[{"hash":"56819831350445927","title":"Dopaminergic Synaptic Signaling and Cocaine Response","description":"The cluster is dominated by neural-related GO terms: dopaminergic synaptic transmission, behavioral response to cocaine, visual perception/learning, and signaling cascades (ERK, GTPase). These collectively point to brain synaptic function and plasticity, particularly dopamine-mediated signaling and drug-induced behaviors. Some terms like heart development and macrophage chemotaxis appear but are less representative of the cluster\u2019s core theme.","confidence":"High","size":29,"edges":393,"triangles":3326,"max_degree":28,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":24},{"id":"GO:0008542","count":23},{"id":"GO:0071380","count":23},{"id":"GO:0048148","count":23},{"id":"GO:0019233","count":23}]},{"hash":"571807987708599753","title":"Vesicle trafficking and endocytosis","description":"This cluster is dominated by GO terms related to vesicle dynamics and transport, including clathrin-dependent endocytosis, synaptic vesicle coating, and intracellular protein transport, with additional signals pointing to intracellular signal transduction and transcription regulation. While there are some development- or plant-related terms in the mix, the strongest common theme across the annotations is vesicle trafficking and endocytic processes, suggesting proteins that function in vesicle movement and related signaling. Confidence: Medium","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0072583","count":2},{"id":"GO:0016183","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0006355","count":2}]},{"hash":"1453691624893735780","title":"Developmental Signaling and Morphogenesis","description":"The terms point to regulatory signaling pathways guiding tissue development and morphogenesis\u2014evident in hair follicle morphogenesis, ossification/bone maturation, and Roundabout signaling\u2014with additional hints of cell cycle/gene expression regulation and migratory control during development. While immune and angiogenic processes appear, the dominant theme is developmental signaling shaping tissues. ","confidence":"Medium","size":29,"edges":160,"triangles":417,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":14},{"id":"GO:0055091","count":13},{"id":"GO:0002551","count":10},{"id":"GO:0043552","count":10},{"id":"GO:0043931","count":10}]},{"hash":"117042254640151699","title":"Developmental Regulation and Organogenesis","description":"The top GO terms point to DNA-templated transcription and retinoic acid\u2013responsive regulation, together with widespread organogenesis signals (face, heart, placenta, vagina, cartilage growth) and neurodevelopment (axonogenesis). This pattern suggests a cluster of transcriptional regulators involved in embryonic development and morphogenesis across multiple tissues, rather than a single tissue-specific function. Some terms like LPS response or pancreatic juice secretion are peripheral but do not override the core developmental theme.","confidence":"High","size":29,"edges":22,"triangles":9,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":14},{"id":"GO:0071300","count":13},{"id":"GO:0060324","count":13},{"id":"GO:0071222","count":13},{"id":"GO:0001890","count":13}]},{"hash":"34080585111462225","title":"GPCR Signaling in Metabolic Stress Responses","description":"Top GO terms show a strong emphasis on adenylate cyclase-activating GPCR signaling, with related processes in energy metabolism (electron transport chain, thermogenesis) and physiological regulation (blood pressure, temperature response). The presence of immune and stress-related terms, along with Rho signaling, suggests a broader GPCR-driven signaling network coordinating metabolic and stress responses. Confidence: Medium","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":21},{"id":"GO:0010579","count":21},{"id":"GO:0022900","count":21},{"id":"GO:0035025","count":21},{"id":"GO:0002024","count":20}]},{"hash":"1232903962464512301","title":"Cardiac and neural crest morphogenesis","description":"The top GO terms cluster around embryonic development and morphogenesis, especially aspects of heart/cardiac outflow tract formation and neural crest\u2013related processes (cardiac septum morphogenesis, cardiac neural crest cell migration, floor plate development, somitogenesis, hemangioblast differentiation). While some terms are general (transcription by RNA Pol II), the shared theme is developmental patterning and morphogenesis, with a focus on cardiac and neural crest lineages.","confidence":"High","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2001038","count":26},{"id":"GO:0048712","count":26},{"id":"GO:0006366","count":26},{"id":"GO:0060411","count":25},{"id":"GO:0003253","count":25}]},{"hash":"423939383896894728","title":"Neural development and axon guidance (ROBO signaling)","description":"The top GO terms point to brain development, CNS projection neuron axonogenesis, retinal ganglion cell axon guidance, and chemokine/ROBO signaling, indicating a cohesive set of proteins guiding neural development and axon pathfinding. Additional links to receptor tyrosine kinase signaling and olfactory interneuron migration support a broader neural development theme, with membrane repair and apoptosis as possible ancillary processes.","confidence":"High","size":29,"edges":285,"triangles":1446,"max_degree":28,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001778","count":6},{"id":"GO:0008284","count":6},{"id":"GO:0035385","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0007169","count":5}]},{"hash":"2278224031802056112","title":"Developmental signaling and cell proliferation","description":"The terms cluster around kinase signaling (positive regulation of serine/threonine kinase activity and autophosphorylation), regulation of GTPase activity, and mitotic cell cycle, with strong ties to multicellular development and skin development. Additional terms for mRNA transport and hypoxia response fit into growth and stress-adaptive signaling during development, supporting a cohesive theme of developmental signaling and proliferation.","confidence":"Medium","size":29,"edges":109,"triangles":354,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":21},{"id":"GO:0051028","count":21},{"id":"GO:0000278","count":21},{"id":"GO:0071456","count":21},{"id":"GO:0031954","count":21}]},{"hash":"177319240089986734","title":"Mitochondrial translation and respiration","description":"The cluster is dominated by GO terms for translation and mitochondrial tRNA aminoacylation (prolyl-, histidyl-, seryl-, glycyl-, threonyl-, and others), plus the respiratory electron transport chain, indicating a cohesive set of mitochondrial protein synthesis components tied to oxidative phosphorylation.","confidence":"High","size":29,"edges":278,"triangles":1439,"max_degree":27,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":23},{"id":"GO:0006433","count":7},{"id":"GO:0070584","count":6},{"id":"GO:0015966","count":6},{"id":"GO:0006427","count":6}]},{"hash":"443234177476157619","title":"Cell Fate and Proliferation Signaling","description":"This cluster is dominated by terms from major regulatory signaling pathways (Wnt and Hippo) that govern cell growth, differentiation (keratinocytes), and apoptosis, along with cell cycle and DNA replication. The mix of development (hippocampus) and immune signaling (T cell receptor) suggests a broad, coordinated network controlling cell fate decisions and proliferation across tissues. ","confidence":"Medium","size":29,"edges":61,"triangles":31,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":15},{"id":"GO:0030216","count":14},{"id":"GO:0035329","count":14},{"id":"GO:0060044","count":14},{"id":"GO:0006915","count":14}]},{"hash":"342980320197254483","title":"tRNA charging and translation fidelity","description":"Most of the top GO terms cluster around translation (GO:0006412) and aminoacylation of tRNAs (leucyl- and methionyl-tRNA) with regulation of translational fidelity. This indicates the proteins are mainly involved in protein synthesis and quality control of translation. The other terms (e.g., cold response, corticosterone, heart development) appear more as secondary stress or broader annotations and do not redefine the core function. Therefore, the cluster is best described as translation and tRNA charging with fidelity control.","confidence":"High","size":29,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006412","count":5},{"id":"GO:0009409","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0051412","count":3}]},{"hash":"550996736036656402","title":"Unknown","description":"The cluster shows a broad mix of GO terms (transcription regulation, NO biosynthesis, collagen and cholesterol metabolism, glucocorticoid metabolism, membrane repair, nutrient response) with no clear shared function or interaction pattern (no edges/triangles), making it hard to assign a coherent, specific label. ","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010873","count":2},{"id":"GO:0045429","count":2},{"id":"GO:0032967","count":2},{"id":"GO:0008211","count":2},{"id":"GO:0007584","count":2}]},{"hash":"1286832847410268255","title":"Detoxification and stress response","description":"This cluster is dominated by GO terms tied to detoxifying toxic substances, oxidant detoxification, glutathione metabolism, and toxin catabolic processes, with supporting signals for starvation response and DNA repair, suggesting a cohesive cellular defense and stress-response program.","confidence":"High","size":29,"edges":309,"triangles":2252,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":25},{"id":"GO:0098869","count":24},{"id":"GO:0006749","count":24},{"id":"GO:0009407","count":24},{"id":"GO:0040008","count":24}]},{"hash":"1365636999119738201","title":"Actin Cytoskeleton Remodeling and Junction Integrity","description":"The top GO terms cluster around actin cytoskeleton organization, Rho GTPase signaling, and microvillus assembly, with links to epithelial/endothelial barrier establishment. These point to cytoskeletal remodeling governing cell shape and cell\u2013cell junctions across tissues. Some terms are broader regulatory processes or specific sensory contexts, but the dominant theme is actin-driven remodeling and barrier integrity.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0019933","count":8},{"id":"GO:2000670","count":7},{"id":"GO:0030033","count":7},{"id":"GO:0090557","count":7},{"id":"GO:0035023","count":6}]},{"hash":"2090398429086635970","title":"NLRP3 Inflammasome Activation and Pyroptosis","description":"The cluster shows strong enrichment for innate immune signaling and inflammasome-related processes, including NLRP3 inflammasome complex assembly, pyroptotic inflammatory response, and production of IL-18 and IL-1\u03b2, along with ubiquitination and actin cytoskeleton remodeling. This combination points to a coordinated inflammasome-driven inflammatory program in immune cells, with cytoskeletal changes facilitating assembly and cytokine release.","confidence":"High","size":29,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":12},{"id":"GO:0045087","count":11},{"id":"GO:0051639","count":11},{"id":"GO:0032621","count":10},{"id":"GO:0050718","count":10}]},{"hash":"138718326493271576","title":"Auditory mechanosensation and neuromuscular signaling","description":"The top GO terms cluster around detection of mechanical stimulus for hearing, ion transport and membrane depolarization, excitatory postsynaptic potentials, and cholinergic synaptic transmission, together with locomotory behavior and neuromuscular control of posture and micturition. This suggests a cohesive theme of sensory input for sound feeding into neural signaling that regulates movement and muscle function, i.e., auditory mechanosensation linked to neuromuscular signaling. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":11},{"id":"GO:0071805","count":10},{"id":"GO:0060079","count":10},{"id":"GO:0035725","count":10},{"id":"GO:0051899","count":10}]},{"hash":"1941654142364623954","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0016049","count":7},{"id":"GO:0030488","count":6},{"id":"GO:0009102","count":6}]},{"hash":"741716866830401002","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":12,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0016310","count":4},{"id":"GO:0019284","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0019509","count":4}]},{"hash":"1493538516846406957","title":"Ubiquitin-Dependent Proteolysis and Innate Immunity","description":"This cluster is dominated by GO terms for ubiquitin-mediated protein degradation (ubiquitin-dependent protein catabolic process, autoubiquitination, multiple ubiquitin linkages like K48, K63, and K6, ERAD) and immune-related roles (innate immune response, defense against virus, TNF signaling). The proteins are therefore likely involved in tagging substrates for degradation and modulating innate immune signaling, rather than a single structural function; the histone turnover term likely reflects chromatin-associated ubiquitination. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":20},{"id":"GO:0045087","count":12},{"id":"GO:0051865","count":12},{"id":"GO:0070534","count":11},{"id":"GO:1903265","count":11}]},{"hash":"54282409238219899","title":"Rho/Rac signaling regulation and cytoskeletal dynamics","description":"The cluster centers on GO terms that regulate Rac and Rho signaling and stress fiber assembly, indicating a theme of cytoskeletal dynamics governed by regulatory signaling. Additional terms touch broader signaling pathways (insulin/GH, TNF) and processes like endothelial lumen formation and osteoclast differentiation, suggesting a wider regulatory network in signaling that interfaces metabolism, vascular biology, and bone remodeling, but with a clear emphasis on Rho/Rac-mediated cytoskeletal control.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035021","count":6},{"id":"GO:0060396","count":6},{"id":"GO:0035024","count":6},{"id":"GO:0051497","count":6},{"id":"GO:0097498","count":6}]},{"hash":"1439579747390922185","title":"Respiratory tract and muscle development regulators","description":"The cluster is enriched for terms related to development of airway structures (trachea and bronchus cartilage, roof of the mouth), lung smooth muscle, skeletal muscle differentiation, and cardiac ventricle formation, with transcriptional regulation (DNA-templated transcription and RNA Pol II regulation) and TGF-beta signaling. This points to proteins that function as transcriptional regulators coordinating organogenesis across respiratory, muscular, and cardiovascular systems.","confidence":"Medium","size":29,"edges":235,"triangles":949,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":19},{"id":"GO:0060534","count":15},{"id":"GO:0061145","count":15},{"id":"GO:0060532","count":15},{"id":"GO:0071864","count":15}]},{"hash":"1031690400327820116","title":"Corneal epithelial inflammatory signaling and autophagy","description":"This cluster centers on GO terms related to immune signaling (lipopolysaccharide response, NF-kappaB signaling) and cell survival (negative regulation of apoptosis, autophagy), along with barrier-related processes (tight junction assembly) and a tissue-specific term (cornea development). Together, these suggest a coherent theme of inflammatory signaling and autophagy supporting corneal epithelial barrier function and wound responses, with some angiogenesis signal possibly reflecting healing processes. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031663","count":6},{"id":"GO:0051897","count":6},{"id":"GO:0070830","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0043066","count":4}]},{"hash":"1864033608587374080","title":"Developmental morphogenesis and cell signaling","description":"The top GO terms point to developmental processes (notochord morphogenesis, heart development) alongside extracellular matrix interactions (cell-matrix adhesion) and signaling regulation (peptidyl-tyrosine phosphorylation, ectodomain proteolysis). Although a few outliers (e.g., lipopolysaccharide biosynthesis) appear, the prevailing theme is proteins involved in tissue morphogenesis and signaling during development.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0071356","count":5},{"id":"GO:0009103","count":5},{"id":"GO:0042619","count":5},{"id":"GO:0050731","count":4}]},{"hash":"1426181333668231502","title":"Neuronal GPCR-cAMP signaling and development","description":"This cluster\u2019s top GO terms revolve around neuronal signaling and development, including CNS neuron development, dendrite morphogenesis regulation, Rap GTPase signaling, and pathways involving adenylate cyclase-activating GPCR signaling and cAMP-dependent protein kinase activity. Together they suggest a coherent theme of GPCR-driven cAMP signaling supporting neuronal growth and morphology. A minority of terms (like DNA repair) appear peripherally and do not alter the main theme. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0034389","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0050774","count":2},{"id":"GO:2000481","count":2}]},{"hash":"1934485441666959610","title":"Cellular stress response, autophagy, and apoptosis","description":"The proteins in this cluster are enriched for terms related to cellular stress responses ( xenobiotic stimulus, defense against bacteria), autophagy, and mitochondrial pathways (release of cytochrome c) that govern survival versus death, plus PI3K/AKT signaling and amyloid-beta metabolism. This suggests a cohesive theme around how cells detect stress, manage damaged components, and decide between survival and apoptosis, with some connections to immune and signaling processes.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0006914","count":2},{"id":"GO:0050435","count":2},{"id":"GO:0034116","count":2},{"id":"GO:0051897","count":2}]},{"hash":"1940222939584719045","title":"Neural adhesion and paranodal junction formation","description":"The cluster is strongly enriched for GO terms related to cell\u2013cell adhesion (heterophilic and homophilic), synapse assembly, and nervous system development, with specific emphasis on paranodal junction assembly and protein localization to the juxtaparanode region of the axon. This combination points to proteins that mediate neural connectivity and specialized axon\u2013glial junctions, likely adhesion molecules coordinating synapse formation and paranodal junctions during neural development and maintenance. Some bone-related terms appear among the top terms, but the dominant signal is neural adhesion and axon junction assembly.","confidence":"High","size":29,"edges":3,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":15},{"id":"GO:0007156","count":15},{"id":"GO:0051965","count":13},{"id":"GO:0043931","count":13},{"id":"GO:0048661","count":11}]},{"hash":"683192777524575698","title":"Immune Cell Adhesion and Activation","description":"This cluster centers on immune-related functions: both cell-cell adhesion (heterophilic/homophilic) and signals that drive immune responses, including T cell costimulation, IL-2 production, and T cell proliferation, plus antibody production, NK cell susceptibility, complement activation, and proteolysis. The mix suggests a module of immune communication and activation involving adaptive (T cells, antibodies) and innate (complement, NK) components. Unknown symbiont-entry term may reflect host-pathogen interactions but does not dominate the set.","confidence":"High","size":29,"edges":17,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":18},{"id":"GO:0031295","count":17},{"id":"GO:0007156","count":16},{"id":"GO:0002377","count":16},{"id":"GO:0046718","count":16}]},{"hash":"1453005854541958557","title":"Skeletal and nervous system development","description":"This cluster is dominated by terms related to skeletal system development and nervous system development, including ossification and CNS development, indicating a shared role in bone formation and neural patterning. Additional terms like neuron projection guidance and cell\u2013cell adhesion reinforce a developmental theme, while immune-related terms appear less central. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001501","count":11},{"id":"GO:0007417","count":10},{"id":"GO:0007399","count":9},{"id":"GO:0043931","count":8},{"id":"GO:2000649","count":7}]},{"hash":"1143811841454405951","title":"Skeletal development and ECM organization","description":"The top GO terms center on skeletal system development, ossification, and collagen fibril organization, with supporting signals from multicellular development and cell-cell adhesion, indicating a coherent theme of bone formation and connective tissue maturation through ECM remodeling. Some outliers exist (synapse assembly, symbiont entry) but do not override the core bone/ECM development signal.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007157","count":17},{"id":"GO:0051965","count":14},{"id":"GO:0001501","count":13},{"id":"GO:0007275","count":12},{"id":"GO:0048661","count":12}]},{"hash":"2262955574275305324","title":"Insulin/IGF Signaling and Metabolic Regulation","description":"The top GO terms cluster around insulin receptor and IGF receptor signaling, with downstream effects on glycogen biosynthesis and fatty acid metabolism (e.g., fatty acid beta-oxidation and import regulation). This suggests proteins involved in insulin/IGF-driven metabolic control, coordinating glucose and lipid pathways. Some obsolete terms appear, but the core theme remains insulin/IGF signaling linked to energy metabolism.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014065","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0032000","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0048009","count":4}]},{"hash":"1429350007574991541","title":"Neural development and ciliogenesis","description":"The cluster\u2019s dominant terms point to neural/craniofacial development (face development, neural tube closure, brain development) and ciliogenesis (cilium assembly), suggesting proteins involved in neural development and cilia-related signaling; other GO terms reflect transcription and translation activity typical of developing neural tissue.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060324","count":5},{"id":"GO:0001843","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007420","count":4}]},{"hash":"497448607077562116","title":"Immune signaling and circadian regulation","description":"Most of the top GO terms are clearly immune-related, including immune response, interleukin-12 production, and immunological synapse formation, as well as thymocyte differentiation. A few terms point to circadian sleep/wake cycles and grooming behavior, suggesting possible pleiotropy or cross-talk between immune and neural/behavioral processes. Since there isn't a single unifying process beyond immune signaling, the label emphasizes the central immune-related function with a note of circadian/behavioral associations.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":23},{"id":"GO:1902239","count":23},{"id":"GO:0006955","count":23},{"id":"GO:1904155","count":23},{"id":"GO:0007625","count":23}]},{"hash":"1306133269324638","title":"Regulation of receptor signaling and cell communication","description":"The top GO terms indicate regulation of ephrin receptor signaling, GPCR-related pathways, and communication between cells (including synaptic localization and electrical coupling), suggesting a cohesive theme of modulating signaling and intercellular communication. Some terms are obsolete or less directly related (e.g., telomere maintenance, mRNA stability), but the common thread is regulatory control over signaling pathways and cellular communication rather than a single enzyme or process.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":7},{"id":"GO:1901187","count":7},{"id":"GO:1900383","count":7},{"id":"GO:0032212","count":6},{"id":"GO:0045083","count":6}]},{"hash":"1210934555735621317","title":"Tissue Development and Stress Response","description":"The top GO terms point to development of specific tissues (epidermis, eye, Sertoli cells) alongside stress- and cell-cycle-related processes (response to xenobiotic stimulus, hydrogen peroxide response, apoptotic regulation, and DNA replication). This suggests proteins in this cluster participate in tissue development with concurrent stress-response and cell-cycle regulation themes, despite no interacting network edges observed. