partitioning, with no obvious common function or interaction pattern tying them together (and no edges among them). This lack of a cohesive theme makes a precise, informative cluster label impossible, so the appropriate label is Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":1},{"id":"GO:0042766","count":1},{"id":"GO:0008584","count":1},{"id":"GO:1902340","count":1},{"id":"GO:0002227","count":1}]},{"hash":"1457881821229513867","title":"Transmembrane Transporters","description":"The cluster\u2019s top GO terms all point to transport across membranes for diverse substrates (xenobiotics, sugars, phosphate, nitrite, urate, and related metabolites), with an additional vesicle-loading term reflecting membrane trafficking. This suggests the proteins function broadly as membrane transporters rather than a single substrate-specific enzyme, warranting the label Transmembrane Transporters. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":1},{"id":"GO:0015747","count":1},{"id":"GO:0015751","count":1},{"id":"GO:0006817","count":1},{"id":"GO:1904659","count":1}]},{"hash":"617007622256433484","title":"Protein N-terminal and peptidyl acetylation","description":"Most terms are acetylation-related, including N-terminal acetylation, peptidyl-lysine acetylation, and acetylation of amines like spermine/putrescine, suggesting the cluster centers on acetylation-modification processes rather than a single metabolic pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032919","count":1},{"id":"GO:0019491","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0060358","count":1},{"id":"GO:0032920","count":1}]},{"hash":"1861688726947895340","title":"Unknown","description":"Top GO terms are highly diverse and span transcriptional repression, chromatin dynamics, development, mucosal immunity, muscle differentiation, and plasmid partitioning. With no edges and no cohesive shared function, there is no clear common 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:0000122","count":1},{"id":"GO:0042766","count":1},{"id":"GO:0008584","count":1},{"id":"GO:1902340","count":1},{"id":"GO:0002227","count":1}]},{"hash":"1393622727814618013","title":"Ammonium Transport and Nitrogen Utilization","description":"The GO terms are dominated by ammonium transport (transmembrane and transepithelial), methylammonium transport, and nitrogen utilization/metabolism, with related transport of carbon dioxide. This points to a cohesive theme of nitrogen handling and ammonium flux, with a few outliers that may reflect broader nutrient signaling rather than a single process.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007124","count":2},{"id":"GO:0072488","count":2},{"id":"GO:0060586","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0015843","count":2}]},{"hash":"659082607156183552","title":"Microtubule dynamics and spindle organization","description":"The proteins are linked by GO terms about mitotic spindle assembly, pole separation, orientation, and regulation of microtubule-based processes, plus plus-end-directed vesicle transport along microtubules and depolymerization. This points to core involvement in microtubule dynamics, spindle formation, and intracellular transport, with related neurite and chloroplast movement reflecting microtubule network roles. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000073","count":3},{"id":"GO:0051296","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0032886","count":3},{"id":"GO:0060404","count":3}]},{"hash":"216936003866639522","title":"Ribosome biogenesis and translational fidelity","description":"This cluster centers on ribosome-related processes: ribosome biogenesis, translation, and regulation/maintenance of translational fidelity, with an antibiotic response term that can be linked to ribosome-targeting drugs. The cohesive theme strongly supports labeling as ribosome/translation\u2013related.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":1},{"id":"GO:1990145","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0045903","count":1},{"id":"GO:0006412","count":1}]},{"hash":"1498304496194501081","title":"Unknown","description":"The GO terms are highly diverse (transcription regulation, development, immune response, muscle differentiation, growth, and even plasmid partition) with no clear shared pathway or function, and there are no edges among the proteins to support a cohesive biological role. This makes it infeasible to assign a meaningful, specific label beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":1},{"id":"GO:0042766","count":1},{"id":"GO:0008584","count":1},{"id":"GO:1902340","count":1},{"id":"GO:0002227","count":1}]},{"hash":"1751488189503057193","title":"RNA processing and methylation","description":"The GO terms are dominated by RNA processing and post-transcriptional modification, including rRNA processing, tRNA wobble uridine modification, 7-methylguanosine mRNA capping, and RNA (guanine-N7)-methylation, plus various methylation-related activities. This points to a shared theme of RNA maturation and modification among the proteins. Some other terms (polyamine/cobalamin biosynthesis, tellurium ion response) appear incidental or reflective of multifunctional proteins, but do not override the RNA-centric signal.