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050766","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0060009","count":2},{"id":"GO:0008544","count":2}]},{"hash":"2133524290999794306","title":"Sensory perception and stimulus-response signaling","description":"These proteins are enriched for GO terms related to sensing and responding to stimuli, including pain perception, temperature/thermogenesis, visual processes, prostaglandin signaling, and drug-induced behavioral responses. ERK signaling and chemotaxis terms point to downstream stimulus-response pathways, supporting a cohesive theme of sensory processing and stimulus-driven responses, despite some peripheral terms like heart development present in the set.","confidence":"Medium","size":28,"edges":25,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":24},{"id":"GO:0002024","count":21},{"id":"GO:0071502","count":21},{"id":"GO:0008542","count":18},{"id":"GO:0007507","count":18}]},{"hash":"947935419929371152","title":"Hair follicle morphogenesis and tissue homeostasis","description":"Proteins in this cluster are collectively linked to hair follicle development, maintenance of cell numbers within a tissue, and active cell division, with supporting signals from endocytosis. The prominence of hair follicle morphogenesis, tissue homeostasis, and cell cycle-related terms suggests a coherent theme of hair follicle development tied to tissue growth and upkeep.","confidence":"High","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0008283","count":7},{"id":"GO:0048873","count":7},{"id":"GO:0031069","count":7},{"id":"GO:0006897","count":7},{"id":"GO:0043497","count":7}]},{"hash":"566640032549295969","title":"Calcium signaling and ion transport with temperature response","description":"The dominant terms center on calcium handling (calcium import, SR calcium release, cardiac action potential regulation) and broader ion homeostasis (Mg/Mn transport), with supporting links to temperature/pain sensing. This suggests a coherent theme around calcium-mediated signaling and ionic balance, with temperature-related responses tying in, justifying a label focused on calcium signaling and ion transport alongside temperature response.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0051592","count":7},{"id":"GO:0010961","count":7}]},{"hash":"2073348559415870503","title":"DNA Repair and Damage Response","description":"Most of the top GO terms cluster around DNA repair pathways (base excision, nucleotide excision repair) and DNA metabolic processes (DNA replication). Several terms also reflect cellular responses to DNA-damaging stress (gamma radiation, hyperoxia, ethanol), suggesting the proteins participate in genome maintenance and damage signaling. Given the dominance of DNA repair-related terms, this label captures the cluster's core function.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":6},{"id":"GO:0071897","count":4},{"id":"GO:0006297","count":4},{"id":"GO:0045471","count":4},{"id":"GO:0006284","count":4}]},{"hash":"2050250576860522864","title":"Neural development and synaptic plasticity","description":"This cluster is enriched for neuronal/synaptic functions: excitatory postsynaptic potential, axonogenesis, long-term synaptic potentiation, and Schwann cell development point to neural connectivity and glial involvement. The presence of mitotic cell cycle and some development terms like heart development and abscisic acid signaling appear as peripheral associations, but the strongest, most coherent theme is neural development and synaptic plasticity.","confidence":"Medium","size":28,"edges":74,"triangles":61,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060079","count":22},{"id":"GO:0007409","count":22},{"id":"GO:0043065","count":22},{"id":"GO:0060291","count":22},{"id":"GO:0007507","count":22}]},{"hash":"2039614713780031856","title":"GPCR-MAPK signaling and immune regulation","description":"The top GO terms cluster around GPCR signaling and positive regulation of GTPase activity, as well as ERK1/2 cascade activation, which together point to GPCR-driven signaling and MAPK pathway engagement. Additional terms reflect immune processes (immune response, interleukin-12 production, thymocyte differentiation) and related regulatory layers, with a few organismal phenotypes that may indicate broader regulatory roles. This combination suggests a cohesive theme of GPCR-mediated signaling impacting immune-related functions.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":17},{"id":"GO:0070374","count":17},{"id":"GO:0035625","count":16},{"id":"GO:1902239","count":16},{"id":"GO:0006955","count":16}]},{"hash":"1074167964390589647","title":"GPCR-Mediated Neuroendocrine and Immune Signaling","description":"This cluster is dominated by GPCR signaling terms (dopamine receptor signaling and adenylate cyclase-activating GPCR pathways) along with neuropeptide signaling, prostaglandin response, immune and inflammatory responses, and blood pressure regulation, pointing to a cohesive neuroendocrine-immune signaling theme; an electron transport chain term is present but not defining.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007191","count":15},{"id":"GO:0071380","count":15},{"id":"GO:0008283","count":15},{"id":"GO:0006955","count":15},{"id":"GO:0045777","count":14}]},{"hash":"1811183150649761075","title":"Embryonic development and organogenesis","description":"The top GO terms cluster around embryogenesis and organ formation, including mesoderm development, left-right patterning, cartilage morphogenesis, placental/endocrine system development, and tissue differentiation, pointing to a coherent theme of early development and organogenesis; other terms like mRNA splicing are general cellular processes that do not override this theme.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":16},{"id":"GO:0003198","count":16},{"id":"GO:0060806","count":16},{"id":"GO:0035270","count":16},{"id":"GO:0060707","count":16}]},{"hash":"933366703147160987","title":"Embryonic skeletal morphogenesis and collagen ECM organization","description":"The GO terms show a strong emphasis on collagen fibril organization, skeletal morphogenesis, chondrocyte proliferation, and cell adhesion, which together point to bone/cartilage development and extracellular matrix remodeling during embryogenesis. Additional terms related to multicellular development, mechanotransduction, and vascular development support a broader morphogenetic context, but the core signal centers on skeletal ECM formation and morphogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":7},{"id":"GO:0007275","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0048701","count":6},{"id":"GO:0060976","count":5}]},{"hash":"1309656730981497641","title":"Neural development and cytoskeletal signaling","description":"The top GO terms point to nervous system development (nervous system development, hippocampus development, forebrain radial glial cell differentiation) and cytoskeletal dynamics (Rac protein signal transduction, positive regulation of lamellipodium assembly), suggesting involvement in neural differentiation and cellular migration. Additional regulation of signaling (negative regulation of canonical NF-kappaB) and protein ubiquitination hints at broader post-translational control during neural development. The presence of cell division terms may reflect proliferative aspects of developing neural tissue, but the core pattern centers on neural development coupled with cytoskeletal signaling and regulation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0016601","count":3},{"id":"GO:0021766","count":2},{"id":"GO:0043124","count":2}]},{"hash":"1191423339673471451","title":"Nuclear transport and meiotic regulation","description":"The proteins show enrichment in meiotic processes (meiotic sister chromatid cohesion, female meiotic nuclear division) alongside nuclear transport and nucleocytoplasmic trafficking components (nuclear pore complex assembly, ribosomal protein import into nucleus, mRNA transport) and related signaling activities (TORC1 signaling, kinase activity, GTPase activity, serine dephosphorylation). This points to a cohesive theme around coordinating meiosis with nuclear transport and signaling pathways.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051754","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0070262","count":6},{"id":"GO:0051028","count":6},{"id":"GO:0033674","count":6}]},{"hash":"1485395499853912879","title":"Embryonic Morphogenesis and Development","description":"This cluster centers on developmental and morphogenetic processes across multiple tissues (hair follicle, cartilage, palate, placenta/endocrine system) and includes regulatory transcription control, indicating a broad theme of embryonic development and organogenesis rather than a single tissue-specific function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031069","count":19},{"id":"GO:0003323","count":19},{"id":"GO:0003198","count":19},{"id":"GO:0060806","count":19},{"id":"GO:0035270","count":19}]},{"hash":"207109006039341967","title":"mRNA Processing and Export","description":"The cluster is dominated by GO terms for spliceosome-assisted mRNA processing (splicing, polyadenylation, processome assembly), mRNA stabilization/export, and related translation initiation assembly, indicating a cohesive module of mRNA maturation and export. ","confidence":"High","size":28,"edges":65,"triangles":82,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":15},{"id":"GO:0006378","count":15},{"id":"GO:0045292","count":15},{"id":"GO:0048026","count":14},{"id":"GO:0031047","count":14}]},{"hash":"554647224449814866","title":"Immune signaling and actin remodeling","description":"This cluster is enriched for GO terms tied to regulation of Rho and Ras signaling, cytoskeletal assembly (filopodium/lamellipodium), integrin activation, vesicle priming, and T cell activation, pointing to a coherent role in immune cell signaling coupled with actin-driven motility and exocytosis.","confidence":"High","size":28,"edges":2,"triangles":0,"max_degree":2,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":18},{"id":"GO:0046580","count":15},{"id":"GO:0060313","count":13},{"id":"GO:0043314","count":13},{"id":"GO:0046847","count":13}]},{"hash":"2185409205510348086","title":"Differentiation and gene-expression regulation","description":"This cluster centers on processes related to differentiation across multiple lineages (neuronal spine development, oligodendrocyte differentiation, spermatid nucleus differentiation) and supporting regulatory mechanisms such as mRNA stability, ubiquitination, and cell-cycle control (spindle assembly, CDK activity regulation). The mix suggests a broad program coordinating development with gene expression and protein turnover, rather than a single, narrow function.","confidence":"Medium","size":28,"edges":27,"triangles":0,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0061000","count":10},{"id":"GO:0043488","count":8},{"id":"GO:0007289","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0051225","count":8}]},{"hash":"871628570510326279","title":"Innate and adaptive immune activation with T cell regulation","description":"This cluster centers on immune system functions, with prominent GO terms for innate and adaptive immune responses, regulation of T cell proliferation and regulatory T cell differentiation, complement activation, and cytokine production (IL-2, IL-4). The combination suggests proteins involved in immune signaling and modulation of immune cell activity, including NK cell interactions and proteolysis linked to immune processes. The cardiac action potential term is likely incidental; the dominant signal is immune activation/regulation.","confidence":"High","size":28,"edges":5,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":14},{"id":"GO:0046007","count":13},{"id":"GO:0002250","count":13},{"id":"GO:0045404","count":12},{"id":"GO:0045590","count":12}]},{"hash":"1624643978691361447","title":"Neuronal development and cytoskeletal remodeling","description":"The top terms cluster around neuronal development and cytoskeletal dynamics: dendrite morphogenesis, hippocampus development, spermatid development, and filopodium assembly/regulation. These suggest a role in shaping cell morphology during development, especially in neurons. The presence of translation and ubiquitination hints at general cellular regulation but do not override the core theme of cytoskeletal remodeling in developmental contexts.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0016567","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0051489","count":3}]},{"hash":"795621057816736875","title":"Ubiquitin-Dependent ERAD and Deubiquitination","description":"The top GO terms are centered on ubiquitin-related processes, especially protein deubiquitination and ER-associated degradation (ERAD), suggesting the cluster functions in ubiquitin-mediated protein quality control and degradation. Some terms also touch on cell cycle processes and signaling, which can intersect with protein turnover and cellular stress responses, but the strongest signal remains ubiquitin-dependent regulation of protein catabolism. Overall, the cluster appears to reflect a core theme of ubiquitin-mediated proteostasis and ERAD, with auxiliary connections to broader cellular regulation.","confidence":"Medium","size":28,"edges":374,"triangles":3173,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":18},{"id":"GO:0030433","count":16},{"id":"GO:1903071","count":15},{"id":"GO:0030474","count":15},{"id":"GO:0097237","count":15}]},{"hash":"2018690864136059592","title":"Rho GTPase\u2013driven cytoskeletal remodeling","description":"The top GO terms point to regulation and activation of Rho family GTPases (small GTPases), including actin cytoskeleton organization and ruffle assembly, as well as signaling pathways like GTPase activity and Ras/Rho-mediated processes. This reflects a cohesive theme of cytoskeletal dynamics, cell adhesion, and membrane remodeling driven by Rho GTPase signaling, with innate immune context and heart development likely secondary associations. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0043547","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0046580","count":6}]},{"hash":"996715614715123165","title":"Embryonic patterning and organ development","description":"The top GO terms cluster around left-right pattern formation and various lineage-specific developmental processes (pancreatic development, endocardial cushion EMT, placental/endocrine development, trophoblast differentiation, cartilage morphogenesis), indicating a focus on embryogenesis and tissue/organ specification. Some general cellular processes appear but do not override the developmental theme. ","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":19},{"id":"GO:0003323","count":18},{"id":"GO:0003198","count":18},{"id":"GO:0060806","count":18},{"id":"GO:0035270","count":18}]},{"hash":"1878337189217024351","title":"Embryonic Development with Immune Components","description":"This cluster centers on broad developmental programs, including primitive streak formation, trophoblast giant cell differentiation, inner ear development, and neuron development, with additional annotations for complement activation and blood coagulation. The presence of transcriptional regulation terms supports coordinated gene expression during these processes, though the proteins appear to span multiple related pathways rather than a single function, reflected by zero network edges.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0050673","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0048839","count":5}]},{"hash":"638493795088746905","title":"Mitochondrial Transport and Dynamics","description":"This cluster is strongly mitochondria-centered, with frequent GO terms for membrane fission and regulation of membrane permeability, plus transport-related terms for manganese, phosphate, thiosulfate, and heme, as well as the malate-aspartate shuttle and cellular responses to amino acid starvation, collectively pointing to mitochondrial transport, dynamics, and metabolism as the core function.","confidence":"High","size":28,"edges":120,"triangles":224,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0090149","count":25},{"id":"GO:0046902","count":25},{"id":"GO:0006828","count":25},{"id":"GO:0035435","count":25},{"id":"GO:0043490","count":25}]},{"hash":"1730038269896889813","title":"Coagulation, complement activation, and ECM remodeling","description":"This cluster shows strong representation of coagulation (blood coagulation, positive regulation of coagulation) and complement activation (classical and lectin pathways), coupled with extracellular matrix remodeling signals (collagen catabolic process, biomineral tissue development) and tissue development. While there are broader development and transcription-related terms present (midbrain development, negative regulation of transcription by RNA polymerase II), the core theme appears to be hemostasis and innate immune interaction with the extracellular matrix, suggesting a connective tissue\u2013immune\u2013coagulation module. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0030901","count":11},{"id":"GO:0006958","count":10},{"id":"GO:0001867","count":10},{"id":"GO:0030574","count":10}]},{"hash":"1378533330179600268","title":"Nuclear ribosome biogenesis and export","description":"This cluster centers on ribosome assembly and RNA processing/export, with strong support from ribosome biogenesis, ribosomal subunit export from the nucleus, mRNA export, tRNA processing, and translation terms. The occasional GTPase activity regulation aligns with assembly factors involved in ribosome maturation and nuclear trafficking, suggesting a cohesive role in ribosome production and RNA transport.","confidence":"High","size":28,"edges":9,"triangles":7,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0000055","count":7},{"id":"GO:0042254","count":6},{"id":"GO:0000056","count":6},{"id":"GO:0043547","count":5}]},{"hash":"1840324434249274924","title":"Proteoglycan Biosynthesis and ECM Adhesion","description":"The top GO terms cluster around biosynthetic processes for proteoglycans (chondroitin sulfate and heparan sulfate) and related extracellular matrix assembly, which points to proteoglycan production and ECM interactions. Additional terms about cell adhesion molecules support this ECM/adhesion theme. Some neural and lung differentiation signals appear peripheral, but the core signal is proteoglycan synthesis and extracellular matrix adhesion, suggesting the proteins co-function in ECM composition and cell\u2013matrix interactions. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050650","count":4},{"id":"GO:0015012","count":4},{"id":"GO:0007605","count":3},{"id":"GO:0060487","count":3},{"id":"GO:0007268","count":3}]},{"hash":"1516346973159279523","title":"Unknown","description":"The top GO terms span neuromuscular/posture control, immune interferon responses, endosomal trafficking, synaptic vesicle clustering, bone development, and insulin-stimulated glucose uptake. With no edges and no clear shared pathway, the proteins do not reveal a single cohesive function, so a precise cluster name cannot be assigned beyond Unknown.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":3},{"id":"GO:0046597","count":3},{"id":"GO:0099638","count":3},{"id":"GO:0097091","count":3},{"id":"GO:0035456","count":3}]},{"hash":"1674860808603890505","title":"Chromatin remodeling and transcription regulation","description":"This cluster is defined by GO terms linked to chromatin dynamics and transcription control\u2014chromatin remodeling, nucleosome disassembly, histone acetylation/modification, and regulation of DNA-templated transcription\u2014indicating proteins that modulate chromatin structure to regulate transcription. Some terms are obsolete but the core theme centers on chromatin remodeling and transcription regulation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":5},{"id":"GO:0043044","count":4},{"id":"GO:0035066","count":4},{"id":"GO:0006337","count":4},{"id":"GO:0006351","count":3}]},{"hash":"1747144529521895593","title":"Chromatin modification and transcription regulation","description":"The top GO terms include histone modifications (H2A deubiquitination, H3-K4 and H3-K79 methylation) and regulation of DNA-templated transcription, indicating a shared role in chromatin state and transcription control. Additional terms about ubiquitin processing and Hsp90 deacetylation loosely align with regulatory layers surrounding transcription. Overall, the cluster appears centered on chromatin modification and transcription regulation rather than other cellular processes.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035522","count":4},{"id":"GO:0051568","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0034729","count":4}]},{"hash":"1474589112083998985","title":"Organogenesis across sensory and neural tissues","description":"This cluster's most represented terms are developmental processes for organs and neural/sensory structures (inner ear, midbrain, eye morphogenesis, palate formation, endocardial EMT), suggesting a cohesive theme of organogenesis. A few immune-related terms (complement activation, IgA switching) appear, but they seem secondary noise relative to the dominant developmental signal.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048839","count":7},{"id":"GO:0060021","count":7},{"id":"GO:0051965","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0030901","count":5}]},{"hash":"1590974494008908523","title":"MAPK signaling regulation and neural development","description":"Reasoning: The top terms show regulation and dephosphorylation of MAPK/ERK signaling, tyrosine phosphorylation dynamics, and crosstalk with RTK/insulin signaling, alongside immune signaling (T cell receptor) and neural development/differentiation (Bergmann glial cells, cerebellar cortex formation, axon regeneration). This suggests a cohesive cluster of proteins that modulate signaling pathways, especially MAPK, in neural and immune contexts.","confidence":"Medium","size":28,"edges":168,"triangles":418,"max_degree":24,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0070373","count":14},{"id":"GO:0050860","count":14},{"id":"GO:0000200","count":14},{"id":"GO:0035335","count":13},{"id":"GO:0060020","count":12}]},{"hash":"300948602950000006","title":"Cellular stress response and transcription regulation","description":"The terms cluster around stress-related prompts (muscle stretch, heat stress) and regulation of transcription (NF-kappaB), along with downstream processes like mRNA processing, apoptosis, telomere maintenance, and immune modulation, suggesting a theme of stress-induced gene expression control and cell fate decisions rather than a single pathway. Some terms are obsolete, reflecting annotation drift, but the core idea remains stress response coupled to transcription and survival.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035994","count":5},{"id":"GO:0061408","count":5},{"id":"GO:0097284","count":5},{"id":"GO:0032088","count":5},{"id":"GO:0006397","count":5}]},{"hash":"2017758419292052905","title":"Rho/Rac-driven cytoskeleton remodeling and epithelial polarity","description":"This cluster\u2019s top GO terms strongly point to actin cytoskeleton rearrangements governed by Rho and Rac signaling (filopodium and microvillus assembly, Rac signaling, and regulation of Rho signaling), coupled with membrane localization and epithelial polarity establishment, as well as gland morphogenesis. Together these suggest coordinated cytoskeletal dynamics and epithelial organization during morphogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0035023","count":9},{"id":"GO:0051835","count":7},{"id":"GO:0046847","count":6},{"id":"GO:0016601","count":6},{"id":"GO:0090002","count":6}]},{"hash":"2146043684501357014","title":"NF-\u03baB\u2013driven neural development and synaptic plasticity","description":"The top terms show a strong signal for canonical NF-kappaB signaling and its regulation, plus related Rho signaling and processes tied to synaptic structure and exocytosis. This points to a theme of NF-\u03baB\u2013regulatory control over neural development and synaptic plasticity, with some developmental terms (e.g., multicellular development, lens fiber differentiation) likely reflecting broader roles or annotation spillover. Overall, the NF-\u03baB\u2013associated and synaptic regulation signals best describe this cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0051092","count":3},{"id":"GO:1902895","count":3},{"id":"GO:0007249","count":3}]},{"hash":"266583186467989962","title":"GPCR-Immune Signaling","description":"This cluster's GO terms concentrate on GPCR signaling (transactivation and desensitization) intertwined with immune processes (immune response, IL-12 production, immunological synapse formation, thymocyte differentiation). While some terms touch on behavior and circadian rhythm, the dominant signal is GPCR-mediated regulation of immunity, suggesting a coherent GPCR-immune signaling theme.","confidence":"High","size":27,"edges":143,"triangles":190,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":23},{"id":"GO:1902239","count":23},{"id":"GO:0006955","count":23},{"id":"GO:1904155","count":23},{"id":"GO:0007625","count":23}]},{"hash":"97819008372446706","title":"Embryonic and Tissue Morphogenesis","description":"This cluster is strongly enriched for development- and morphogenesis-related GO terms across multiple tissues (nervous system, retina, hair follicles, fat cells, genitalia, lung) plus related processes like actin cytoskeleton remodeling and gene-expression regulation, indicating a shared theme of morphogenesis and tissue development.","confidence":"High","size":27,"edges":332,"triangles":2483,"max_degree":26,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0010628","count":7},{"id":"GO:0031532","count":7},{"id":"GO:0055091","count":7},{"id":"GO:0060059","count":7}]},{"hash":"1556895163805071223","title":"Cell growth, division, and energy metabolism","description":"The top GO terms cluster around core cellular processes: apoptotic process, cell division and cell cycle indicate proliferation control; ribosome biogenesis and tRNA wobble uridine modification point to protein synthesis capacity; mitochondrial electron transport links to energy production. Some stress-related terms are present, but the dominant theme is fundamental housekeeping tied to growth and metabolism. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0002098","count":2},{"id":"GO:0006120","count":2}]},{"hash":"499011830254936363","title":"Mitotic spindle and microtubule regulation","description":"The cluster shows strong enrichment for microtubule-related processes: spindle\u2013kinetochore attachment, chromosome alignment in metaphase, microtubule cytoskeleton polarity, and plus-end\u2013directed vesicle transport, plus axonemal depolymerization. The presence of root development and epidermal stem cell homeostasis terms suggests a broader role in development through microtubule regulation.","confidence":"High","size":27,"edges":314,"triangles":2206,"max_degree":26,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0048364","count":20},{"id":"GO:0099607","count":11},{"id":"GO:0032886","count":11},{"id":"GO:0007080","count":11},{"id":"GO:0036334","count":11}]},{"hash":"1194734138284748033","title":"Oxidative stress response and apoptosis signaling","description":"This cluster is enriched for GO terms related to responses to oxidative stress and activation of apoptotic pathways (cellular oxidant detoxification; intrinsic apoptotic signaling pathway in response to oxidative stress). Additional terms point to redox balance (zinc ion homeostasis) and protein trafficking (ER to Golgi vesicle-mediated transport), with some hints at growth regulation and angiogenesis, suggesting a broader stress- and survival-oriented program rather than a single enzymatic function.","confidence":"Medium","size":27,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0046621","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0006882","count":2}]},{"hash":"465223411721116366","title":"Unknown","description":"The GO terms are highly diverse (viral release, visual learning, immune signaling, circadian rhythm, grooming behavior, thymocyte differentiation), offering no single coherent function linking the proteins. Therefore a specific label is not evident.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":19},{"id":"GO:0008542","count":19},{"id":"GO:0040015","count":19},{"id":"GO:0035625","count":18},{"id":"GO:1902239","count":18}]},{"hash":"1487041773677082746","title":"Mitochondrial translation and respiratory chain assembly","description":"The cluster is enriched for mitochondrial translation, rRNA maturation, and regulation of translation, as well as components involved in assembling the mitochondrial respiratory chain (e.g., complex IV), cristae formation, membrane insertion, and ATP synthesis, indicating a cohesive role in mitochondrial gene expression and energy production.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0033617","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0006417","count":3},{"id":"GO:0070131","count":2}]},{"hash":"603648272209778398","title":"Cell Cycle and Chromosome Maintenance","description":"The top GO terms are dominated by mitotic cell cycle and DNA replication, with strong signals for telomere maintenance and sister chromatid cohesion, indicating core roles in genome stability during cell division. While some terms touch on development and stress responses, the primary pattern centers on cell cycle progression and chromosome maintenance, making the label representative and specific.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":23},{"id":"GO:0006260","count":23},{"id":"GO:0032212","count":21},{"id":"GO:0010568","count":21},{"id":"GO:0097326","count":21}]},{"hash":"493762786643193573","title":"Cellular Stress Responses and Cytoskeletal Dynamics","description":"The top GO terms point to responses to heat and pain (stress stimuli) alongside processes tied to the cytoskeleton (actin filament bundle assembly, spindle assembly) and genome stability (telomere maintenance regulation). Immune signaling modulation (IL-12) and intercellular communication further suggest cellular response and coordination under stress. Taken together, the cluster seems centered on how cells react to stress while reorganizing structural and regulatory networks, with a broad but coherent theme around stress response and cytoskeletal/genome maintenance roles.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":10},{"id":"GO:0048265","count":9},{"id":"GO:0009408","count":8},{"id":"GO:0051017","count":8},{"id":"GO:0032212","count":7}]},{"hash":"1092619848710390092","title":"Ribosome Biogenesis and rRNA Processing","description":"This cluster is enriched for core ribosome-related processes: translation, ribosome biogenesis, maturation of SSU- and LSU-rRNA, and rRNA/snRNA pseudouridine synthesis, pointing to a shared role in ribosome assembly and RNA modification. Some terms like JNK signaling or fertilization are less representative, but the dominant GO terms support a cohesive ribosome/rRNA\u2013focused function.","confidence":"High","size":27,"edges":340,"triangles":2683,"max_degree":26,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":19},{"id":"GO:0042254","count":7},{"id":"GO:0046330","count":6},{"id":"GO:0000462","count":5},{"id":"GO:0007338","count":5}]},{"hash":"700156401462126458","title":"Neural and cardiac development with cytoskeletal signaling","description":"The terms cluster around neural development (myelination, synapse assembly/organization), heart development, and muscle formation (myoblast fusion), all connected by cytoskeletal remodeling (Rho signaling) and vascular remodeling (angiogenesis regulation). Immune-related terms appear but seem less central to the main theme, so the label emphasizes developmental processes in neural and cardiac/muscle contexts with cytoskeletal signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0016525","count":13},{"id":"GO:0035023","count":13},{"id":"GO:0050830","count":11},{"id":"GO:0042552","count":11},{"id":"GO:0051965","count":11}]},{"hash":"860536523454824725","title":"Cerebellar development and axon regeneration","description":"This cluster is driven by cerebellar cortex formation and Bergmann glial cell differentiation, along with regulation of axon regeneration, pointing to a neural development/maturation program in the cerebellum. Additional terms about cell polarity and cell cycle regulation likely reflect coordinated development and glial interactions during cerebellar circuit formation, while broader signaling terms (insulin/TCR pathways) may be ancillary. ","confidence":"High","size":27,"edges":338,"triangles":2618,"max_degree":26,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045736","count":26},{"id":"GO:0034501","count":26},{"id":"GO:0009636","count":25},{"id":"GO:2000114","count":25},{"id":"GO:0060020","count":25}]},{"hash":"326897332021052457","title":"Immune activation and cytotoxic regulation","description":"The cluster centers on immune signaling and cytotoxic control, with GO terms covering antibody-dependent cellular cytotoxicity, dendritic cell differentiation, neutrophil clearance, cytokine production influencing immune cell recruitment, and regulation of NK and T cell cytotoxic activities. The proliferation of positive regulation of STAT phosphorylation further supports signaling-driven immune activation, while several terms reflect checks on cytotoxic responses, consistent with a cohesive module of immune activation and cytotoxic regulation.","confidence":"High","size":27,"edges":280,"triangles":1637,"max_degree":26,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042523","count":23},{"id":"GO:2001200","count":23},{"id":"GO:1904597","count":23},{"id":"GO:0001788","count":23},{"id":"GO:0001805","count":23}]},{"hash":"2078569655820624456","title":"Cardiac-Immune Interaction","description":"This cluster mixes immune system processes (complement activation, T cell proliferation, B cell activation, immunoglobulin production, phagocytosis) with cardiac electrophysiology/regulation terms (SA node action potential, atrial/ventricular membrane depolarization, heart rate regulation). The co-occurrence suggests proteins involved in immune signaling that also influence cardiovascular function, capturing a cross-talk theme rather than a single isolated pathway.","confidence":"Medium","size":27,"edges":157,"triangles":322,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0060307","count":9},{"id":"GO:0042102","count":9},{"id":"GO:0086015","count":9},{"id":"GO:0050871","count":9}]},{"hash":"289767921290728441","title":"Organogenesis and cell cycle regulation","description":"The terms cluster around organ development (kidney/renal, root) and mesenchymal transition, plus regulatory signaling like cell cycle control and GTPase activity, suggesting a broad developmental and signaling role rather than a single pathway.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0015991","count":10},{"id":"GO:0006607","count":10},{"id":"GO:0003340","count":9}]},{"hash":"920358340951372693","title":"Unknown","description":"The top terms span transcription, RNA processing, chromatin modification, signaling (Rho), cell adhesion, myelination, cell cycle checkpoints, and ER quality control, with no single unifying function across the cluster. Therefore a concise, representative label cannot be assigned.","confidence":"","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:2001275","count":4},{"id":"GO:1904378","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0034446","count":3}]},{"hash":"271616966153516620","title":"Proteostasis and calcium signaling in neural and muscular development","description":"This cluster combines neural development processes (dendrite morphogenesis, Schwann cell development, excitatory postsynaptic potentials) with muscle-related development (skeletal muscle fiber development, cardiac hypertrophy) and signaling pathways tied to calcium (calcineurin-NFAT) as well as ubiquitin-mediated protein turnover (ubiquitin-dependent catabolic process and K48-linked deubiquitination). The shared theme is regulation of signaling and proteostasis across neural and muscular contexts.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035562","count":5},{"id":"GO:0050774","count":5},{"id":"GO:0051531","count":5},{"id":"GO:0006511","count":5},{"id":"GO:0071108","count":5}]},{"hash":"2259742252611980711","title":"Neuronal Development and Proteostasis","description":"The top GO terms point to neural development activities (dendritic spine morphogenesis, social behavior) together with broader developmental processes (axial mesoderm formation), and pronounced protein homeostasis signals (protein ubiquitination, deubiquitination, and ERAD-related maintenance) plus RNA processing and mechanosensitive signaling. This suggests a cohesive theme around neural development coupled with protein quality control and gene expression regulation.","confidence":"Medium","size":27,"edges":56,"triangles":10,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060997","count":7},{"id":"GO:0048320","count":6},{"id":"GO:0035176","count":6},{"id":"GO:0006397","count":6},{"id":"GO:0016567","count":5}]},{"hash":"20562057306913945","title":"Mitotic Cell Cycle Regulation","description":"This cluster is dominated by GO terms targeting key stages of the mitotic cell cycle (G1/S and G2/M transitions), general cell cycle regulation, and CDK activity, plus associated transcriptional control. The presence of epithelial proliferation and mammary gland development terms suggests tissue-specific growth links, but the central theme remains mitotic control and cell division.","confidence":"High","size":27,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":12},{"id":"GO:0071157","count":12},{"id":"GO:0006351","count":12},{"id":"GO:0045737","count":11},{"id":"GO:0030857","count":10}]},{"hash":"182701917238045635","title":"Neuroimmune Development and Signaling","description":"The top GO terms show neural development (axonogenesis, synapse assembly, multicellular development, dopamine response) alongside innate immune responses (innate immune response, interferon-beta production, LPS response, Gram-positive defense), suggesting proteins that participate in both neurodevelopment and immune signaling. This points to neuroimmune cross-talk affecting development and pain-related modulation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0045359","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0050830","count":3}]},{"hash":"354274934812594025","title":"Embryonic organogenesis transcription regulators","description":"The cluster emphasizes transcription by RNA polymerase II and its negative regulation, paired with diverse organ morphogenesis terms (palate, lung, eye, pancreas, brain segmentation, rhombomere development, and muscle). This points to proteins that regulate gene expression during embryonic organ formation across craniofacial, neural, and sensory tissues.","confidence":"High","size":27,"edges":298,"triangles":1794,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0000122","count":11},{"id":"GO:0060021","count":11},{"id":"GO:0060441","count":10},{"id":"GO:0048048","count":10}]},{"hash":"1944375044157911211","title":"Multisystem Developmental Regulation","description":"This cluster centers on developmental processes across several tissues (eye retina, forebrain/m cortex, bone, muscle, kidney) that are driven by transcriptional control, including regulation of RNA polymerase II activity. The prominent terms\u2014retina development, forebrain-midbrain boundary formation, cerebral cortex regionalization, osteoblast development, skeletal muscle satellite cell commitment, and general transcription by RNAP II/negative regulation of RNAP II\u2014together point to a coordinated developmental regulatory program across multiple organs rather than a single tissue.","confidence":"High","size":27,"edges":348,"triangles":2851,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":17},{"id":"GO:0000122","count":15},{"id":"GO:0090190","count":14},{"id":"GO:0002087","count":14},{"id":"GO:0002076","count":14}]},{"hash":"2186770635677543474","title":"Plant lipid and phenylpropanoid metabolism","description":"This cluster is dominated by terms tied to lipid biosynthesis (fatty acid biosynthetic process, medium-chain fatty-acyl-CoA metabolic process) and plant-specific secondary metabolism (phenylpropanoid metabolic process) as well as seed coat development, pointing to a cohesive theme of lipid-based and phenylpropanoid biosynthesis linked to seed biology. While there are a few less-related terms (e.g., menaquinone biosynthesis), the prevalent signal is plant lipid and phenylpropanoid metabolism. ","confidence":"Medium","size":27,"edges":273,"triangles":1460,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:1902987","count":18},{"id":"GO:0036112","count":17},{"id":"GO:0090410","count":17},{"id":"GO:0010214","count":17},{"id":"GO:0009234","count":17}]},{"hash":"2170320149719455269","title":"Ubiquitin-mediated apoptosis and JNK signaling","description":"The top GO terms cluster around ubiquitin-dependent proteolysis (including K63-linked ubiquitination and autoubiquitination) and apoptotic processes, with a notable emphasis on regulation of the JNK cascade and neuron apoptosis. This points to a module of proteins involved in ubiquitin-regulated signaling that controls apoptosis and related pathways (with some developmental context suggested by placenta morphogenesis). ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051865","count":3}]},{"hash":"2047116547950174901","title":"GPCR-Calcium Signaling in Immune and Neural Functions","description":"This cluster centers on GPCR-related signaling with calcium mobilization, including GPCR-EGFR transactivation and arrestin-mediated desensitization, and it also includes broad immune processes (immune response, IL-12 production, thymocyte differentiation) as well as neural/behavioral functions (grooming, circadian rhythm). Taken together, it suggests a theme of GPCR-driven calcium signaling that modulates both immune and neural/behavioral outcomes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":21},{"id":"GO:0051209","count":19},{"id":"GO:1902239","count":18},{"id":"GO:0006955","count":18},{"id":"GO:1904155","count":18}]},{"hash":"1126696743981383357","title":"Ubiquitin-regulated apoptosis and signaling","description":"This cluster is dominated by GO terms related to ubiquitination regulation (K63-linked and autoubiquitination) and apoptosis, with several signaling-related terms (lipopolysaccharide signaling, TGF-beta response, GTPase activity, tyrosine phosphorylation) and cytoskeletal/plasticity aspects (actin capping, neuronal synaptic plasticity). The convergence on ubiquitin-mediated control of cell fate and signal transduction, plus downstream cytoskeletal effects, supports labeling the group as ubiquitin-regulated apoptosis and signaling.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900044","count":21},{"id":"GO:0006915","count":21},{"id":"GO:0031666","count":21},{"id":"GO:1902498","count":21},{"id":"GO:0051016","count":20}]},{"hash":"198993227679202352","title":"Ubiquitin-dependent proteolysis and chromatin regulation","description":"The top GO terms are dominated by ubiquitination processes (ubiquitin-dependent protein catabolic process, protein autoubiquitination, protein polyubiquitination), indicating roles in targeted protein degradation. Additional terms point to chromatin regulation (histone acetylation/methylation, histone catabolic process, dosage compensation), suggesting a link between protein turnover and chromatin dynamics. A V(D)J recombination term is present but less central. Overall, the cluster appears to reflect ubiquitin-mediated proteolysis with associated chromatin regulation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0051865","count":10},{"id":"GO:0000209","count":9},{"id":"GO:0033151","count":9},{"id":"GO:1903265","count":9}]},{"hash":"1667873740291978553","title":"GPCR Signaling in Innate Immunity and Vision","description":"This cluster is dominated by GO terms tied to GPCR signaling and its regulation (arrestin-mediated desensitization, opsin signaling, GTPase activity), along with innate immune responses (defense against bacteria, response to LPS, neutrophil chemotaxis) and photoreceptor maintenance. The shared theme appears to be GPCR-centric signaling involved in both immunity and vision, justifying a label that highlights this connection.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042742","count":6},{"id":"GO:0008283","count":6},{"id":"GO:0002032","count":5},{"id":"GO:0016998","count":5},{"id":"GO:0022400","count":5}]},{"hash":"1041682871480142035","title":"Neuronal GPCR-cAMP signaling and autonomic regulation","description":"Based on the prominent GO terms, the cluster centers on GPCR signaling that activates adenylate cyclase and cAMP pathways, with strong involvement in dopaminergic synaptic transmission and autonomic outputs affecting blood pressure and saliva secretion. The presence of membrane potential regulation, temperature- and pain-related responses, and metabolic cues like diet-induced thermogenesis and mitochondrial electron transport supports a cohesive theme of neuronal signaling coordinating autonomic and metabolic/thermogenic functions.","confidence":"High","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":18},{"id":"GO:0010579","count":18},{"id":"GO:0022900","count":18},{"id":"GO:0007190","count":18},{"id":"GO:0002024","count":17}]},{"hash":"1285560764745185676","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":242,"triangles":1442,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":20},{"id":"GO:0031047","count":19},{"id":"GO:0048701","count":16},{"id":"GO:0006260","count":16},{"id":"GO:0000462","count":14}]},{"hash":"1021076499916886442","title":"Vesicle trafficking and protein targeting","description":"The cluster is enriched for GO terms related to intracellular transport, especially ER-to-Golgi and endosome-to-Golgi processes, endocytosis, and vacuolar protein targeting, pointing to a cohesive role in vesicle sorting and trafficking. Peripheral development terms may reflect context-dependent roles, but the core signal is vesicle transport.","confidence":"High","size":26,"edges":13,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0006623","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0001822","count":4},{"id":"GO:0042147","count":4}]},{"hash":"2131259714445205637","title":"Purine Nucleotide Biosynthesis","description":"The top GO terms cluster around nucleotide metabolism and biosynthesis, notably AMP biosynthetic process, nucleoside metabolic process, hypoxanthine- and urate biosynthesis, and PRPP biosynthesis, with phosphorylation as a related motif. Although there are a few development- and cell-wall related terms that may reflect broader annotations, the dominant signal points to purine nucleotide production and related pathways, which best explains the cluster\u2019s functional theme.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":6},{"id":"GO:0060041","count":4},{"id":"GO:0034418","count":4},{"id":"GO:0006015","count":3},{"id":"GO:0007399","count":3}]},{"hash":"28161499089462415","title":"Plant secondary cell wall biosynthesis and glycosylation","description":"The top GO terms cluster around plant-type secondary cell wall biogenesis (glucuronoxylan biosynthesis, cell wall organization) and protein O-linked glycosylation, pointing to a coherent theme of plant cell wall synthesis and modification. While a few terms relate to nuclear processes or signaling, the plant cell wall-related terms are the strongest signals, suggesting these proteins function together in constructing and modifying the plant cell wall, particularly hemicellulose components. ","confidence":"High","size":26,"edges":166,"triangles":384,"max_degree":22,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0071555","count":4},{"id":"GO:0009834","count":4},{"id":"GO:0016266","count":4}]},{"hash":"1881657238130560777","title":"Spliceosome-Mediated mRNA Processing","description":"The cluster is dominated by GO terms for spliceosome-driven mRNA splicing and its regulation, plus related processes like mRNA stability and export, indicating a cohesive set of proteins involved in RNA processing and spliceosome function.","confidence":"High","size":26,"edges":324,"triangles":2576,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":11},{"id":"GO:0048025","count":8},{"id":"GO:0045292","count":8},{"id":"GO:0000398","count":7},{"id":"GO:0048024","count":6}]},{"hash":"1976979970186045177","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms for translation and ribosome biogenesis (translation, cytoplasmic translation, ribosomal subunit biogenesis, and export from the nucleus), indicating proteins involved in ribosome assembly and protein synthesis; other terms like cell division and conjugation are present but appear secondary to ribosomal functions.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0042254","count":7},{"id":"GO:0002181","count":6},{"id":"GO:0046677","count":5},{"id":"GO:0042274","count":5}]},{"hash":"1169407106642498342","title":"Mechanotransduction and Neuro-Inflammatory Signaling","description":"This cluster appears to reflect mechanotransduction and cytoskeletal signaling (cellular response to mechanical stimulus; Rho; ERK cascade) intertwined with immune/inflammatory signals (inflammatory response; LPS response; B cell proliferation) and neural/ear development terms (otolith morphogenesis; axonal fasciculation), suggesting a theme of mechanically driven signaling shaping neural/ear development and immune responses.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":12},{"id":"GO:0035023","count":11},{"id":"GO:0016525","count":9},{"id":"GO:0051092","count":8},{"id":"GO:0002322","count":8}]},{"hash":"2278340474138428747","title":"Skeletal muscle development and redox regulation","description":"The cluster is rich in terms linked to muscle formation (myoblast proliferation, skeletal muscle fiber development) and energy/lipid metabolism (triglyceride metabolism, fat cell differentiation), alongside oxidative stress management (cellular oxidant detoxification, redox homeostasis) and growth signaling (PI3K/AKT). This points to a cohesive module coordinating muscle development with redox balance and metabolic regulation.","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":16},{"id":"GO:0045454","count":12},{"id":"GO:0055114","count":9},{"id":"GO:0030416","count":9},{"id":"GO:0006641","count":8}]},{"hash":"1352648283243712313","title":"EMT and ECM Remodeling with Coagulation","description":"The prominent GO terms point to epithelial\u2013mesenchymal transition (EMT), extracellular matrix component secretion, and regulation of fibrinolysis and coagulation, with xenobiotic and mechanical stimulus responses also represented. This pattern supports a cohesive theme around EMT-associated ECM remodeling and balancing coagulation/fibrinolysis, rather than a single isolated process.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0001837","count":6},{"id":"GO:0042493","count":5},{"id":"GO:0051531","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0035690","count":5}]},{"hash":"178580177525109277","title":"Mitochondrial Protein Import and Mitophagy","description":"Most of the top GO terms cluster around mitochondrial protein import (matrix and inner membrane), mitophagy, and regulation of respiration, pointing to a role in mitochondrial maintenance and energy metabolism. The chloroplast stroma import term and receptor recycling hint at broader organelle trafficking and cellular transport connections, but the core signal remains mitochondrial-focused.","confidence":"Medium","size":26,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0001921","count":3},{"id":"GO:0045037","count":3},{"id":"GO:0032094","count":3},{"id":"GO:0045039","count":3}]},{"hash":"560987902734816767","title":"ERAD and protein quality control","description":"Top GO terms center on ubiquitin-dependent ER-associated degradation (ERAD), sumoylation, and maintenance of unfolded proteins in the ER, which together define proteostasis and quality control in the secretory pathway. The presence of related regulatory terms (negative regulation of endocytosis, TNF signaling, cellular stress) suggests a broader stress-response and signaling context, with a possible cell-cycle link via spindle pole body duplication. Overall, the cluster appears to capture proteins involved in ERAD-mediated protein quality control and related stress responses.","confidence":"Medium","size":26,"edges":178,"triangles":599,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016925","count":10},{"id":"GO:0030433","count":8},{"id":"GO:1904378","count":8},{"id":"GO:0014070","count":8},{"id":"GO:1903071","count":7}]},{"hash":"1217334071353835947","title":"Sodium transport and membrane potential regulation","description":"This cluster is dominated by GO terms for transmembrane transport and ion homeostasis, especially sodium ion export and regulation of sodium transporter activity, plus establishment/maintenance of electrochemical gradients across the plasma membrane. Potassium import and regulation of cardiac muscle cell membrane potential further support a role in membrane excitability. These terms together point to a cohesive group of proteins that maintain ion gradients and membrane potential, rather than a single signaling pathway.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0090662","count":3},{"id":"GO:1903278","count":3},{"id":"GO:2000649","count":3},{"id":"GO:0010248","count":3},{"id":"GO:0036376","count":3}]},{"hash":"1936119494690357135","title":"Rho/Rac-driven actin remodeling and cell spreading","description":"The cluster is dominated by GO terms pointing to actin cytoskeleton dynamics and motility, including lamellipodium assembly, filopodium assembly, and positive regulation of substrate adhesion-dependent cell spreading. Regulatory terms for Rac and Rho signaling support a theme of controlled cytoskeletal remodeling driving cell spreading and movement, with additional but less central associations to insulin signaling, heart development, and myelin maintenance. Overall, the core function appears to be Rho/Rac-mediated actin remodeling that enables cell spreading and motility.","confidence":"High","size":26,"edges":35,"triangles":0,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":14},{"id":"GO:0030032","count":14},{"id":"GO:0046847","count":14},{"id":"GO:0007507","count":13},{"id":"GO:0035020","count":12}]},{"hash":"286560802719088534","title":"Neural crest migration and axon guidance","description":"This cluster centers on neural development processes: multiple terms point to neural crest cell migration, neuron projection extension and guidance, and axon fasciculation, supported by adhesion and Rho-signaling pathways. Although angiogenesis and a few other terms appear, the strongest signal is neural crest\u2013driven cell movement and axon pathfinding, suggesting proteins function together in guiding migrating cells and growing neurites.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0032516","count":12},{"id":"GO:0046718","count":12},{"id":"GO:0035023","count":9},{"id":"GO:0036486","count":9}]},{"hash":"123136062517320497","title":"Embryonic organ development and morphogenesis","description":"The cluster shows a broad set of developmental GO terms across multiple organs and stages (primitive streak formation, heart development, hypothalamus and habenula development, neural crest migration, endocrine pancreas and digestive tract morphogenesis, ureteric bud branching), alongside transcription-related terms (transcription by RNA polymerase II and negative regulation of transcription by Pol II). This pattern points to a cohesive theme of embryonic development and organogenesis governed by transcriptional regulation, rather than a single tissue-specific function.","confidence":"High","size":26,"edges":133,"triangles":144,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":16},{"id":"GO:0021986","count":14},{"id":"GO:0090190","count":13},{"id":"GO:0031018","count":13},{"id":"GO:0006366","count":13}]},{"hash":"137484220505809266","title":"TNF/IL-1\u2013driven inflammation and leukocyte activation","description":"The top GO terms are strongly enriched for cellular responses to TNF and IL-1, leukocyte migration and monocyte activation, and inflammatory signaling, with additional signals related to keratinocyte differentiation and Notch receptor processing, suggesting a cohesive theme of inflammatory immune signaling with skin-related differentiation. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071356","count":8},{"id":"GO:0030216","count":8},{"id":"GO:0042117","count":8},{"id":"GO:0071347","count":7},{"id":"GO:0034612","count":7}]},{"hash":"450281753883611625","title":"Nuclear transcription, chromatin remodeling, and mitosis","description":"This cluster centers on nuclear processes: transcription, chromatin organization, and genome maintenance during cell division. The top GO terms include DNA-templated transcription, chromatin organization, and mitotic cell cycle/spindle assembly, with DNA repair by homologous recombination and rRNA processing; actin remodeling may accompany mitotic events. The cadmium and TGF-beta response terms are secondary stress signals reflecting cellular context rather than defining the core function.","confidence":"High","size":26,"edges":7,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0000724","count":8},{"id":"GO:0071276","count":8},{"id":"GO:0071560","count":7},{"id":"GO:0000278","count":7}]},{"hash":"1496637713082385388","title":"Epidermis development and skin barrier formation","description":"Based on the top terms, epidermis development and barrier establishment are the most represented (GO:0061436 and GO:0008544, each with 3 members), indicating a cluster centered on epidermal differentiation and skin barrier formation. While there are secondary terms spanning reproductive and bone development, their representation is smaller, so the dominant theme is epidermal development and barrier function.","confidence":"High","size":26,"edges":18,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0061436","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0008544","count":3},{"id":"GO:0060065","count":2},{"id":"GO:0060009","count":2}]},{"hash":"1164652450505761999","title":"p53-driven DNA damage-induced apoptosis","description":"This cluster centers on intrinsic apoptotic signaling in response to DNA damage mediated by p53, with significant representation of apoptotic processes and ubiquitin-proteasome\u2013mediated protein turnover, indicating a coherent DNA damage response leading to cell death, accompanied by inflammatory signaling and related stress responses.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042771","count":8},{"id":"GO:0006915","count":7},{"id":"GO:0090307","count":7},{"id":"GO:0031146","count":7},{"id":"GO:0006929","count":7}]},{"hash":"863040308637667379","title":"Ribosome Biogenesis and Translation Machinery","description":"This cluster centers on ribosome production and protein synthesis, with strong signals for ribosome biogenesis (including LSU biogenesis and rRNA maturation), translation initiation and reinitiation, and general translation. TORC1 signaling and positive regulation of GTPase activity align with growth and assembly processes that support ribosome production and trafficking. While vesicle transport features appear, the dominant theme is ribosome assembly and translation, making the label representative of the cluster\u2019s function.","confidence":"High","size":26,"edges":67,"triangles":29,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0042273","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0006412","count":5}]},{"hash":"1254838566804359432","title":"Neural signaling and synapse assembly","description":"This cluster\u2019s top terms cluster around hearing-related sensory detection, transmission of nerve impulses, excitatory postsynaptic potentials, and regulation of synapse assembly, with supporting roles from cell-adhesion terms. While some immune-related terms appear, the dominant signal points to neuronal communication and synaptic organization. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":10},{"id":"GO:0006958","count":9},{"id":"GO:0045087","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0051963","count":7}]},{"hash":"437608599726925250","title":"Skin and Cartilage Developmental Signaling","description":"The top GO terms point to skin differentiation (keratinocyte differentiation), cartilage formation (cartilage condensation), and key signaling pathways (Hippo, Wnt, Rho) with processes like receptor clustering and synapse localization, suggesting a cohesive role in developmental signaling networks affecting skin and cartilage tissues.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030216","count":20},{"id":"GO:0035329","count":20},{"id":"GO:0050830","count":20},{"id":"GO:0060044","count":20},{"id":"GO:0006915","count":20}]},{"hash":"1214076328919622673","title":"Unknown","description":"The top GO terms are highly disparate, including an obsolete GPCR signaling term, SA node action potential regulation, pinocytosis, telomere maintenance via telomerase, mRNA stability, and immune signaling, with no clear common function. The cluster also shows no edges or interactions, suggesting annotation noise and lack of a cohesive biological theme. Therefore, there is no single interpretable function to label, so the cluster is Unknown.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":13},{"id":"GO:0098907","count":13},{"id":"GO:0048549","count":12},{"id":"GO:0032212","count":11},{"id":"GO:0045083","count":11}]},{"hash":"1002646045416886558","title":"Ubiquitin-Dependent Regulation Across Immune and Tissue Development","description":"The cluster is dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, autoubiquitination, and regulation of ubiquitination) with additional terms pointing to immune signaling (B cell receptor signaling, germinal center formation) and developmental processes in skeletal muscle and kidney. This suggests proteins involved in ubiquitin-mediated regulation that impacts diverse signaling and development pathways across tissues, rather than a single, cohesive pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0051865","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0048741","count":7},{"id":"GO:0007519","count":7}]},{"hash":"923990436272514861","title":"DNA Damage Response and Genome Integrity","description":"The cluster combines apoptosis triggered by DNA damage (intrinsic pathway via p53), DNA repair (base-excision repair), replication (DNA replication), and telomere maintenance, plus spindle assembly\u2014covering core genome maintenance and cell-cycle checkpoints. Some ER stress and signaling terms are present but align with broader stress response networks.","confidence":"Medium","size":26,"edges":26,"triangles":1,"max_degree":25,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007568","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0042771","count":4},{"id":"GO:0051225","count":4},{"id":"GO:0006284","count":3}]},{"hash":"1142254245917646182","title":"Embryonic organogenesis and patterning","description":"The cluster shows a coherent theme of development across multiple organs (palate, placenta, pancreas, cartilage, endocrine system) and body-plan patterning (left-right), including processes like EMT in heart development. The presence of transcriptional regulation terms (negative regulation and DNA-templated transcription) supports regulatory activity during these developmental programs, suggesting the proteins collectively participate in embryonic organogenesis and patterning.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0003323","count":6},{"id":"GO:0060021","count":6},{"id":"GO:0060707","count":6},{"id":"GO:0060806","count":5}]},{"hash":"1056828918768219322","title":"Hepatic detoxification and xenobiotic metabolism","description":"This cluster is dominated by liver-associated detoxification processes (vitamin D catabolism, omega-oxidation, dioxin metabolism) and hepatocyte differentiation, with supporting stress and inflammatory response terms, indicating a hepatic xenobiotic metabolism theme.","confidence":"High","size":26,"edges":187,"triangles":749,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0042369","count":26},{"id":"GO:0010430","count":26},{"id":"GO:0070365","count":26},{"id":"GO:0071615","count":26},{"id":"GO:0035902","count":26}]},{"hash":"349799902347588484","title":"Unknown","description":"The top GO terms are a heterogeneous mix (lipid metabolism, cold and antibiotic responses, LPS biosynthesis, stilbene catabolism, phosphorylation) with no clear, shared function or interaction pattern, and the cluster has no edges. This makes it hard to assign a coherent, specific function label, so Unknown is most appropriate.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046839","count":4},{"id":"GO:0019254","count":3},{"id":"GO:0097755","count":3},{"id":"GO:0009409","count":3},{"id":"GO:0055114","count":3}]},{"hash":"654536797883535237","title":"RNA processing and translation initiation","description":"The top GO terms indicate strong enrichment for translation initiation and reinitiation, plus spliceosome-mediated mRNA splicing and rRNA processing, all core RNA metabolism activities. Although there are some chromatin/repair terms, the dominant signals point to RNA processing and ribosome-related functions, suggesting a nuclear RNA processing/translation-focused cluster.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":12},{"id":"GO:0002188","count":12},{"id":"GO:0000398","count":9},{"id":"GO:0071456","count":8},{"id":"GO:0070306","count":8}]},{"hash":"1178883079195685884","title":"Embryonic craniofacial and ocular morphogenesis","description":"The cluster\u2019s top GO terms cluster around embryonic development of face, cranial skeleton, and eye structures (face development, cranial skeleton morphogenesis, camera-type eye morphogenesis), with related processes like neural tube closure and planar polarity; some terms are broader, but the dominant theme is embryonic craniofacial/ocular morphogenesis.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904780","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0045617","count":2},{"id":"GO:0051973","count":2},{"id":"GO:0060324","count":2}]},{"hash":"670879860239891754","title":"Ubiquitin-Dependent Antiviral Response","description":"The cluster is dominated by ubiquitination-related terms (ubiquitin-dependent protein catabolic process, protein ubiquitination, autoubiquitination, ERAD pathway) alongside innate immune and defense against virus terms, suggesting proteins that regulate immune signaling through ubiquitin-mediated proteostasis. The connection to vitamin D response and transcriptional regulation complements this ubiquitin-centric immune regulation theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0045087","count":7},{"id":"GO:0051607","count":7},{"id":"GO:0048536","count":7},{"id":"GO:0051865","count":7}]},{"hash":"1181146490537326163","title":"Multitissue Development","description":"The top GO terms cover megakaryocyte/platelet development, bone development, forebrain and neuron projection development, multicellular growth, and responses to mechanical and TGF-beta stimuli, pointing to broad developmental and tissue remodeling programs across multiple tissues rather than a single pathway. The lack of edges suggests a loosely connected set of proteins linked by general developmental roles rather than a tight, shared mechanism.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035855","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0030220","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0071260","count":3}]},{"hash":"1378437698902861937","title":"Amino acid transport and arginine metabolism","description":"These proteins are enriched for processes involving import/transport of various amino acids across the plasma membrane (arginine, ornithine, lysine, methionine, leucine, D-serine), along with arginine-related catabolic and nitric oxide biosynthetic activities. The common theme is amino acid transport at the cell surface, with related metabolic links to arginine-derived NO production. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097640","count":2},{"id":"GO:0006527","count":2},{"id":"GO:0006809","count":2},{"id":"GO:0097639","count":2},{"id":"GO:0042942","count":2}]},{"hash":"146683699408703662","title":"Keratinocyte differentiation and cornification","description":"This cluster shows a strong enrichment for keratinocyte-related processes: regulation and activation of keratinocyte differentiation, keratinocyte migration, and cornification, indicating a focus on epidermal differentiation and maturation. While there are some neural lineage terms (axonogenesis, Schwann cell proliferation) present, the dominant signal is epidermal keratinocyte biology.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0045616","count":3},{"id":"GO:0060020","count":3},{"id":"GO:0048936","count":3},{"id":"GO:0030951","count":3},{"id":"GO:0051546","count":3}]},{"hash":"1482991594791046964","title":"Neural development and synaptic signaling","description":"This cluster features terms tied to neural communication and development, such as neurotransmitter secretion, synapse assembly, and vocalization behavior, along with glial regulation and embryonic development. A few terms regarding blood vessel remodeling and fibrinolysis are broader contextual processes, but the preponderance of neuronal signaling and development terms suggests a coherent neural development/synaptic function theme.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042730","count":4},{"id":"GO:0034351","count":3},{"id":"GO:0071625","count":3},{"id":"GO:0048105","count":3},{"id":"GO:0007269","count":3}]},{"hash":"544039536080666528","title":"Dopaminergic synaptic signaling and drug response","description":"This cluster is centered on neural signaling, with strong representation of dopaminergic synaptic transmission, cocaine-related behavioral responses, visual perception/learning, and ERK cascade regulation, suggesting a module of dopamine-mediated sensory processing and drug-response pathways. Some terms like heart development and macrophage chemotaxis appear as peripheral associations, but the dominant theme is neuronal signaling and addiction-related processes.","confidence":"Medium","size":25,"edges":130,"triangles":162,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":20},{"id":"GO:0007507","count":20},{"id":"GO:0071380","count":20},{"id":"GO:0048148","count":20},{"id":"GO:0019233","count":20}]},{"hash":"152356829241172760","title":"Cardiac conduction and calcium signaling","description":"The dominant GO terms cluster around heart rhythm and electrical activity, including ventricular/atrial action potentials, AV node function, heart-rate regulation via conduction, and sarcoplasmic reticulum Ca2+ release, with supporting signaling like cAMP. A few terms on ossification and development are general background rather than core features of this cluster.","confidence":"High","size":25,"edges":67,"triangles":40,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":18},{"id":"GO:0060307","count":14},{"id":"GO:0086091","count":14},{"id":"GO:0060371","count":14},{"id":"GO:0007275","count":14}]},{"hash":"832513511721370545","title":"Cerebellar development and neural signaling","description":"The top GO terms cluster around cerebellar development (cerebellar cortex formation; Bergmann glial cell differentiation) and neural function (visual learning; sensory perception of pain) with related signaling pathways (insulin receptor; T cell receptor) and cell cycle regulation (CDK activity; kinetochore localization). This suggests a center around cerebellar neural development and associated signaling, with broader brain function implications and proliferation control observed in developing neural tissue. ","confidence":"Medium","size":25,"edges":102,"triangles":316,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045736","count":18},{"id":"GO:0034501","count":18},{"id":"GO:0008542","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0060020","count":15}]},{"hash":"1851971813726451060","title":"Ubiquitin-regulated ERAD and apoptosis","description":"This cluster is dominated by terms tied to ubiquitin-dependent ERAD and regulation of deubiquitination/ubiquitin proteases, pointing to a core function in ubiquitin-mediated protein quality control. Additional terms suggest regulatory effects on signaling (NF-\u03baB), lipid droplet organization, and pathways impacting cell survival and division, indicating broader roles in stress responses and cell fate decisions. Despite some obsolete GO annotations, the overarching theme centers on ubiquitin signaling linked to ERAD and apoptosis.","confidence":"Medium","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":10},{"id":"GO:0007253","count":6},{"id":"GO:1903094","count":6},{"id":"GO:2000157","count":6},{"id":"GO:0034389","count":5}]},{"hash":"2083025435661239419","title":"Unknown","description":"The top GO terms span neural development, heart development, immune signaling, cytoskeletal regulation, endocytosis, and apoptosis, indicating a highly diverse set of functions with no single shared process. There are no edges among the proteins, suggesting no tight functional module; thus no clear, representative label can be assigned.