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006596","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0006364","count":2},{"id":"GO:0043985","count":2},{"id":"GO:0019919","count":2}]},{"hash":"924668816656916844","title":"Developmental transcriptional regulation and cell cycle processes","description":"This cluster\u2019s GO terms cluster around transcriptional control (DNA-templated transcription, regulation of DNA binding) and developmental programs (heart development, angiogenesis, Schwann cell development), plus cell cycle transitions (mitotic cell cycle, G2/M). The mix suggests proteins involved in coordinating gene expression during development and cell proliferation. The lack of direct edges among the proteins indicates the annotation is broad, so the name emphasizes the overarching theme rather than a specific shared function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046826","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0007507","count":2}]},{"hash":"668399143303518639","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070417","count":3},{"id":"GO:0042766","count":3},{"id":"GO:0043044","count":3},{"id":"GO:1990120","count":3},{"id":"GO:0060303","count":3}]},{"hash":"468605420037990760","title":"Cholesterol and lipid catabolic metabolism","description":"The top GO terms cluster around cholesterol metabolic process, cholesterol transport, and ketone body catabolic process, pointing to a lipid-energy metabolism theme with cholesterol handling as the core. Some terms like sporulation or hormone response appear peripheral or broader annotations, but the dominant signal is lipid/cholesterol catabolism. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014070","count":3},{"id":"GO:0009725","count":2},{"id":"GO:0032385","count":2},{"id":"GO:0046952","count":2},{"id":"GO:0030435","count":2}]},{"hash":"71874576784295401","title":"Cross-Tissue Development","description":"Terms point to developmental processes across multiple tissues (mesenchymal stem cell differentiation, otic placode formation, epithalamus and cornea development, trachea cartilage development) along with regulatory signaling (IL-1\u03b2 production, Fas signaling) and apoptosis control. The absence of interactions and the diversity of organ-specific terms suggest a broad, non-specific developmental/regulatory theme rather than a single cohesive pathway. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000741","count":1},{"id":"GO:0007129","count":1},{"id":"GO:0043049","count":1},{"id":"GO:0021538","count":1},{"id":"GO:0060534","count":1}]},{"hash":"28981449813817711","title":"Embryonic Development and Morphogenesis","description":"The GO terms cluster around embryogenesis, patterning, and tissue morphogenesis (e.g., endocrine system development, left-right pattern formation, cartilage morphogenesis, ventral midline development). They describe diverse developmental roles rather than a single pathway, but collectively point to embryonic formation and morphogenetic processes. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0060536","count":1}]},{"hash":"1095093578416172701","title":"Unknown","description":"The GO terms cover heart development, Schwann cell development, angiogenesis, cell cycle transitions, synaptic plasticity, and plant signaling, indicating no single shared function among the proteins.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0014850","count":3},{"id":"GO:0014044","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0000086","count":3}]},{"hash":"2189879417224789548","title":"Unknown","description":"The top GO terms cover a wide and unrelated set of processes (epithelial polarity and differentiation, various lineage differentiations like fat cells and dendritic cells, calcium transport, and telomere regulation) with no clear unifying function or pathway, and the cluster has no edges or interactions, making it difficult to define a cohesive biological theme. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":2},{"id":"GO:0002268","count":1},{"id":"GO:0071651","count":1},{"id":"GO:0090162","count":1},{"id":"GO:1904743","count":1}]},{"hash":"1948493067129315391","title":"Chaperone-driven proteostasis and protein complex assembly","description":"The top GO terms converge on chaperone activity (refolding and chaperone-mediated assembly), proteasome regulatory particle assembly, SCF complex turnover, and general protein complex assembly/retention, pointing to a common theme of protein quality control and assembly rather than a single enzymatic function. Some transcription-related terms and obsolete terms likely reflect broad or historical annotations but do not define the core function of the cluster.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045899","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0090261","count":3},{"id":"GO:0045053","count":3},{"id":"GO:1990171","count":3}]},{"hash":"318398946987982667","title":"Unknown","description":"The GO terms are highly diverse with no single shared function or pathway, spanning vitamin E and leptin responses, Leydig and epithelial differentiation, lactation, meiosis, transcription regulation, and cell cycle transitions, and there are no edges or coherent clustering to suggest a unified function.  ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033197","count":1},{"id":"GO:0000122","count":1},{"id":"GO:0044321","count":1},{"id":"GO:0033327","count":1},{"id":"GO:2001165","count":1}]},{"hash":"1487612998131487811","title":"Neurodevelopment and brain region specification","description":"The terms are dominated by neuronal differentiation and brain-region development (forebrain commitment, hypothalamus development, spinal cord neuron differentiation, oligodendrocyte fate specification, etc.), indicating a cluster centered on neural development and neuron fate specification. A few entries touch on broader embryogenesis (organ and limb morphogenesis, kidney morphogenesis), but the core signal points to neurodevelopmental processes.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021902","count":2},{"id":"GO:0001759","count":2},{"id":"GO:0061055","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0021985","count":2}]},{"hash":"1815565281052646597","title":"Methylation-driven transcriptional regulation","description":"The top GO terms point to multiple methylation activities (histone H4-R3, arginine and glutamine methylation, rRNA methylation) and to transcriptional regulation (negative regulation of RNA polymerase II), with links to cell growth and cellular senescence and ribosome biogenesis. This combination suggests proteins involved in epigenetic/chromatin modification and transcriptional control, such as methyltransferases, rather than a single, distinct pathway. Some terms (tellurium ion response, cobalamin biosynthetic process) are less clearly connected and may reflect incidental annotations.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0043985","count":2},{"id":"GO:0031167","count":2},{"id":"GO:0090398","count":2},{"id":"GO:0019919","count":2}]},{"hash":"100410664485743531","title":"Muscle signaling and development","description":"The terms converge on phosphorylation-driven signaling and muscle biology, including protein autophosphorylation, muscle cell fate specification, and actomyosin/contractile ring processes, with at least one cardiac hypertrophy-related term. Outlier terms like long-term memory or sensory perception likely reflect annotation noise rather than core cluster function. Overall, the cluster seems best described by muscle-related signaling and development. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006468","count":2},{"id":"GO:0050906","count":2},{"id":"GO:2000678","count":2},{"id":"GO:1903244","count":2},{"id":"GO:0007616","count":2}]},{"hash":"183944096132183918","title":"Immune signaling and chaperone-mediated protein folding","description":"This cluster centers on immune-related processes (B cell cytokine production, T cell\u2013mediated immune responses) and on protein quality control (chaperone-mediated assembly and protein refolding), with accompanying cellular stress responses (heat, cadmium exposure) that can occur in immune cells. The presence of these overlapping functions supports a theme of immune activation coupled with stress-related protein folding. Some terms (e.g., virion assembly, obsolete telomerase regulation) are less coherent with the core theme but do not override the dominant pattern.