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061000","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0002344","count":3},{"id":"GO:0010765","count":3}]},{"hash":"1435161257965973660","title":"Rho GTPase signaling and B cell signaling","description":"These terms are dominated by GTPase signaling and immune receptor signaling: multiple entries describe positive regulation or activity of small GTPases (Rho family) and their pathways, along with B cell receptor signaling and B cell proliferation. The presence of ERK/MAPK cascade regulation and antiviral defense terms further supports clustered signaling roles in immune cells. Heart development may reflect broader developmental signaling overlaps but the core theme is GTPase-driven signaling linked to B cell\u2013mediated immune responses.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0043552","count":5},{"id":"GO:0007264","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0002322","count":4}]},{"hash":"2233721908001342469","title":"Vesicle trafficking and GTPase signaling","description":"The set includes GO terms centered on intracellular transport and signaling: synaptic vesicle exocytosis and priming indicate vesicle trafficking; the cytoplasm-to-vacuole targeting (Cvt) pathway relates to autophagy and cargo delivery; regulation of Rho and Ras GTPase signaling points to control of cytoskeletal dynamics and signaling pathways; and IP3 biosynthesis ties into Ca2+-mediated signaling. Together they suggest a cohesive theme of vesicle trafficking coupled with GTPase-regulated signaling. Some terms like transcription and vascular remodeling add breadth but do not dominate the cluster\u2019s core function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032258","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0016079","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0060313","count":2}]},{"hash":"676594741395240375","title":"Synaptic vesicle exocytosis and signaling","description":"The top GO terms are dominated by vesicle-related processes (synaptic vesicle priming, exocytosis, and long-term synaptic potentiation) and a vesicle-fusion event (acrosome reaction), suggesting a core theme of vesicle trafficking and secretory signaling. Additional terms on Rho/Ras signaling and cell migration reflect cytoskeletal remodeling and plasticity that often accompany vesicle dynamics, while distant terms like neutrophil degranulation and blood vessel remodeling point to broader secretory pathways. Overall, the cluster appears centered on vesicle-mediated signaling in neurons and related secretory processes.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0060313","count":7},{"id":"GO:0035023","count":7},{"id":"GO:0016082","count":6},{"id":"GO:0046580","count":6},{"id":"GO:0007340","count":6}]},{"hash":"2177682274902245766","title":"Neural development and spinal cord patterning","description":"The top GO terms cluster around transcriptional regulation during development, with multiple terms for neural differentiation: spinal cord motor neuron fate specification, oligodendrocyte fate specification, GABAergic interneuron differentiation, and amacrine cell differentiation; floor plate development and somitogenesis point to spinal cord patterning. While there are hints of broader organogenesis (bronchiole development, lung vasculature development), the dominant theme is neuronal lineage specification and spinal cord patterning.","confidence":"High","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":22},{"id":"GO:0001756","count":17},{"id":"GO:0033504","count":17},{"id":"GO:0060426","count":17},{"id":"GO:0035881","count":17}]},{"hash":"1408297839837477465","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"This cluster is enriched for GO terms related to actin cytoskeleton dynamics and movement, including lamellipodium and filopodium assembly, Rho signaling, and GTPase activation, as well as positive regulation of fibroblast migration and substrate adhesion-dependent cell spreading. Together these points suggest a functional theme of cytoskeleton remodeling driving cell motility. Some terms like B cell affinity maturation and midbrain morphogenesis appear less directly connected but may reflect shared developmental signaling pathways; overall the dominant signal is actin-based migration.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0002344","count":15},{"id":"GO:0035023","count":14},{"id":"GO:1900026","count":13},{"id":"GO:0030032","count":13},{"id":"GO:0090630","count":13}]},{"hash":"514092298941801837","title":"Developmental morphogenesis and transcriptional regulation","description":"The top GO terms cluster around embryonic development and organ morphogenesis (neural crest cell migration; digestive tract morphogenesis; ureteric bud branching; endocrine pancreas development; inner ear and lens epithelial cell proliferation) together with transcriptional regulation and chromatin remodeling (DNA-templated transcription, transcriptional control, chromatin remodeling). This suggests a coherent theme of developmental processes coordinated by epigenetic and transcriptional regulation. ","confidence":"High","size":25,"edges":201,"triangles":863,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":19},{"id":"GO:0001755","count":15},{"id":"GO:0048557","count":15},{"id":"GO:0090190","count":15},{"id":"GO:0031018","count":15}]},{"hash":"1558724952371584900","title":"RNA processing and translation initiation","description":"This cluster centers on post-transcriptional RNA handling\u2014splicing regulation, ncRNA-mediated silencing, mRNA export and stability\u2014and components of translation initiation and ribosome assembly, suggesting a cohesive role in RNA metabolism and initiation of protein synthesis.","confidence":"High","size":25,"edges":74,"triangles":95,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":13},{"id":"GO:0000381","count":13},{"id":"GO:0034462","count":12},{"id":"GO:0048255","count":12},{"id":"GO:0097010","count":12}]},{"hash":"423551293492169636","title":"Filopodium Formation and Rho GTPase Signaling","description":"This cluster is driven by GO terms for actin cytoskeleton remodeling and filopodium assembly, with several entries on Rho/Rac signaling and regulation of cell shape and migration. The convergence on actin-based protrusions and small GTPase pathways suggests a coherent module of filopodia formation and related signaling.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":5},{"id":"GO:0046847","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0051489","count":4},{"id":"GO:0071963","count":4}]},{"hash":"121081873096438910","title":"Mammary Gland Development and Remodeling","description":"The top GO terms point to mammary biology (pregnancy, lactation) alongside angiogenesis, ECM/collagen signaling, and immune/inflammatory and mechanotransduction processes. This pattern suggests tissue remodeling of the mammary gland involving immune and vascular components, rather than a single isolated signaling pathway.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0048661","count":3},{"id":"GO:0050729","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0038063","count":3}]},{"hash":"261657753374529410","title":"Neural differentiation and auditory signaling","description":"The top GO terms point to neural development and sensory processes, notably neuron differentiation and sensory perception of sound, with related morphogenesis and signaling (NFAT, nitric oxide, TGF-beta). While other terms cover general cellular processes, the recurrent neural/sensory themes dominate, suggesting a cluster tied to neural differentiation and auditory function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0030182","count":3},{"id":"GO:0071732","count":3},{"id":"GO:0050774","count":3}]},{"hash":"39493130642028022","title":"Embryonic organ morphogenesis and neural crest migration","description":"Top GO terms indicate coordinated embryonic development across multiple organs (heart, cranial skeleton, lung, gut, spleen) and neural crest\u2013driven processes, with cell movement via Rho signaling contributing to morphogenesis.","confidence":"High","size":25,"edges":41,"triangles":0,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007626","count":4},{"id":"GO:0001755","count":3},{"id":"GO:0048557","count":3},{"id":"GO:0048536","count":3}]},{"hash":"1671884941117321297","title":"Neurocardio-angiogenic development under hypoxia","description":"Based on the top GO terms, the cluster centers on developmental processes involving brain and heart development, together with angiogenesis and a response to hypoxia. The presence of embryo implantation, along with N-glycan processing, cytoskeletal regulation, synaptic vesicle exocytosis, and transcriptional regulation, suggests a coordinated program of developmental growth and tissue remodeling that supports neurovascular formation. Overall, the dominant theme points to developmental neurocardio-angiogenic processes potentially active under hypoxic conditions.","confidence":"Medium","size":25,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0006491","count":3}]},{"hash":"34513746020016107","title":"Developmental signaling and immune differentiation","description":"The cluster is enriched for signaling-related GO terms (receptor guanylyl cyclase signaling pathway; peptidyl-tyrosine autophosphorylation) alongside terms tied to immune development (transitional one stage B cell differentiation, NK T cell differentiation) and developmental responses (retinoic acid) plus heart development and related trafficking/localization processes, suggesting proteins involved in developmental signaling and immune/cardiac lineage specification.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007168","count":8},{"id":"GO:0038083","count":6},{"id":"GO:0002333","count":6},{"id":"GO:0071300","count":6},{"id":"GO:0010863","count":6}]},{"hash":"755407162531875178","title":"Ubiquitin-Dependent Proteolysis and Chromatin Regulation","description":"This cluster is enriched for ubiquitin-dependent protein catabolic processes and autoubiquitination, suggesting a core role in targeted protein degradation. It also shows histone modification and histone catabolic processes, indicating involvement in chromatin regulation. A few terms like V(D)J recombination and TNF signaling appear but are less central, potentially reflecting broader nuclear regulatory functions or annotation noise.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0051865","count":13},{"id":"GO:0033151","count":12},{"id":"GO:1903265","count":12},{"id":"GO:2000620","count":12}]},{"hash":"1161217186719539249","title":"Immune Response and Proteasomal Degradation","description":"This cluster is enriched for innate and adaptive immune terms (innate immune response, B cell receptor signaling, defense against Gram-positive bacteria, cytokine production) along with a proteasome/ubiquitin-dependent protein catabolic process, suggesting coordinated immune signaling coupled with antigen processing via ubiquitin-proteasome\u2013mediated degradation.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045087","count":6},{"id":"GO:0031146","count":5},{"id":"GO:0050853","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0046827","count":4}]},{"hash":"2231729447029745872","title":"Developmental transcription regulation and morphogenesis","description":"This cluster combines transcription-related GO terms (DNA-templated transcription, RNA polymerase II transcription, transcription by RNA Pol II, negative regulation of transcription) with multiple development-related processes (skeletal muscle development, roof of mouth development, retina development, single fertilization, multicellular organism development) and related cell cycle/apoptosis signals (spindle assembly, apoptotic signaling). The common theme appears to be coordinated transcriptional control during tissue morphogenesis and development, with some cell-cycle and apoptosis context. ","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007519","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0006366","count":6},{"id":"GO:0060021","count":6},{"id":"GO:0097190","count":6}]},{"hash":"1832901542291863798","title":"Mitotic cycle and stress-response signaling","description":"The cluster is dominated by mitotic cell cycle terms (GO:0000278) along with transcription, morphogenesis, and apoptosis, indicating core regulation of cell division and fate decisions. Additional terms for cadmium ion response and innate immune response suggest associated cellular stress signaling, implying these proteins link cell-cycle control with stress response rather than a single pathway.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0071276","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0000902","count":4}]},{"hash":"1053143546543876294","title":"Developmental signaling and cytoskeletal remodeling","description":"This cluster is dominated by GO terms tied to tissue development across multiple systems (female gonad development, ectoderm formation, uterine epithelium development, nephron tubule differentiation) and processes involving cytoskeletal dynamics (actin cytoskeleton organization) and secretion/exocytosis (exocytosis). Additional signals related to transcriptional regulation during development (NFAT signaling) and neuronal axonogenesis align with broad developmental roles and cytoskeletal remodeling necessary for morphogenesis. Together, these terms point to proteins coordinating developmental signaling with cytoskeletal and secretory activities across tissues.","confidence":"Medium","size":25,"edges":22,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":17},{"id":"GO:0006887","count":12},{"id":"GO:0070527","count":10},{"id":"GO:0030036","count":10},{"id":"GO:0010735","count":9}]},{"hash":"1908128457675552567","title":"Epigenetic and developmental regulation of cell fate","description":"This cluster combines terms tied to epigenetic control of chromatin state (histone H3K9 methylation/acetylation) with developmental regulators such as neural crest migration, smooth muscle differentiation, and TGF-beta signaling, plus phenotypic switching and mRNA stabilization. Together, they point to a theme of governing cell fate decisions through transcriptional/post-transcriptional regulation and signaling during development.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051573","count":2},{"id":"GO:2000616","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0010735","count":2}]},{"hash":"1954521531013466414","title":"Keratinocyte differentiation and growth signaling","description":"Several highly represented GO terms point to epidermal development, especially keratinocyte differentiation, suggesting the cluster centers on skin cell maturation. Additional terms indicate broad growth control and genome integrity maintenance, including Hippo signaling, insulin/growth hormone signaling, cell cycle, apoptosis, and DNA repair, implying a theme of regulated cell proliferation and differentiation. While diverse, the prominent keratinocyte differentiation signal anchors the cluster's function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030216","count":21},{"id":"GO:0006813","count":21},{"id":"GO:0035329","count":21},{"id":"GO:0006281","count":21},{"id":"GO:0060396","count":21}]},{"hash":"1354340338772023098","title":"Developmental Epigenetic Regulation","description":"The cluster centers on epigenetic control of gene expression, with histone modifications (H3K4/K79 methylation, H2A deubiquitination) and DNA-templated transcription, plus several development-related processes such as pancreatic endocrine development, placental/trophoblast differentiation, and cartilage morphogenesis, suggesting a shared theme of chromatin-based regulation during development. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902083","count":4},{"id":"GO:0035522","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0034729","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1005144857328498338","title":"T Cell Activation and Immune Signaling","description":"This cluster is dominated by GO terms for T cell activation, proliferation, costimulation, and IL-2 production, indicating a cohesive adaptive immune signaling theme. Additional terms on cell\u2013cell adhesion, macrophage regulation, and NK cytotoxicity align with broader immune regulation, while some peripheral terms (synapse assembly, host cell entry) reflect related intercellular interactions rather than core T cell function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042102","count":13},{"id":"GO:0007157","count":13},{"id":"GO:0031295","count":13},{"id":"GO:2000649","count":12},{"id":"GO:0043031","count":12}]},{"hash":"1025593806596336042","title":"Histone acetylation and immune signaling","description":"The top GO terms cluster around histone acetylation (H3/H4) indicating epigenetic regulation of gene expression, alongside immune-related processes (NF-kappaB signaling, IL-1 response, TNF production, immunoglobulin production). Although some terms pertain to development or cardiac activity, the strongest recurring theme is chromatin modification coupled with immune signaling, suggesting these proteins may participate in regulating immune gene expression via histone acetylation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043982","count":3},{"id":"GO:0043981","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0043966","count":2}]},{"hash":"749628714557282047","title":"Renal angiogenesis and ECM remodeling","description":"Based on the top GO terms, the cluster centers on kidney-related vascular development, including angiogenesis and collagen fibril organization, as well as renin-angiotensin regulation and mechanotransduction in renal tissues. While a few terms (like synaptic potentiation) are less aligned, the dominant signals point to renal vascular development and extracellular matrix remodeling as the core theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0001300","count":4},{"id":"GO:0010873","count":3},{"id":"GO:0001525","count":3}]},{"hash":"539557779629759306","title":"Synaptic plasticity and actin remodeling","description":"The cluster is enriched for neuronal synaptic plasticity terms (long-term depression, structural plasticity) and actin cytoskeleton regulation (actin organization, Rho signaling, JNK cascade), along with endocytosis and related behaviors, indicating a module of synaptic remodeling driven by cytoskeletal dynamics and receptor trafficking in neurons.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0060292","count":8},{"id":"GO:0035023","count":8},{"id":"GO:0051660","count":8},{"id":"GO:2000251","count":7},{"id":"GO:2000821","count":7}]},{"hash":"1391950172676543279","title":"Ubiquitin-Dependent Proteolysis and NF-\u03baB Signaling","description":"The GO terms center on ubiquitin-dependent protein catabolic processes and various ubiquitin linkages (K6, K48, K63), including autoubiquitination and histone turnover, with linked immune signaling events (TNF-mediated signaling, I-kappaB phosphorylation) and immune system processes (V(D)J recombination). This points to a cohesive cluster of proteins involved in ubiquitin-proteasome regulation and NF-\u03baB/immune signaling pathways.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:1903265","count":13},{"id":"GO:0085020","count":13},{"id":"GO:0051865","count":13},{"id":"GO:0036205","count":13}]},{"hash":"570750959732719535","title":"Ubiquitin-Dependent Protein Degradation and Circadian Regulation","description":"The cluster is dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process and K33-linked ubiquitination), pointing to ubiquitin-mediated protein turnover as the core theme. The strong signal for regulation of circadian rhythm suggests clock protein turnover as a key mechanism linking ubiquitination to timing control. Additional terms spanning immune and muscle development likely reflect pleiotropy of ubiquitin pathways, but the central thread remains ubiquitin-dependent protein regulation and circadian control.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0042752","count":15},{"id":"GO:0048294","count":9},{"id":"GO:0007519","count":9},{"id":"GO:1904431","count":9}]},{"hash":"1006589465113641981","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The top GO terms center on actin dynamics\u2014filament organization and bundle assembly, cortical patch formation, and cell migration\u2014with related membrane remodeling and polarity establishment, suggesting a cohesive actin-driven module governing movement and epithelial polarity. Some immune/transcription terms appear, but the dominant theme is actin-mediated remodeling of the cytoskeleton and associated motility processes.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050731","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0000147","count":3}]},{"hash":"29924088369966051","title":"Neuronal Membrane Transport and Synaptic Signaling","description":"Based on the top GO terms, the cluster is dominated by ion transmembrane transport (Na+/K+), membrane depolarization, and excitatory postsynaptic potentials, which point to neuronal signaling and ion-channel\u2013mediated membrane dynamics. Additional terms like protein localization to the plasma membrane and ER-to-Golgi trafficking suggest membrane protein trafficking relevant to synaptic components. A tight junction term is less aligned with neuronal signaling but may reflect shared membrane biology; overall, the coherent theme is neuronal membrane transport and signaling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":3},{"id":"GO:0072659","count":2},{"id":"GO:0060050","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2}]},{"hash":"1926498111410572389","title":"Rho-Dependent Actin Remodeling in Neurons","description":"The top GO terms cluster around regulation of Rho signaling, activation of GTPases, actin cytoskeleton organization, filopodium assembly, and synaptic plasticity, with Wnt signaling also linked to neuronal connectivity. Together these point to proteins orchestrating Rho GTPase\u2013driven cytoskeletal remodeling that underpins neuronal synapse structure and plasticity. Some terms (e.g., sensory perception of sound) are less central but may reflect broader cytoskeletal roles in sensory systems. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0090630","count":5},{"id":"GO:0051835","count":4},{"id":"GO:0016055","count":4},{"id":"GO:0046847","count":4}]},{"hash":"690117043879447252","title":"Skeletal and craniofacial development with ERK signaling","description":"The cluster includes GO terms for cartilage condensation, limb bud formation, chondroblast and osteoblast differentiation, roof of the mouth development, and hair follicle morphogenesis, plus ERK1/2 cascade regulation and signaling. This points to coordinated embryonic development of skeletal/craniofacial structures and skin appendages, with ERK signaling as a key regulatory pathway.","confidence":"High","size":24,"edges":79,"triangles":93,"max_degree":17,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0031069","count":7},{"id":"GO:0001502","count":6},{"id":"GO:0060591","count":6},{"id":"GO:0060174","count":6},{"id":"GO:0070374","count":6}]},{"hash":"2064525298882112435","title":"Mitotic cell cycle and unfolded protein response","description":"This cluster is driven by strong signals for cell division and mitotic cell cycle terms, and also shows notable enrichment for unfolded protein response, ER stress, chaperone activity, ER-associated degradation, and translation initiation regulation in response to ER stress, suggesting proteins that couple cell cycle progression with ER protein quality control mechanisms.