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002368","count":3},{"id":"GO:0051973","count":3},{"id":"GO:0051131","count":3},{"id":"GO:0002842","count":3},{"id":"GO:0046686","count":3}]},{"hash":"1054025206188233976","title":"Polyamine Biosynthesis and Transport","description":"This cluster centers on polyamine metabolism, with GO terms for putrescine and spermidine biosynthesis, arginine catabolism feeding into polyamine production, and positive regulation of polyamine transport across membranes. A few terms (toxic response, viral genome regulation, Golgi organization) are broader or incidental, but the dominant theme is polyamine biosynthesis and transport.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":2},{"id":"GO:0045071","count":2},{"id":"GO:0001822","count":1},{"id":"GO:0033387","count":1},{"id":"GO:1902269","count":1}]},{"hash":"1480128587940565317","title":"Neuronal development and synapse organization","description":"The top GO terms are dominated by neural-related processes: positive regulation of dendrite extension, negative regulation of neuron apoptotic process, and positive regulation of synaptic vesicle clustering, pointing to roles in neural growth and synaptic organization. Some non-neuronal terms appear (e.g., mesoderm development, ergosterol regulation), but the strongest, recurring signal centers on neural development and synaptic function.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030579","count":3},{"id":"GO:1903861","count":3},{"id":"GO:0043524","count":3},{"id":"GO:2000749","count":3},{"id":"GO:0060487","count":3}]},{"hash":"792359928962440693","title":"Ubiquitin-Dependent Proteostasis","description":"The top GO terms are dominated by ubiquitination-related processes: ubiquitin-dependent ERAD pathway, protein autoubiquitination, and H2A ubiquitination, which strongly suggests the proteins act in tagging substrates for degradation and regulating proteostasis. Additional terms touch on TNF signaling and immune-related processes, which can be linked through ubiquitin signaling crosstalk. Overall, the cluster seems centered on ubiquitin-mediated regulation of protein stability and signaling.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0035186","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0070535","count":2}]},{"hash":"89768487905252594","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033197","count":2},{"id":"GO:0048680","count":2},{"id":"GO:0051775","count":2},{"id":"GO:0061179","count":2},{"id":"GO:0042026","count":2}]},{"hash":"263943789312416046","title":"Unknown","description":"The GO terms span several unrelated areas (vitamin/cofactor metabolism like thiamine and tetrahydrofolate, redox processes, signaling via cAMP, immune and stress responses, and even erythrocyte differentiation), with no clear single function tying the proteins together. The presence of deprecated terms and diverse biology suggests no cohesive theme, so a concise, representative label isn\u2019t justifiable.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042135","count":2},{"id":"GO:0009228","count":2},{"id":"GO:0014063","count":2},{"id":"GO:0032496","count":2}]},{"hash":"1296533346215571560","title":"Chromatin Remodeling and Transcription Regulation","description":"The GO terms are dominated by transcription regulation and chromatin remodeling (negative regulation of transcription by RNA polymerase II; DNA-templated transcription; chromatin remodeling), with several developmental processes connected to tissue and organ formation (otic placode formation; semicircular canal morphogenesis; ossification). This points to proteins involved in regulating gene expression through chromatin state during development, hence the label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0048752","count":2},{"id":"GO:2000741","count":1}]},{"hash":"504021171036217018","title":"Embryogenesis and organ patterning","description":"These GO terms point to broad embryonic development and patterning across multiple tissues and organs (endocrine development, heart cushion EMT, left-right patterning, cartilage and pancreas development, placental and trophoblast differentiation, etc.), rather than a single pathway. Confidence: High","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060536","count":2}]},{"hash":"1393679256488617238","title":"Multisystem Development","description":"The GO terms cluster around broad developmental processes across multiple tissues (heart, eye, blood vessels, forebrain, spinal cord, hypothalamus, muscles), indicating a general theme of embryonic organ and tissue formation rather than a single pathway. Hence a label like Multisystem Development captures the shared function without overstating tissue specificity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0001569","count":2},{"id":"GO:0021902","count":2},{"id":"GO:0001759","count":2}]},{"hash":"1156078894254047174","title":"Xenobiotic and chemical stress response","description":"The top terms point to responses to xenobiotics, ethanol, and oxidative stress, suggesting a common theme of handling chemical and environmental stress; a few metabolic terms are present but do not define the cluster as a purely metabolic module.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0045471","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0033514","count":1}]},{"hash":"1940742161426608137","title":"Embryogenesis and Organ Morphogenesis","description":"The GO terms cluster around embryonic development and tissue morphogenesis (gastrulation, in utero development, foregut morphogenesis, pattern specification, ureter development, cardiac proliferation), indicating a cohesive theme of developmental processes and organ formation. A few outliers (hormone secretion regulation, histone ubiquitination) are present but do not overturn the dominant embryogenesis/morphogenesis signal.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001702","count":2},{"id":"GO:0060038","count":2},{"id":"GO:0033686","count":2},{"id":"GO:0046881","count":2},{"id":"GO:0072189","count":2}]},{"hash":"1004688227565738870","title":"Neuronal development and synaptic regulation","description":"The top GO terms cluster around neuronal growth and maintenance (dendrite extension, neuron apoptotic regulation, synaptic vesicle clustering), indicating neuronal differentiation and synaptic organization as the core theme. Some terms point to broader development (paraxial mesoderm, lung epithelial differentiation), but neural-related processes are the strongest signal. With only three proteins and mixed annotations, confidence is Low.","confidence":"Low","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030579","count":1},{"id":"GO:1903861","count":1},{"id":"GO:0043524","count":1},{"id":"GO:2000749","count":1},{"id":"GO:0060487","count":1}]},{"hash":"881065406626375646","title":"Kidney development and urine regulation","description":"The terms point mainly to renal function: renal water homeostasis, regulation of urine volume, and inner medullary collecting duct development. A few other terms (e.g., JAK-STAT signaling, androgen metabolism) appear but are less central; overall the cluster seems focused on kidney development and urine regulation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0046427","count":2},{"id":"GO:0042843","count":2},{"id":"GO:0048661","count":2},{"id":"GO:0008584","count":2}]},{"hash":"967857284503410774","title":"Viral replication and host manipulation","description":"The GO terms cluster around multiple viral life-cycle steps (entry into host, penetration into host nucleus, release, replication, and DNA integration) and host-pathogen interactions (RNA-directed DNA biosynthesis, suppression of siRNA processing, and symbiont-induced host apoptosis). This pattern suggests proteins tied to viral or symbiont mechanisms that modify host processes to enable replication and propagation, justifying a label focused on viral replication and host manipulation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0006278","count":1}]},{"hash":"294040833704965577","title":"Adaptive Immune Signaling and Autophagy","description":"The cluster shows a convergence on adaptive immunity (adaptive immune response, V(D)J recombination, T-helper cell differentiation) and cytokine signaling (IL-17 pathway), alongside regulation of autophagy and cell death (autophagy, necroptosis), suggesting a cohesive theme of immune signaling with cellular fate control.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046621","count":1},{"id":"GO:0006914","count":1},{"id":"GO:1903762","count":1},{"id":"GO:0002250","count":1},{"id":"GO:0045623","count":1}]},{"hash":"2197205895162141138","title":"Rab GTPase signaling and membrane trafficking","description":"These proteins appear centered on Rab-dependent signaling and membrane trafficking. Core GO terms include Rab protein signal transduction, activation of GTPase activity, and protein geranylgeranylation (a key lipid modification for Rab localization), with related terms for protein transport and targeting to membranes. Some unrelated terms (e.g., flagellum organization, certain metabolic processes) likely add noise, but the Rab/trafficking theme is the strongest signal.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046392","count":1},{"id":"GO:0016051","count":1},{"id":"GO:0044781","count":1},{"id":"GO:0050935","count":1},{"id":"GO:0018344","count":1}]},{"hash":"1651461586085004703","title":"Polyamine biosynthesis and arginine catabolism","description":"This cluster is characterized by GO terms centered on polyamine production (putrescine and spermidine biosynthesis) from arginine/ornithine and related catabolic pathways, indicating a core theme of polyamine metabolism linked to arginine processing; additional terms for trans-Golgi network organization and gluconeogenesis regulation appear ancillary or context-dependent rather than defining the cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":1},{"id":"GO:0033387","count":1},{"id":"GO:1902269","count":1},{"id":"GO:0006527","count":1},{"id":"GO:0008295","count":1}]},{"hash":"500370081961071027","title":"Transmembrane solute transporters","description":"The GO terms cluster around transmembrane transport of diverse substrates (xenobiotics, vitamins, sugars, ions) and vesicular neurotransmitter loading, indicating a group of membrane transporter proteins that move various solutes across membranes rather than a single substrate function.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0042891","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0015747","count":2},{"id":"GO:0015751","count":2}]},{"hash":"664791844523735502","title":"ER stress\u2013driven immune activation and antigen presentation","description":"The top GO terms cluster around ER quality control (protein folding, ER unfolded protein response) alongside antigen processing with MHC class I, innate immune signaling, and phagocytosis. This suggests a functional module where ER stress responses feed into immune activation and antigen presentation, with some broader trafficking and cell-cycle roles present. Confidence in this cohesive theme is moderate due to a few general terms, but the core signals point to an ER-stress\u2013linked immune/antigen presentation program.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006457","count":2},{"id":"GO:0048488","count":2},{"id":"GO:0002502","count":2},{"id":"GO:0030968","count":2},{"id":"GO:0090398","count":2}]},{"hash":"888126735281241880","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905608","count":1},{"id":"GO:1905869","count":1},{"id":"GO:0031145","count":1},{"id":"GO:0050775","count":1},{"id":"GO:0042068","count":1}]},{"hash":"1831776059136951617","title":"Cell migration and morphogenesis regulation","description":"Dominant GO terms point to regulation of cell movement, cytoskeletal remodeling (pseudopodium assembly), angiogenesis-related migration, and epithelial cell polarity, with related signaling (JNK) and cytokinesis. While some terms touch on immune differentiation or sensory development, the core theme across terms is motility and morphogenesis during development. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090051","count":2},{"id":"GO:0010738","count":1},{"id":"GO:0097278","count":1},{"id":"GO:0032467","count":1},{"id":"GO:0002093","count":1}]},{"hash":"1259623077750961341","title":"ER-Golgi vesicle transport and Rab GTPase regulation","description":"The GO terms cluster around intracellular trafficking, especially ER-to-Golgi and Golgi-to-ER vesicle transport, plus endosome-to-melanosome and mRNA transport. The explicit inclusion of positive regulation of GTPase activity suggests Rab/GTPase\u2013regulated trafficking, while TORC1 signaling and cell division imply a broader connection to growth-related regulation. Together, these indicate a coherent theme of vesicle transport and its regulation within the endomembrane system.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0000060","count":2}]},{"hash":"1271640821856505837","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045623","count":3},{"id":"GO:0061158","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0090086","count":3},{"id":"GO:1900246","count":3}]},{"hash":"1987490147866866896","title":"Apoptosis regulation and JNK signaling","description":"The top GO terms are dominated by apoptosis-related processes (apoptotic process, negative regulation of neuron apoptotic process) and stress-activated signaling (JNK cascade), with supporting hints from protein phosphorylation and regulatory ubiquitin-related terms. This points to a cohesive theme of apoptosis regulation and cellular stress responses rather than unrelated processes, despite a few outliers in the list.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:1902426","count":1},{"id":"GO:0006468","count":1},{"id":"GO:0043524","count":1},{"id":"GO:1903094","count":1}]},{"hash":"157495712197370099","title":"Immune activation and coagulation","description":"This cluster is dominated by GO terms tied to immune and vascular responses: complement activation, T cell activation, blood coagulation, cellular adhesion/migration, and extravasation. These collectively suggest an inflammation-related function with interactions to the vascular system. The presence of one outlier term (chlorophyll biosynthetic process) is likely an annotation quirk rather than a core function of the cluster. Overall, the label captures the strongest, coherent theme across the terms.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006956","count":2},{"id":"GO:0002291","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0045123","count":2},{"id":"GO:0007161","count":2}]},{"hash":"1037083753054047909","title":"Integrin-driven mechanotransduction","description":"The cluster shows multiple terms tied to integrin activation and integrin-mediated adhesion (GO:0033625, GO:0033634) and to sensing and responding to mechanical stimuli (GO:0050982, GO:0071260). This pattern indicates a functional group of proteins involved in mechanotransduction and cell-adhesion signaling through integrins, with a secondary nod to related processes like hypoxia response and erythrocyte-related functions that may be context-dependent. Overall, the dominant theme is integrin-related mechanotransduction.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034101","count":2},{"id":"GO:0033625","count":1},{"id":"GO:0050982","count":1},{"id":"GO:0071260","count":1},{"id":"GO:0033634","count":1}]},{"hash":"534090127268804394","title":"Golgi\u2013endosome vesicle trafficking and SNARE assembly","description":"The proteins are tied to intracellular transport between endosomes, the Golgi, and vacuoles, with SNARE complex assembly and Golgi ribbon formation highlighted. This suggests a vesicle trafficking module focused on Golgi\u2013endosome pathways and related receptor trafficking processes.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1900483","count":2},{"id":"GO:0001921","count":2},{"id":"GO:0070254","count":2},{"id":"GO:0090161","count":2},{"id":"GO:0090316","count":2}]},{"hash":"1105670794635438978","title":"Developmental signaling and organogenesis","description":"This cluster centers on signaling pathways (RTK signaling, PKA signaling, NF-kB/I-kappaB) and developmental processes (organ induction, angiogenesis, auditory receptor development, peripheral nervous system development, and floral meristem growth), suggesting proteins involved in developmental signaling and tissue/organ formation. Some terms (e.g., floral meristem) are plant-specific outliers, but the dominant theme is signaling linked to development.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001759","count":2},{"id":"GO:0010738","count":2},{"id":"GO:0048661","count":2},{"id":"GO:0007169","count":2},{"id":"GO:0060117","count":2}]},{"hash":"743566787180499191","title":"Synaptic signaling and sensory organ development","description":"This cluster centers on neuronal communication and sensory system formation, with terms like positive regulation of nerve impulse transmission, excitatory postsynaptic potential, postsynaptic membrane organization, response to acetylcholine, cochlea development, and optic nerve morphogenesis. A few outliers (e.g., acrosome reaction) exist, but the dominant pattern supports neural signaling and sensory organ development as the core theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000344","count":1},{"id":"GO:0051971","count":1},{"id":"GO:1902004","count":1},{"id":"GO:0001941","count":1},{"id":"GO:0071294","count":1}]},{"hash":"2055296710919956396","title":"Embryonic development and organogenesis","description":"The terms cluster around developmental processes across multiple organ systems and patterning events (pancreas, placenta, cartilage, endocrine system; left-right patterning; EMT in heart development). While a couple of terms relate to general gene expression (splicing, ribosomal export), the dominant theme is embryonic development and tissue morphogenesis, justifying a label focused on developmental organogenesis.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":3},{"id":"GO:0060972","count":3},{"id":"GO:1903026","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060806","count":3}]},{"hash":"658717035971288723","title":"Golgi N-glycan trimming and ERAD","description":"Most terms point to glycoprotein processing in the secretory pathway\u2014specifically Golgi-associated N-glycan mannose trimming\u2014and ubiquitin-dependent ERAD of misfolded glycoproteins. This suggests a cohesive module for glycan maturation and quality control, with supporting references to glycosylation and retrograde transport processes.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008295","count":1},{"id":"GO:0036511","count":1},{"id":"GO:0042135","count":1},{"id":"GO:0097466","count":1},{"id":"GO:0006486","count":1}]}]