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":13},{"id":"GO:0000278","count":12},{"id":"GO:0051291","count":10},{"id":"GO:0070389","count":9},{"id":"GO:0071276","count":9}]},{"hash":"296193268434634417","title":"Ribosome Biogenesis and Translation Initiation in Cell Cycle","description":"The cluster is strongly enriched for ribosome biogenesis and translation initiation terms (formation of the translation preinitiation complex, regulation of translational initiation) together with mitotic cell cycle and cell division terms, suggesting a module linking production of the protein synthesis machinery to cell cycle progression. Some additional terms relate to protein trafficking and ubiquitination, but the dominant signal is ribosome assembly and translation control during division.","confidence":"High","size":24,"edges":35,"triangles":7,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0051301","count":6},{"id":"GO:0000747","count":6},{"id":"GO:0031175","count":6},{"id":"GO:0000278","count":6}]},{"hash":"12856554527055627","title":"Chromatin assembly and histone acetylation","description":"The top GO terms cluster around chromatin biology: heterochromatin formation at subtelomeric and rDNA loci, DNA replication-dependent chromatin assembly, and multiple acetylation processes (peptidyl-lysine, N-terminal) and polyamine acetylation. These point to histone modification and chromatin assembly as the core shared function of the proteins. Some terms (angiogenesis, glucosamine metabolism) appear less related and may be incidental.","confidence":"High","size":24,"edges":42,"triangles":18,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":7},{"id":"GO:0000183","count":6},{"id":"GO:0018003","count":6},{"id":"GO:0001525","count":6},{"id":"GO:0006335","count":5}]},{"hash":"138987063567191630","title":"Cardiac development and cell adhesion","description":"The cluster is dominated by GO terms for cell adhesion (cell-cell and cell-matrix) and cardiac morphogenesis processes (mitral valve formation, cardiac septum morphogenesis), with additional signals related to sprouting angiogenesis and FGF production, suggesting a cohesive role in cardiovascular tissue development and remodeling through adhesion-driven morphogenesis.","confidence":"High","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":24},{"id":"GO:0007160","count":24},{"id":"GO:0090050","count":23},{"id":"GO:0003192","count":21},{"id":"GO:0021654","count":21}]},{"hash":"1544922617038841304","title":"Multisugar carbohydrate catabolism","description":"Predominant themes are catabolic and metabolic processes for multiple sugars (fucose, rhamnose, xylose, glycerol, gluconate), plus carbohydrate phosphorylation, indicating a multisugar sugar catabolism module. The DNA replication term seems unrelated noise.","confidence":"High","size":24,"edges":67,"triangles":33,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0042355","count":4},{"id":"GO:0019301","count":4},{"id":"GO:0005998","count":4},{"id":"GO:0019521","count":4}]},{"hash":"1887923442644747543","title":"Dopaminergic signaling and cocaine response","description":"The cluster\u2019s top terms center on dopaminergic synaptic transmission, cocaine-related behavioral responses, visual perception, and ERK pathway regulation, pointing to neural signaling and reward/addiction processes. While a couple of terms seem less aligned (heart development, macrophage chemotaxis), the dominant theme is dopamine-mediated neural communication and cocaine-associated behavior, supported by ERK cascade involvement.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":22},{"id":"GO:0007507","count":22},{"id":"GO:0071380","count":22},{"id":"GO:0048148","count":22},{"id":"GO:0019233","count":22}]},{"hash":"541347839065940491","title":"RTK signaling in tissue morphogenesis","description":"The cluster shows strong representation of receptor tyrosine kinase signaling terms (peptidyl-tyrosine autophosphorylation; collagen-activated tyrosine kinase receptor signaling) and morphogenesis-related terms (lung morphogenesis, trachea formation, melanocyte adhesion). This points to a cohesive theme of RTK-driven developmental signaling guiding tissue and organ formation, with additional regulatory terms like CpG island methylation and telomere maintenance providing context for broader cellular regulation but not core to the main theme.","confidence":"High","size":24,"edges":177,"triangles":555,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032212","count":24},{"id":"GO:0010568","count":24},{"id":"GO:0097326","count":24},{"id":"GO:0060440","count":24},{"id":"GO:0071276","count":24}]},{"hash":"1557474717680384016","title":"RNA processing and translation initiation","description":"The top GO terms cluster around RNA processing (splicing via spliceosome, processome assembly, polyadenylation, mRNA stabilization) and translation initiation (preinitiation complex formation, eIF4F assembly, translation reinitiation), including stress-related mRNA stability. These together point to coordinated control of mRNA maturation and initiation of translation, justifying the title.","confidence":"High","size":24,"edges":244,"triangles":1430,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":14},{"id":"GO:0031047","count":14},{"id":"GO:0006378","count":12},{"id":"GO:0001731","count":11},{"id":"GO:0002188","count":11}]},{"hash":"2009000103160434290","title":"Cardiac redox signaling and prostaglandin metabolism","description":"The cluster centers on redox biology signals (oxidation-reduction, redox homeostasis, oxidant detoxification, hydrogen peroxide response) and includes heart-specific processes (regulation of cardiac conduction, cardiac ventricle development) along with a prostaglandin biosynthetic term. This combination points to a cohesive theme of redox-regulated cardiac signaling, with prostaglandin metabolism as a supporting pathway. Peripheral terms like aging and general toxic substance response do not override this core connection.","confidence":"High","size":24,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0045454","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0070301","count":2},{"id":"GO:0001516","count":2}]},{"hash":"846823474657365688","title":"Developmental signaling regulation and protein homeostasis","description":"The top GO terms point to development-related processes (bone development, spermatogenesis) and regulation of key signaling pathways (Wnt activation, TGF-beta signaling), coupled with protein quality control processes (protein folding, ubiquitination) and transcriptional regulation. Together they suggest a theme of developmental signaling modulation alongside protein homeostasis.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":3},{"id":"GO:0006457","count":2},{"id":"GO:0007021","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0019800","count":2}]},{"hash":"175590225612277816","title":"Neural development and synapse organization","description":"The top GO terms cluster around nervous system development, neuron migration, protein localization to synapse, and synapse organization, with supporting signals from Wnt pathways and Rho-mediated cytoskeleton regulation. These collectively point to processes governing neural differentiation, migration, and the establishment of synaptic connections. While a couple terms touch broader development and ubiquitin turnover, the dominant theme is neural development and synaptic architecture. This makes the label specific and representative of the cluster\u2019s core function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:2001200","count":2},{"id":"GO:0035418","count":2},{"id":"GO:0001764","count":2},{"id":"GO:0050808","count":2}]},{"hash":"1234703993452798653","title":"Neuronal adhesion and synapse assembly","description":"The top GO terms cluster around nervous system development and cell-cell adhesion (both heterophilic and homophilic), with explicit regulation of synapse assembly. This suggests proteins that mediate cell adhesion to promote neural synapse formation and maturation, possibly involving actin remodeling downstream of adhesion. Some outliers (ossification, symbiont entry, immune regulation) may reflect broader roles of adhesion molecules, but the core theme remains neural adhesion and synapse organization.","confidence":"High","size":24,"edges":79,"triangles":69,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":15},{"id":"GO:0007157","count":14},{"id":"GO:0007156","count":14},{"id":"GO:0043931","count":14},{"id":"GO:0090138","count":12}]},{"hash":"830238241548290160","title":"Canonical Wnt and Hippo signaling regulators","description":"The Top Terms show strong enrichment for positive regulation of canonical Wnt signaling, alongside hippo signaling, and other regulatory processes like transcriptional activation and proteostasis (GTPase regulation, ubiquitin-dependent protein turnover). This pattern indicates a cohesive set of proteins that modulate major signaling pathways and cellular homeostasis rather than a single enzyme function, justifying a label centered on Wnt/Hippo pathway regulation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":14},{"id":"GO:0031384","count":12},{"id":"GO:0043524","count":12},{"id":"GO:0010796","count":12},{"id":"GO:0043525","count":12}]},{"hash":"1585313465697949481","title":"Cytoskeletal remodeling and neurite outgrowth signaling","description":"The cluster\u2019s GO terms cluster around actin cytoskeleton dynamics and related processes: microspike assembly, actin cortical patch localization, Rho signaling, membrane tubulation, and mitotic spindle involvement, along with neuron projection development. This points to coordinated cytoskeletal remodeling driving cell shape changes, adhesion, and neurite growth, with Wnt signaling and some broader regulatory terms contributing to the context. Confidence in this theme is Moderate due to some terms being less directly connected.","confidence":"Medium","size":24,"edges":13,"triangles":0,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0061087","count":4},{"id":"GO:1900042","count":4},{"id":"GO:0030035","count":4},{"id":"GO:0016055","count":4},{"id":"GO:0034446","count":4}]},{"hash":"653293629952373853","title":"Inflammatory and cellular stress responses","description":"The terms point to immune/inflammatory signaling (TNF regulation, LPS response, prostaglandin biosynthesis) together with receptor internalization, integrin signaling, and various stress/metabolic responses (oxidant detoxification, metals, ethanol, LDL particle stimulus, nitrogen utilization). This suggests a general theme of cellular stress and inflammatory signaling rather than a single pathway, hence a medium confidence label.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":4},{"id":"GO:0071404","count":3},{"id":"GO:2001046","count":3},{"id":"GO:0010044","count":2},{"id":"GO:0032720","count":2}]},{"hash":"1474257009505175458","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:0007076","count":3},{"id":"GO:0007628","count":3},{"id":"GO:1900025","count":3},{"id":"GO:0006398","count":3}]},{"hash":"1299722012042807406","title":"Synaptic actin dynamics and glutamatergic signaling","description":"Dominant GO terms map to actin cytoskeleton regulation at synapses (barbed-end capping, actin polymerization, ruffle assembly) and modulation of excitatory neurotransmission (NMDA receptor clustering, AMPA receptor activity, glutamergic synaptic transmission, and long-term synaptic plasticity). Although one term references immune cell proliferation, the prevailing theme is structural remodeling of dendritic spines and receptor trafficking underpinning synaptic plasticity. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051016","count":20},{"id":"GO:1900044","count":20},{"id":"GO:0070358","count":20},{"id":"GO:0050798","count":20},{"id":"GO:2000463","count":20}]},{"hash":"237096514519490845","title":"Innate immune activation and leukocyte adhesion","description":"The top GO terms are dominated by innate immune and inflammatory processes: cellular response to fungal origin, complement activation (lectin pathway), leukocyte tethering/rolling, basophil activation, platelet activation, and arachidonate signaling, along with increased production of adhesion molecules. While a couple of terms relate to cartilage or kidney development, they appear less central to the cluster\u2019s core function, which is immune cell activation and recruitment during inflammation. Therefore, the label centers on innate immune response and leukocyte adhesion/recruitment.","confidence":"High","size":24,"edges":273,"triangles":1960,"max_degree":23,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":23},{"id":"GO:0001502","count":17},{"id":"GO:0010572","count":16},{"id":"GO:2000502","count":16},{"id":"GO:0050901","count":15}]},{"hash":"2027711473001879444","title":"Spliceosome-Linked mRNA Processing and Stability","description":"The proteins are strongly associated with mRNA splicing via the spliceosome, regulation of alternative splicing, mRNA export, and mRNA stabilization, with related processes like small-subunit processome assembly and translation initiation factor complex assembly, indicating a core role in RNA maturation and post-transcriptional regulation, including stress-responsive mRNA stability control.","confidence":"High","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":12},{"id":"GO:0045292","count":10},{"id":"GO:0048026","count":9},{"id":"GO:0031047","count":9},{"id":"GO:0006406","count":8}]},{"hash":"1618510443085690664","title":"RNA processing and Pol II transcription regulation","description":"This cluster is dominated by GO terms related to mRNA capping, nuclear export, and transcription regulation by RNA polymerase II (including elongation and preinitiation complex assembly). These consistently point to a shared function in RNA maturation and transcription control, with a few terms reflecting pleiotropic or context-specific roles (e.g., vesicle transport or immune processes) that do not override the core theme.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0070651","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0048304","count":3}]},{"hash":"1619292693482767837","title":"Neural signaling and muscle/glial development","description":"The top GO terms cluster around nervous system functions\u2014dendrite morphogenesis, excitatory synaptic activity, and Schwann cell development\u2014as well as muscle-related processes (skeletal muscle fiber development, cardiac hypertrophy) and calcium/NFAT signaling. This suggests a theme of neural signaling with concurrent muscle and glial development, likely involving calcium-dependent pathways that govern both neural and muscular differentiation and function.","confidence":"Medium","size":24,"edges":48,"triangles":34,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050774","count":8},{"id":"GO:0060079","count":8},{"id":"GO:0043278","count":8},{"id":"GO:0035562","count":7},{"id":"GO:0032516","count":7}]},{"hash":"333770347551944064","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0035264","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0008283","count":3}]},{"hash":"787625843019694836","title":"Telomere maintenance and mitosis regulation","description":"This cluster centers on telomere maintenance and regulation (telomerase-mediated maintenance, telomere capping, telomeric DNA binding) with accompanying mitotic processes (spindle assembly, cohesion of sister chromatids) and signaling/modification contexts (Wnt pathway, protein ADP-ribosylation), suggesting a coordinated link between chromosome end protection and cell division.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032212","count":7},{"id":"GO:1904355","count":7},{"id":"GO:1904743","count":6},{"id":"GO:1904357","count":6},{"id":"GO:0035994","count":6}]},{"hash":"526828780631696348","title":"Unknown","description":"The top annotations hint at RNA processing and ubiquitin-related protein turnover, but the list also includes muscle development, B cell signaling, and kidney morphogenesis terms, with no clear, single overarching function linking all proteins. Obsolete terms add to the ambiguity, so there is no confident, cohesive label for this cluster.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000390","count":2},{"id":"GO:0008380","count":2},{"id":"GO:1904876","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0050853","count":2}]},{"hash":"1227806546613822049","title":"Telomere maintenance and mitotic control","description":"The top terms cluster around telomere maintenance regulation (via telomerase, telomere length) and mitotic processes (spindle assembly, cohesion of sister chromatids), indicating a module tied to genome stability during cell division. While there are additional signaling terms (Wnt, ephrin, GPCR) present, the strongest signal centers on telomere regulation and mitosis, supporting a cohesive theme of cell cycle control and genome integrity.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097284","count":6},{"id":"GO:0007205","count":5},{"id":"GO:0032212","count":4},{"id":"GO:1904743","count":4},{"id":"GO:1904357","count":4}]},{"hash":"2120237423621375136","title":"Vertebrate eye and brain morphogenesis","description":"The cluster's top GO terms center on neural and sensory development (embryonic eye morphogenesis, retina and camera-type eye development, brain segmentation, rhombomere development) plus pituitary development, indicating a vertebrate neuro- and eye-organogenesis theme; additional terms for lung and pancreas morphogenesis suggest broader organogenesis context.","confidence":"Medium","size":23,"edges":214,"triangles":1078,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0021983","count":10},{"id":"GO:0048048","count":9},{"id":"GO:0021571","count":8},{"id":"GO:0035284","count":8}]},{"hash":"130518074061982278","title":"Epithelial organ morphogenesis signaling","description":"The top GO terms point to development and morphogenesis of epithelial organs (hair follicle, salivary gland, lung), driven by signaling pathways (Wnt, ERK, JNK) and cytoskeletal regulation via GTPase activity. While some terms touch nervous system development, the cohesive theme is epithelial organ formation guided by these signaling networks, making this a morphogenesis-focused cluster with epithelial emphasis.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0031069","count":4},{"id":"GO:0060501","count":4},{"id":"GO:0060661","count":4},{"id":"GO:0046330","count":4}]},{"hash":"914124178672485448","title":"Developmental gene expression and chromatin regulation","description":"These terms center on development (brain, male gonad, blood vessel morphogenesis) and core nuclear processes (CENP-A chromatin assembly, mitotic cell cycle, transcription regulation, and mRNA transport). The combination suggests a cluster of proteins involved in developmental gene expression and chromatin dynamics, with additional stress-responsive regulation (hypoxia and xenobiotic response) that can accompany developmental programs.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0061641","count":3},{"id":"GO:0051028","count":2},{"id":"GO:0000278","count":2}]},{"hash":"218651717018103961","title":"Actin cytoskeleton remodeling and vesicle trafficking","description":"The cluster\u2019s top GO terms center on actin polymerization and network formation, actin cable assembly, and exocytosis, alongside focal adhesion assembly and substrate-dependent cell spreading, pointing to coordinated cytoskeleton remodeling with membrane trafficking and adhesion functions. A few peripheral terms related to ion transport are present but seem less central to the primary theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006887","count":4},{"id":"GO:0071498","count":3},{"id":"GO:0070649","count":3},{"id":"GO:0051639","count":3},{"id":"GO:1900024","count":3}]},{"hash":"411066657182842811","title":"RNA processing and ribosome biogenesis","description":"The cluster is dominated by GO terms for RNA processing and maturation (nonsense-mediated decay, mRNA splicing via spliceosome, spliceosomal disassembly, RNA exon ligation) and ribosome biogenesis/maturation (large subunit and ribosomal RNA maturation in both nuclear and mitochondrial contexts). This suggests a cohesive function around RNA maturation and assembly of ribosomal machinery, with several components involved in processing and assembling rRNA and spliced transcripts. ","confidence":"High","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000184","count":7},{"id":"GO:0000742","count":7},{"id":"GO:0042273","count":6},{"id":"GO:0000390","count":6},{"id":"GO:0000398","count":6}]},{"hash":"75872268118703878","title":"T cell Activation and Signaling","description":"Dominant GO terms point to T cell biology (NK T cell differentiation, activated T cell proliferation, tyrosine kinase autophosphorylation). Additional terms indicate signaling and trafficking (cellular response to nitric oxide/retinoic acid, actin cytoskeleton remodeling, transcytosis). The cluster appears to encode proteins involved in T cell activation and related signaling pathways.","confidence":"High","size":23,"edges":103,"triangles":183,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038083","count":23},{"id":"GO:0001865","count":23},{"id":"GO:0042997","count":23},{"id":"GO:0071732","count":23},{"id":"GO:0050798","count":23}]},{"hash":"910733880602029641","title":"Embryonic development and neural axon guidance","description":"The cluster is dominated by embryogenesis-related terms (heart development, axial mesoderm formation, blastocyst development) and neural connectivity terms (fasciculation and guidance of sensory and motor neuron axons, retinal ganglion cell axon guidance). Although there are also terms for DNA replication and apoptosis, the recurring theme centers on developmental processes, particularly neural development and axon pathfinding. This suggests the proteins are involved in embryonic development with a focus on neural network formation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0001824","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0097155","count":2}]},{"hash":"703876657827995741","title":"Embryonic Development and Innate Immunity","description":"The top GO terms show strong signals for embryonic development across multiple tissues (cranial skeleton, heart, nervous system, myoblast/chondrocyte differentiation) alongside innate immune responses and signaling (innate immune response, defense against Gram-positive bacteria, LPS signaling). This suggests a cluster of proteins involved in developmental processes that interface with innate immune pathways, possibly linked through signaling like STAT phosphorylation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048701","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0042517","count":9},{"id":"GO:0050830","count":9},{"id":"GO:0007507","count":9}]},{"hash":"1953222314143009449","title":"Mitotic spindle assembly and microtubule dynamics","description":"These proteins show a coherent pattern around microtubule biology: regulation of microtubule-based processes, spindle-kinetochore attachments, chromosome alignment at metaphase, polarity of the microtubule cytoskeleton, and plus-end\u2013directed vesicle transport along microtubules, all pointing to spindle organization and microtubule dynamics during cell division. Some terms also touch on development, but the dominant signal is mitotic/meiosis-related microtubule regulation.","confidence":"High","size":23,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032487","count":6},{"id":"GO:0099607","count":5},{"id":"GO:0032886","count":5},{"id":"GO:0007080","count":5},{"id":"GO:0048364","count":5}]},{"hash":"303978867603943121","title":"Cardiovascular development and angiogenesis","description":"The proteins show strong enrichment for angiogenesis and heart development terms (GO:0001525, GO:0007507), with multiple development-related terms (multicellular organism development) and hypoxia response (GO:0071456), suggesting roles in vascular and cardiac tissue formation. Transcription-related terms indicate regulatory functions driving these programs. Despite some heterogeneity, the dominant theme is cardiovascular/organ development and vascularization.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001525","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0032516","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0071456","count":4}]},{"hash":"1459389378384427886","title":"Axon guidance and paranode localization proteins","description":"Most terms point to neuronal pathfinding and specialized axon domains (paranode/juxtaparanode), including retinal ganglion and branchiomotor neuron axon guidance and protein localization to paranode/juxtaparanode regions; only a few terms touch non-neuronal processes, so the dominant theme is axon guidance and paranodal localization.","confidence":"High","size":23,"edges":3,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0002175","count":12},{"id":"GO:0048010","count":11},{"id":"GO:0030913","count":10},{"id":"GO:0031290","count":10}]},{"hash":"2182601693792210975","title":"Synaptic signaling and spine plasticity regulation","description":"The terms cluster around neuronal signaling and cytoskeletal regulation: regulation of Rho and GTPase activity, GPCR signaling, exocytosis of synaptic vesicles, and long-term changes in synaptic strength, plus dendritic spine maintenance and cell adhesion. Taken together, they point to coordinated regulation of synaptic signaling and spine structural dynamics.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0007205","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0097062","count":3}]},{"hash":"1743826485778403117","title":"Rho GTPase signaling and morphogenesis","description":"These proteins cluster around regulation of Rho and GTPase signaling and phosphatidylinositol-mediated signaling, which drive cytoskeletal dynamics. The accompanying morphogenesis terms (branching in salivary glands, muscle contraction, angiogenesis, kidney development) point to signaling pathways that guide tissue and organ development, suggesting a cohesive theme of Rho/GTPase-driven morphogenesis. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0060445","count":2},{"id":"GO:0061000","count":2}]},{"hash":"1571007770960560898","title":"Chromatin regulation and cell cycle control","description":"Clustering shows strong signals for chromatin state and transcription regulation (rDNA heterochromatin formation, histone modification, DNA-templated transcription) together with classic cell cycle and mitosis processes (cell division, mitotic cell cycle, regulation of cytokinesis). Ubiquitination and Rho signaling terms suggest coordination of protein turnover and cytoskeletal dynamics during division. The brain development term appears secondary. Overall, the cluster ties nuclear gene expression control to cell division machinery.","confidence":"High","size":23,"edges":11,"triangles":0,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000183","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0080182","count":3},{"id":"GO:0035023","count":3}]},{"hash":"2052301953937614603","title":"Endocytic trafficking and cell migration with TGF-\u03b2 signaling","description":"The cluster is enriched for vesicle formation, endocytic recycling, and positive regulation of GTPase activity, which are core to membrane trafficking processes. These functions connect to cell morphogenesis and migration, and several terms indicate cellular responses to TGF-\u03b2, suggesting signaling-driven remodeling. Transcription/translation terms may reflect broader gene expression context but are less central to the main theme. Overall, the dominant theme is trafficking-related processes linked to cell movement and TGF-\u03b2 signaling.","confidence":"Medium","size":23,"edges":33,"triangles":15,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0070676","count":3},{"id":"GO:0043547","count":3},{"id":"GO:1990126","count":3},{"id":"GO:0000902","count":3}]},{"hash":"888035486152957307","title":"NF-kappaB-driven inflammatory signaling and proteasome regulation","description":"The cluster is dominated by GO terms for canonical NF-kappaB signaling and inflammatory response, with supporting ubiquitin-proteasome\u2013mediated protein catabolism, indicating regulation of inflammation by proteasomal turnover; some terms (obscure cAMP signaling, dendrite morphogenesis) seem less connected, likely annotation noise.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":5},{"id":"GO:0051591","count":4},{"id":"GO:0050729","count":4},{"id":"GO:0042628","count":4},{"id":"GO:0006511","count":3}]},{"hash":"493625103663070379","title":"Cell-Cell Adhesion and Immune Signaling","description":"The top GO terms consistently point to cell-cell adhesion (both homophilic and heterophilic) and adhesion-driven actin cytoskeleton regulation, together with immune modulation (regulation of macrophage, NK, and T cell activities) and synapse assembly/communication. A few terms also touch on host-symbiont entry, suggesting involvement in host-pathogen interfaces. This indicates a cohesive cluster centered on adhesion-mediated cell communication with immune regulation.","confidence":"High","size":23,"edges":217,"triangles":1141,"max_degree":22,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043031","count":13},{"id":"GO:0007157","count":12},{"id":"GO:0090138","count":12},{"id":"GO:0002859","count":12},{"id":"GO:0043318","count":12}]},{"hash":"1550017322268743194","title":"Oxidative stress\u2013linked metabolic signaling","description":"The cluster shows enrichment for oxidative stress response, fatty acid response, and metabolic processes (CoA biosynthesis, malate metabolism), along with phosphorylation and transcription, plus apoptosis and cell migration/polarity. This combination suggests a cohesive theme of metabolic remodeling and signaling in response to cellular stress, with transcriptional regulation and some motility/polarity adjustments as downstream effects.","confidence":"Medium","size":23,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0034599","count":2},{"id":"GO:0070542","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0033028","count":2},{"id":"GO:0097284","count":2}]},{"hash":"370342710141819538","title":"Unknown","description":"The top GO terms span antimicrobial immune response, retina homeostasis, fertilization, cytolysis, steroid hormone responses, and even bacterial cell wall metabolism, with no single cohesive biological process, cellular location, or molecular function linking them. This diversity suggests the proteins in this cluster do not share a common, interpretable function cluster, so a specific label isn\u2019t supported.","confidence":"","size":23,"edges":123,"triangles":324,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019730","count":8},{"id":"GO:0001895","count":8},{"id":"GO:0009566","count":8},{"id":"GO:0019835","count":8},{"id":"GO:1903494","count":8}]},{"hash":"1301660557102565133","title":"Heme, cobalamin, and sphingolipid biosynthesis cluster","description":"The top terms cluster around multiple biosynthetic pathways, especially heme (porphyrinogen IX and heme biosynthesis), cobalamin biosynthesis, and sphingolipid (sphinganine) biosynthesis, with additional lipid-related and amino acid biosynthesis signals (fatty acid transport, L-aspartate). This suggests a metabolic module dedicated to producing cofactors and lipid components, rather than a single signaling or regulatory function. The presence of a DNA-templated transcription term hints at regulatory proteins in the same cluster, but the strongest, shared signal is biosynthesis/metabolism. A defense-related term appears but seems secondary to the core metabolic theme.","confidence":"Medium","size":23,"edges":223,"triangles":1237,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0032869","count":9},{"id":"GO:0006782","count":7},{"id":"GO:0006783","count":7},{"id":"GO:0009236","count":7}]},{"hash":"371321775229735061","title":"Unknown","description":"The top terms span several unrelated areas: multiple amino acid biosynthesis and catabolic processes (lysine, arginine, leucine, trans-4-hydroxy-L-proline), mitochondrial translation, and developmental processes (liver development, post-embryonic development), with some obsolete annotations. This lack of a coherent, single-function theme makes it unclear what unifies the cluster, suggesting annotation noise rather than a true biological module. ","confidence":"","size":23,"edges":39,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009089","count":6},{"id":"GO:0019878","count":6},{"id":"GO:0032543","count":5},{"id":"GO:0001889","count":5},{"id":"GO:0006552","count":5}]},{"hash":"1319521246631258509","title":"Ubiquitin-dependent protein degradation","description":"The most represented terms are ubiquitin-dependent protein catabolic process and protein autoubiquitination, with related ERAD pathway annotations, pointing to a core set of proteins involved in tagging substrates for proteasomal destruction. The other terms (V(D)J recombination, TNF signaling, histone modifications) likely reflect broader roles of ubiquitination in signaling and chromatin regulation or older annotations. Overall, the common theme across the cluster is ubiquitin-mediated proteolysis.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0051865","count":9},{"id":"GO:0030433","count":9},{"id":"GO:0033151","count":8},{"id":"GO:1903265","count":8}]},{"hash":"479766856765692428","title":"Vertebrate embryogenesis and organ morphogenesis","description":"This cluster centers on embryonic development across multiple organ systems, including primitive streak formation, midbrain, eye and inner ear morphogenesis, lung branching, uterus development, and peripheral nervous system neuron development. The presence of transcription-related terms (RNA polymerase II activity and its negative regulation) suggests coordinated gene regulatory programs typical of developmental patterning.","confidence":"High","size":23,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0090009","count":8},{"id":"GO:0048839","count":8},{"id":"GO:0048935","count":8},{"id":"GO:0060441","count":7}]},{"hash":"1146393802408875037","title":"Coagulation and Complement Activation","description":"The top GO terms cluster around blood coagulation, fibrinolysis, plasminogen activation, and complement activation (lectin and classical pathways), with regulation of fibrinogen levels and angiogenesis also represented. These together point to a cohesive theme of hemostasis and innate immune activation, despite a couple outlier terms (e.g., midbrain development, transcription regulation). ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0001867","count":9},{"id":"GO:0000122","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0030574","count":8}]},{"hash":"1367905132644549448","title":"Embryonic Development and Placental Morphogenesis","description":"This cluster shows enrichment for multiple embryonic development terms, including pancreatic endocrine development, trophoblast/placental differentiation, cartilage morphogenesis, endocrine system development, heart-related EMT, and left-right patterning. The common thread is organogenesis and tissue differentiation during embryogenesis, with a notable focus on placental and endocrine lineages, as well as associated morphogenetic processes.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0060707","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060536","count":4}]},{"hash":"1738018605285302886","title":"B cell signaling and antigen processing in immune response","description":"The cluster shows strong enrichment for B cell receptor signaling, complement activation, innate immune responses, phagocytosis and endocytosis, and regulation of antigen processing/presentation via MHC II. Together these terms point to a cohesive module of immune recognition and antigen handling involving B cells and phagocytes, bridging innate and adaptive immunity.","confidence":"High","size":23,"edges":152,"triangles":444,"max_degree":19,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":10},{"id":"GO:0006958","count":10},{"id":"GO:0045087","count":10},{"id":"GO:0006911","count":10},{"id":"GO:0006910","count":10}]},{"hash":"784666162554884768","title":"Nuclear RNA Surveillance and Decay","description":"The Top Terms are dominated by nuclear RNA processing and decay activities, including nuclear mRNA surveillance, nonfunctional rRNA decay, nuclear polyadenylation-dependent rRNA catabolic processes, and miRNA catabolic processes, indicating a cohesive theme of RNA quality control within the nucleus. Some unrelated or obsolete terms (e.g., retina development, fertilization) likely reflect annotation noise, but the central signal points to RNA surveillance and decay pathways.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016255","count":2},{"id":"GO:0000448","count":2},{"id":"GO:0071028","count":2},{"id":"GO:0070651","count":2},{"id":"GO:0071035","count":2}]},{"hash":"231428531641168923","title":"Neural development and Rho GTPase signaling","description":"The top GO terms center on neural development (neuron projection development, neural tube development, sympathetic nervous system development) and Rho family signaling (regulation of Rho, negative regulation of Rac, positive regulation of GTPase activity), suggesting a cluster of proteins that coordinate neural differentiation and cytoskeletal dynamics via Rho/Rac pathways. While apoptosis and centrosome-related terms are present, they appear less central to the dominant theme, which is neural development linked to GTPase signaling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007098","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0048485","count":2},{"id":"GO:0043001","count":2}]},{"hash":"484498977222467069","title":"Neural and vascular development","description":"These GO terms point to developmental processes, especially neural differentiation (striatal medium spiny neuron differentiation; sympathetic nervous system development) and vascular development (sprouting angiogenesis). The presence of Wnt signaling and broader developmental regulation supports a cohesive theme around signaling-driven development of neural and vascular systems, even though a few terms are less specific. Overall, the cluster seems best described as a group enriched for neural and vascular development signals.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0035902","count":7},{"id":"GO:0016055","count":6},{"id":"GO:0007565","count":6},{"id":"GO:0071397","count":6}]},{"hash":"1298804866062901712","title":"Rho-Mediated Actin Remodeling in Endothelial Cells","description":"The cluster is dominated by GO terms for Rho signaling regulation, GTPase activity, and actin cytoskeleton organization, plus mechanical-response and endothelial angiogenesis-related processes (endothelial tube lumen extension, sprouting angiogenesis regulation). This points to proteins that coordinate cytoskeletal dynamics and endothelial cell migration during vascular remodeling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0060313","count":6},{"id":"GO:0043314","count":6},{"id":"GO:0030036","count":6}]},{"hash":"265760149782152258","title":"Ciliary and flagellar assembly and motility","description":"These proteins cluster around ciliary and flagellar structure and function, evidenced by axoneme and sperm-related assembly terms, regulation of cilium beat frequency, and left-right asymmetry determination; other terms like lipid metabolism or mast cell degranulation appear less central but do not override the dominant ciliary motif.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043303","count":2},{"id":"GO:0006644","count":2},{"id":"GO:0001675","count":2},{"id":"GO:0007288","count":2},{"id":"GO:0050482","count":2}]},{"hash":"262472511946263819","title":"Unknown","description":"The cluster\u2019s top GO terms span diverse biology: transcriptional regulation (RNA polymerase II, DNA-templated transcription), multiple developmental processes (CNS, pancreatic cell development, skeletal muscle growth, prostatic bud formation), immune signaling (complement activation in classical and lectin pathways), and signaling regulation (insulin receptor pathway, extrinsic apoptotic signaling). There isn\u2019t a single clear shared function uniting these terms, suggesting a heterogeneous set of proteins or possible annotation noise. Therefore, no cohesive theme could be established, and the label Unknown with None confidence is most appropriate.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0060686","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0048632","count":4}]},{"hash":"161329532675575530","title":"Vertebrate neural and cardiac development","description":"Based on the prominent neural development terms (neural tube closure, forebrain development) and heart development, the cluster seems centered on vertebrate development of nervous system and heart, with related signaling (prostaglandin response) and sensory/behavioral associations. While some terms (cadmium response, immunity, sperm capacitation) are present, they appear less central to the core theme, making vertebrate neural and cardiac development the best overall label.","confidence":"High","size":22,"edges":151,"triangles":570,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071276","count":11},{"id":"GO:0006349","count":11},{"id":"GO:0048148","count":11},{"id":"GO:0001843","count":11},{"id":"GO:0019233","count":11}]},{"hash":"949501308634504851","title":"Stress-Responsive Metabolic Signaling","description":"This cluster features terms tied to thermogenesis and temperature response (diet-induced thermogenesis, cellular response to temperature stimulus), GPCR-mediated signaling with adenylate cyclase activation, Rho signaling, and energy metabolism (electron transport chain). It also includes stress-related apoptotic regulation and immune response, suggesting a coordinated program where energy metabolism and signaling adapt to stress. The name captures the core theme of stress-driven metabolic signaling, with related but secondary connections to immune and sensory processes.","confidence":"Medium","size":22,"edges":68,"triangles":40,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":19},{"id":"GO:0045777","count":19},{"id":"GO:0010579","count":19},{"id":"GO:0019233","count":19},{"id":"GO:0071502","count":19}]},{"hash":"839206963769235242","title":"Neuronal GPCR Signaling and Sensory Perception","description":"The cluster features multiple GO terms centered on GPCR signaling that activates adenylate cyclase, regulation of membrane potential, and sensory processes (visual and pain perception), along with temperature-responsive and autonomic regulatory roles. This points to a cohesive theme of neural/autonomic signal transduction and sensory processing, with some metabolic and glandular regulation (e.g., thermogenesis, saliva) that can be tied to neural control.","confidence":"Medium","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0010579","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0071502","count":14}]},{"hash":"93102041483656907","title":"Brain and Eye Morphogenesis","description":"This cluster is dominated by terms tied to neural and ocular development (habenula development, retina/eye morphogenesis, forebrain-midbrain boundary formation, cortex regionalization, brain segmentation), indicating a cohesive theme of brain and visual system patterning and morphogenesis, with transcription regulation as a supporting mechanism.","confidence":"High","size":22,"edges":103,"triangles":141,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021986","count":10},{"id":"GO:0000122","count":10},{"id":"GO:0006366","count":10},{"id":"GO:2000288","count":9},{"id":"GO:0048048","count":9}]},{"hash":"1835868631944718032","title":"RTK signaling and organ morphogenesis","description":"These proteins cluster around receptor tyrosine kinase\u2013driven signaling (peptidyl-tyrosine autophosphorylation; collagen-activated RTK signaling) and developmental morphogenesis terms such as trachea and lung formation, and melanocyte adhesion, implying a shared role in signaling pathways that control organ formation and tissue patterning. A few terms touch on epigenetic regulation and cell cycle aspects, but the dominant theme is RTK signaling coupled to morphogenesis.","confidence":"Medium","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032212","count":22},{"id":"GO:0010568","count":22},{"id":"GO:0097326","count":22},{"id":"GO:0060440","count":22},{"id":"GO:0071276","count":22}]},{"hash":"400915459721055848","title":"Cardiac Development and Calcium Signaling","description":"This cluster is dominated by cardiovascular-related terms: heart development (GO:0007507), regulation of cardiac muscle contraction (GO:0055117), and calcium handling (GO:0051281). It also includes signaling cascade activity (GO:0070374 for ERK1/ERK2), and membrane potential regulation (GO:0042391), all pointing to excitation-contraction coupling in heart muscle. A related but broader term is blood coagulation (GO:0007596) and xenobiotic response (GO:0042493), which can be associated with vascular/hemostatic or stress-response contexts. A retina development term appears but seems less central. Altogether, the pattern best fits a cardiac development and calcium signaling module.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0042391","count":8},{"id":"GO:0007596","count":8},{"id":"GO:0060041","count":8},{"id":"GO:0007202","count":8}]},{"hash":"221349054225752364","title":"Calcium-regulated neuronal signaling and plasticity","description":"This cluster's GO terms cluster around calcium dynamics in neurons (ER/SR calcium release, regulation of calcium import) and calcium-dependent signaling cascades (Wnt-Ca2+, calcineurin-NFAT) that influence excitatory synaptic activity, synaptic plasticity, and axonogenesis. The recurring theme is calcium-driven neuronal signaling and plasticity.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0014808","count":5},{"id":"GO:0006919","count":5},{"id":"GO:0060079","count":5},{"id":"GO:0048168","count":5}]},{"hash":"67973686599198561","title":"Xenobiotic and vitamin transmembrane transporters","description":"The top GO terms are transmembrane transport, especially xenobiotic and vitamin transport (xenobiotic transmembrane transport; vitamin transmembrane transport; trehalose/dehydroascorbic acid transport), with potassium ion transport also prominent. This pattern points to a cluster of membrane transporter proteins handling diverse substrates rather than a single metabolic enzyme, explaining the network connectivity observed. ","confidence":"High","size":22,"edges":42,"triangles":20,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":21},{"id":"GO:0006855","count":21},{"id":"GO:0042908","count":16},{"id":"GO:0071805","count":15},{"id":"GO:0042891","count":15}]},{"hash":"242666960233588498","title":"RNA processing and transcription regulation","description":"The top GO terms cluster around transcription control (transcription antitermination, termination regulation, DNA-templated transcription) and RNA biogenesis/processing (pre-miRNA processing, miRNA catabolic process, CRD-mediated mRNA stabilization, rRNA maturation) with some downstream translation and development/apoptosis context. This suggests a cohesive role in regulating gene expression at the transcriptional and RNA-processing levels, rather than in a single signaling pathway. High confidence.","confidence":"High","size":22,"edges":147,"triangles":514,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031564","count":7},{"id":"GO:0060567","count":6},{"id":"GO:0031054","count":6},{"id":"GO:1902219","count":6},{"id":"GO:0006351","count":6}]},{"hash":"1934318707483177311","title":"Angiogenesis and inflammatory signaling","description":"The cluster is dominated by GO terms for angiogenesis and growth-factor\u2013mediated signaling (VEGF receptor signaling, ERK cascade, TGF-beta), with accompanying immune-recruitment signals (neutrophil chemotaxis, responses to M-CSF and fungal-origin molecules). This suggests a cohesive module of vascular growth signaling intertwined with inflammatory cell recruitment, rather than unrelated processes. ","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"wound healing","top_go_terms":[{"id":"GO:0030593","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0045766","count":8},{"id":"GO:0048010","count":8},{"id":"GO:0071560","count":8}]},{"hash":"1964960059043265757","title":"B cell receptor signaling and phagocytosis regulation","description":"The GO terms show strong enrichment for B cell receptor signaling (GO:0050861) and follicular B cell differentiation (GO:0002316), along with regulation of phagocytosis (GO:0050764) and receptor internalization (GO:0002092). Additional terms like regulation of Rho signaling (GO:0035023) and IP3 biosynthesis (GO:0032959) point to downstream signaling and cytoskeletal dynamics supporting receptor trafficking and phagocytic activity. The cellular response to molecule of fungal origin (GO:0071226) aligns with immune activation. Together, these terms suggest a coherent theme of B cell\u2013driven immune signaling and associated endocytosis/phagocytosis processes.","confidence":"High","size":22,"edges":17,"triangles":1,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071226","count":17},{"id":"GO:0038063","count":13},{"id":"GO:0050861","count":13},{"id":"GO:0035023","count":13},{"id":"GO:0038028","count":13}]},{"hash":"1998467440465871708","title":"Membrane signaling and trafficking","description":"The cluster\u2019s top GO terms point to membrane biology and signaling (regulation of Rho protein signal transduction, phosphatidylinositol-mediated signaling, sphingolipid biosynthesis, and ER membrane organization) alongside intracellular transport. This suggests a cohesive theme of membrane composition, lipid signaling, and vesicle trafficking that underpin cytoskeletal regulation and neural contexts, even though a few terms (like B cell differentiation) reflect broader cellular roles. Overall, the core function appears to be membrane signaling and trafficking.","confidence":"High","size":22,"edges":50,"triangles":10,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0048015","count":4},{"id":"GO:0034351","count":3}]},{"hash":"1783494877557652521","title":"Mitochondrial translation and energy metabolism","description":"The cluster is dominated by GO terms tied to mitochondria, especially mitochondrial translation and its positive regulation, plus associated metabolic processes (ROS metabolism, anaerobic respiration, various catabolic and folate-related pathways). This points to a cohesive theme around mitochondrial protein synthesis and energy metabolism, justifying a dedicated label.","confidence":"High","size":22,"edges":227,"triangles":1463,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0070131","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0009115","count":1}]},{"hash":"151859417005981622","title":"Neuronal adhesion and synapse formation","description":"The proteins are strongly linked to cell-cell adhesion (heterophilic and homophilic) and to nervous system development and synapse assembly, pointing to a cohesive role in neuronal adhesion and synaptogenesis. Some outlier terms (bone ossification, symbiont entry) may reflect annotation noise, but the dominant signals support a neuronal adhesion/synapse theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":16},{"id":"GO:0007399","count":14},{"id":"GO:0051965","count":14},{"id":"GO:0007156","count":14},{"id":"GO:0043931","count":14}]},{"hash":"1560128856017752613","title":"Coagulation and Angiogenesis Signaling","description":"GO terms cluster around blood coagulation, fibrinolysis regulation, angiogenesis and vasodilation, plus cytokine production, suggesting a vascular remodeling module that coordinates coagulation control with vessel growth and inflammatory signaling. The dendritic spine morphogenesis term is likely incidental to shared signaling pathways rather than a core function of this cluster. Overall, the theme is vascular coagulation and angiogenic signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042730","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0050663","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0060997","count":4}]},{"hash":"224610310901604253","title":"Kinase-driven signaling and cell cycle control","description":"This cluster is enriched for terms related to phosphorylation and kinase activity (positive regulation of protein serine/threonine kinase activity, protein autophosphorylation), GTPase regulation, and core cell cycle processes (mitotic cell cycle), with additional stress response and differentiation signals (hypoxia response, ascospore formation). The common thread appears to be signaling cascades that control cell growth, division, and adaptive responses, rather than a single, narrow function, supporting a label centered on kinase-mediated signaling and cell cycle regulation.","confidence":"High","size":22,"edges":5,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043588","count":7},{"id":"GO:0030437","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0051028","count":7}]},{"hash":"975264044614305741","title":"Rho GTPase\u2013Mediated Membrane Trafficking","description":"This cluster centers on GO terms for regulation of Rho and GTPase activity, coupled with vesicle trafficking and membrane organization (endosome\u2013lysosome transport, lysosome organization, retrograde transport to the Golgi) and related phosphoinositide signaling. While there are some tissue-specific terms, the common thread appears to be cytoskeletal signaling linked to membrane trafficking and maintenance. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0043087","count":2},{"id":"GO:0001778","count":2},{"id":"GO:0048820","count":2},{"id":"GO:0008333","count":2}]},{"hash":"93594105835402327","title":"Bacterial energy metabolism and quinone biosynthesis","description":"The top GO terms cluster around core bacterial metabolism: glycolysis, TCA cycle, and various catabolic pathways (valine, phenylacetate), alongside biosynthesis of quinones (menaquinone, phylloquinone), and related antibiotic biosynthesis. This suggests a metabolic module focused on energy production and electron transport cofactors in bacteria. ","confidence":"High","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":18},{"id":"GO:0006635","count":16},{"id":"GO:0009234","count":15},{"id":"GO:0042372","count":15},{"id":"GO:0010124","count":15}]},{"hash":"1570730905546258517","title":"Metal Ion Transport and Homeostasis","description":"This cluster is dominated by GO terms related to metal ion transport and ion homeostasis across membranes, including zinc transmembrane transport, copper ion transport, cadmium transmembrane transport, and intracellular calcium ion homeostasis. These recurring themes suggest the proteins collectively function in managing metal ion levels and calcium balance across cellular membranes. Some other terms (e.g., antibiotic biosynthesis and LPS biosynthesis) point to broader bacterial metabolic capabilities but do not outweigh the clear transport/homeostasis signal. Confidence: Medium","confidence":"","size":22,"edges":214,"triangles":1241,"max_degree":21,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0017000","count":7},{"id":"GO:0071577","count":4},{"id":"GO:0097755","count":4},{"id":"GO:0006874","count":4},{"id":"GO:0019373","count":4}]},{"hash":"426035971234339488","title":"Embryonic organ morphogenesis","description":"The terms cluster around embryonic development and organ morphogenesis, including eye development, lung epithelial branching, inner ear development, pituitary and thymus morphogenesis, and left-right patterning, plus general in utero embryonic development. The presence of transcription by RNA polymerase II and its negative regulation hints at regulatory factors guiding these developmental processes. Together, these points indicate a module of proteins coordinated for organogenesis during embryogenesis.","confidence":"High","size":22,"edges":85,"triangles":79,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060441","count":11},{"id":"GO:0043010","count":11},{"id":"GO:0006366","count":11},{"id":"GO:0048048","count":11},{"id":"GO:0001701","count":8}]},{"hash":"160307418235818902","title":"Embryonic Tissue Development","description":"The top GO terms show involvement in development across multiple tissues (gonads, retina/eye, pancreas, cartilage, spinal cord, midbrain) and a broad transcriptional regulatory role, suggesting a cluster of proteins participating in general embryonic development programs rather than a single tissue-specific process.","confidence":"Medium","size":22,"edges":9,"triangles":0,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0008584","count":7},{"id":"GO:0048048","count":7},{"id":"GO:0051216","count":6},{"id":"GO:0003309","count":6}]},{"hash":"643112342279790584","title":"Ubiquitin-Proteasome Mediated Cell Cycle Regulation","description":"The cluster is enriched for multiple ubiquitin-related processes (K11/K48/K63 linkages, SCF and APC/C-dependent degradation, ERAD) and cell-cycle terms (mitotic cell cycle, anaphase promoting complex activity, neddylation), indicating a cohesive group of proteins governing ubiquitin-proteasome\u2013driven protein turnover during mitosis.","confidence":"High","size":22,"edges":183,"triangles":782,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":12},{"id":"GO:0031146","count":11},{"id":"GO:0042787","count":10},{"id":"GO:0051301","count":9},{"id":"GO:0045116","count":9}]},{"hash":"1877581010715265797","title":"Palate development and immune regulation","description":"The top terms include roof of mouth development, complement activation and regulation, and leukocyte trafficking, suggesting a cluster linked to craniofacial development with immune modulation. Additional terms for transcription/translation point to broader gene expression control common in developmental and immune contexts, but the clearest shared theme is palate development with immune regulation.","confidence":"Medium","size":22,"edges":4,"triangles":0,"max_degree":3,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0007338","count":4},{"id":"GO:0051918","count":4},{"id":"GO:0060021","count":3},{"id":"GO:0006412","count":3}]},{"hash":"622214242067192020","title":"Ubiquitin-Dependent Proteolysis","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes, SCF-dependent proteasomal degradation, protein polyubiquitination, and specific ubiquitin linkages (K48 and K63), pointing to a proteostasis/ubiquitin-proteasome system focus. Some included terms also touch on signaling and stress responses (TNF signaling, oxidative stress-induced apoptosis) and circadian regulation, which can be linked to turnover of regulatory proteins. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0031146","count":10},{"id":"GO:1903378","count":9},{"id":"GO:0000209","count":9},{"id":"GO:1903265","count":9}]},{"hash":"1610008637894340410","title":"Spliceosome Regulation and mRNA Processing","description":"This cluster is dominated by GO terms tied to RNA splicing via the spliceosome (both positive and negative regulation), mRNA processing steps such as stabilization and export, processome assembly, and related post-transcriptional regulation. The consolidation of splicing, stability, and export functions suggests a cohesive RNA processing/regulation module.","confidence":"High","size":22,"edges":133,"triangles":307,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":20},{"id":"GO:0048026","count":20},{"id":"GO:0010610","count":19},{"id":"GO:0006378","count":19},{"id":"GO:0048025","count":19}]},{"hash":"1007136854316175683","title":"Cerebellar neuron development and synaptic plasticity","description":"The GO terms cluster around neural development (dendrite morphogenesis, Purkinje cell migration) and synaptic regulation (LTD, synapse structural plasticity), with behavioral associations like sound perception and vocalization that point to cerebellar-mediated motor and communication functions. Polarity-related terms (centrosome localization) further support neuronal development and trafficking in cerebellar neurons.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048813","count":5},{"id":"GO:0060292","count":4},{"id":"GO:0051660","count":4},{"id":"GO:0007605","count":3},{"id":"GO:0021942","count":3}]},{"hash":"415503330990432857","title":"Tissue Morphogenesis and Cell Adhesion","description":"This cluster is dominated by GO terms tied to tissue morphogenesis (heart, lung, corticospinal tract) and adherence/signaling (homophilic cell-cell adhesion, integrin activation regulation, synapse localization). The shared theme across multiple tissues and developmental processes\u2014formation, patterning, and cell interactions\u2014supports a label centered on morphogenesis and cell adhesion.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003192","count":22},{"id":"GO:0033626","count":22},{"id":"GO:0036514","count":22},{"id":"GO:0032533","count":22},{"id":"GO:0060243","count":22}]},{"hash":"1331489999256189579","title":"Pigment and retinoid biosynthesis with redox processes","description":"The cluster is dominated by GO terms tying pigment/retinoid metabolism (melanin biosynthesis; retinol, retinal, and retinoic acid biosynthesis/metabolism) and other lipid-derived biosynthetic processes (mycolic acid, tropane alkaloids), along with oxidation-reduction and transcription regulation terms. This points to a broader metabolic module centered on pigment and vitamin A derivative biosynthesis coupled to redox chemistry, rather than a single, narrow function. ","confidence":"Medium","size":22,"edges":7,"triangles":1,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0046677","count":7},{"id":"GO:0006355","count":7},{"id":"GO:0042438","count":6},{"id":"GO:0042572","count":6}]},{"hash":"2086928815225637911","title":"Neural crest migration and axon guidance","description":"Based on the dominant GO terms, this cluster centers on neural development and neural crest\u2013derived processes, including sympathetic neuron guidance and projection, neural crest cell migration, axonal fasciculation, and nervous system development. These themes point to axon pathfinding and cell adhesion during nervous system formation, with the ossification term likely incidental noise.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":14},{"id":"GO:0014068","count":13},{"id":"GO:0007157","count":12},{"id":"GO:0097491","count":12},{"id":"GO:0036486","count":12}]},{"hash":"1191959049526950139","title":"Lipid and small-molecule metabolism","description":"This cluster centers on a broad set of metabolic processes: lipid handling (triglyceride catabolism, phospholipid dephosphorylation) and diverse small-molecule pathways (alkaloid metabolism, phenylpropionate catabolism, strigolactone and antibiotic biosynthesis) along with detoxification activities. The common thread is metabolic processing of lipids and other small bioactive compounds, rather than a single, specific pathway, justifying a label around lipid and small-molecule metabolism. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:2000124","count":8},{"id":"GO:0019433","count":8},{"id":"GO:0097755","count":8},{"id":"GO:0009820","count":8}]},{"hash":"568361786549794143","title":"Ubiquitin-Proteasome Pathway & Circadian Rhythm","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes and ubiquitination (e.g., ubiquitin-dependent degradation, polyubiquitination, SCF-dependent proteasomal degradation, autoubiquitination, ERAD). The presence of regulation of circadian rhythm among the top terms suggests a link between ubiquitin-mediated proteostasis and circadian control, making this a coherent cluster around protein turnover with a circumstantial circadian connection.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0042752","count":9},{"id":"GO:0000209","count":8},{"id":"GO:0030433","count":8},{"id":"GO:0000083","count":7}]},{"hash":"999968825986793165","title":"Developmental patterning and cell proliferation","description":"The top GO terms point to developmental patterning (left/right pattern formation) and lineage-related proliferation (germarium-derived cystoblast division; cell population proliferation), indicating a theme around organizing development and growth. There are also hints of chromatin-level regulation (RITS complex localization; histone methylation/demethylation), suggesting epigenetic control of developmental programs. A few terms (dendritic cell dendrite assembly, mammary gland proliferation, steroid signaling) appear ancillary but do not outweigh the core developmental and proliferative signals. Overall, the cluster seems best described as developmental patterning with regulated proliferation and some chromatin regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":2},{"id":"GO:0048142","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0034630","count":1},{"id":"GO:0051574","count":1}]},{"hash":"976801524807900144","title":"Embryonic skeletal development and craniofacial morphogenesis","description":"These proteins are enriched for bone formation and facial development terms (intramembranous ossification, bone trabecula formation, face morphogenesis) and cartilage regulation (regulation of chondrocyte differentiation), with related developmental processes such as chorio-allantoic fusion and endothelial cell chemotaxis. The common thread is embryonic skeletal and craniofacial morphogenesis, often accompanied by vascularization.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0060346","count":4},{"id":"GO:0071230","count":4},{"id":"GO:0001957","count":4},{"id":"GO:0060325","count":4},{"id":"GO:0060710","count":4}]},{"hash":"1643519358478130108","title":"Immune and cytoskeletal signaling regulators","description":"The terms emphasize immune responses to lipopolysaccharide and viral suppression, plus Rho/GTPase signaling, cytoskeletal regulation, and vascular functions like endothelial barrier and platelet activation, suggesting a cohesive role in coordinating immune signaling with cytoskeletal and vascular dynamics.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903799","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0044828","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0050774","count":2}]},{"hash":"1248185122972039270","title":"Transmembrane nutrient and vitamin transporters","description":"The cluster\u2019s top GO terms cluster around transport across membranes for a variety of nutrients and ions, including nitrate/nitrite (nitrogen sources), folate/folic acid, thiamine, methotrexate, and potassium ions. This pattern points to a shared function in transmembrane transport of nutrients and vitamins rather than a single specific substrate, with one outlier term (phospholipid catabolic process) likely not representative of the main theme. Overall, the proteins appear to function as membrane transporters for diverse nutrients.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0042128","count":5},{"id":"GO:1900122","count":4},{"id":"GO:0009395","count":4},{"id":"GO:0098838","count":4},{"id":"GO:0015884","count":4}]},{"hash":"2124099149639400178","title":"Epigenetic Regulation of Neural Development","description":"The top terms emphasize histone methylation (H3-K4, H3-K9, H3-K79), DNA-templated transcription, and neural development (spinal cord, forebrain). This suggests a cluster centered on chromatin-based control of transcription during neural development, with some additional general nuclear processes (mitosis, GTPase regulation) that are less central to the theme. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0051568","count":3},{"id":"GO:0051260","count":3}]},{"hash":"1408080528223855144","title":"Hepatic growth and metabolic regulation","description":"The top GO terms center on liver- and metabolism-related processes: hepatocyte proliferation, liver regeneration, insulin processing, and glucose response, indicating a hepatic growth/metabolic theme. Fibrinolysis and plasminogen activation relate to liver-associated coagulation functions, while deglutamylation terms denote post-translational modification activities. Overall, the cluster appears to collect proteins linked to liver growth, metabolic regulation, and related proteolytic/coagulation processes.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000346","count":3},{"id":"GO:0035609","count":3},{"id":"GO:0097421","count":3},{"id":"GO:0030070","count":3},{"id":"GO:0009408","count":3}]},{"hash":"1432352633843547447","title":"Neuronal plasticity with vascular and ECM regulation","description":"The cluster\u2019s top GO terms center on neuronal synaptic plasticity (long-term potentiation, regulation of long-term synaptic plasticity) and general neural signaling, while also featuring vascular-related processes (vasodilation, endothelial cell migration) and extracellular matrix organization (collagen fibril organization). Hormonal metabolism (glucocorticoid metabolic process) ties into stress-related modulation of neural activity, suggesting a cohesive theme where neuronal plasticity is influenced by hormonal signals and neurovascular/ECM remodeling. Some terms are obsolete, but the core signal aligns around neuroplasticity intersecting with vascular/ECM dynamics.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010873","count":3},{"id":"GO:0042311","count":3},{"id":"GO:0008211","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0045879","count":3}]},{"hash":"913727045819426552","title":"Neuronal signaling and synaptic plasticity","description":"The top GO terms converge on neural communication and synaptic remodeling (dendritic spine morphogenesis, long-term synaptic depression, and regulation of excitatory postsynaptic potentials) and extend to behavioral contexts such as vocalization, social behavior, and sound perception. Circadian regulation of gene expression also ties neuronal timing to these processes, suggesting a cohesive theme of neural signaling and plasticity underpinning auditory and social behaviors.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032922","count":3},{"id":"GO:0071625","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0007605","count":3}]},{"hash":"834131557293453656","title":"Notch-regulated wing, muscle, and heart development","description":"The top terms cluster around Notch signaling and its downstream effects, including wing imaginal disc development, mesodermal fate specification, myoblast differentiation, and heart-related development (atrioventricular node). This points to a shared regulatory module in which Notch governs patterning and differentiation across wing, muscle, and cardiac lineages. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007475","count":3},{"id":"GO:0007500","count":2},{"id":"GO:0007219","count":2},{"id":"GO:0007418","count":2},{"id":"GO:0060928","count":2}]},{"hash":"121521968804962774","title":"Neural development and sensory perception","description":"The top terms center on nervous system development and sensory processes (vision, pain), with related behavioral responses (cocaine) and learning, supported by signaling (GTPase regulation) and ion transport relevant to neural activity.","confidence":"Medium","size":21,"edges":147,"triangles":505,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0007601","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0007399","count":6}]},{"hash":"988683910595106179","title":"Inflammation-Driven Vascular and Pain Responses","description":"The terms cluster around inflammatory/reactive processes (inflammatory response, response to lipopolysaccharide, blood coagulation) that influence vascular tone (vasoconstriction, regulation of blood pressure) and pain perception, with supporting signaling via GPCR pathways and links to metabolic/thermogenic responses. This suggests a coherent theme of immune activation coupled with vascular/pain regulation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0032496","count":15},{"id":"GO:0007596","count":15},{"id":"GO:0045986","count":15},{"id":"GO:0045907","count":15}]},{"hash":"1475309272114304695","title":"Intracellular transport and cytoskeleton remodeling","description":"The top terms cluster around vesicle trafficking from the ER to Golgi, cilium assembly, and actin filament remodeling, all core to intracellular transport and cytoskeletal dynamics. Additional terms for GTPase regulation, protein turnover, mRNA transport, cell cycle, and stress/immune responses reflect linked cellular remodeling and quality control in active cells, supporting a central theme of trafficking and cytoskeleton function under stress.","confidence":"Medium","size":21,"edges":28,"triangles":5,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0060271","count":6},{"id":"GO:0030042","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0050830","count":5}]},{"hash":"1918656406016240755","title":"Endosome-to-vacuole trafficking and mitosis","description":"The proteins are enriched for endosomal transport to the vacuole via the multivesicular body pathway, regulation of endosome maturation, membrane fission, and several mitotic processes (chromosome alignment, condensation, and exit from mitosis), suggesting a network coordinating vesicle sorting to the vacuole with cell-cycle progression. Some apoptosis and nucleus organization terms may reflect broader stress or nuclear remodeling activities that accompany division, reinforcing a theme of vesicle trafficking linked to cell-cycle control.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":6},{"id":"GO:2000641","count":6},{"id":"GO:1904669","count":5},{"id":"GO:0043328","count":5},{"id":"GO:0007080","count":5}]},{"hash":"1368094897579167188","title":"Immune Signaling and Cytoskeleton Regulation","description":"This cluster centers on immune signaling (T cell receptor signaling, mast cell degranulation) and cytoskeleton/adhesion dynamics (focal adhesion assembly, actin cytoskeleton reorganization, axon extension). The overlap of MAPK/JNK signaling with cytoskeletal remodeling suggests proteins coordinating immune activation with adhesion and structural changes, with some neuronal development terms likely reflecting shared cytoskeletal regulation. ","confidence":"Medium","size":21,"edges":39,"triangles":5,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051893","count":21},{"id":"GO:0046330","count":21},{"id":"GO:0043552","count":21},{"id":"GO:0050852","count":21},{"id":"GO:0045773","count":21}]},{"hash":"808446306607676186","title":"GPCR-Driven Immune Signaling","description":"This cluster is best described by signaling pathways that are driven by G protein-coupled receptors and linked to immune processes. The most represented terms include adenylate cyclase-activating GPCR signaling, Rho signaling regulation, immune response, and IL-12 production, pointing to a functional theme of GPCR-regulated immunity. Some terms (electron transport chain, grooming behavior) are less central, but do not override the core GPCR-immune signal theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":20},{"id":"GO:0010579","count":20},{"id":"GO:0035025","count":20},{"id":"GO:0022900","count":20},{"id":"GO:0035625","count":19}]},{"hash":"2078807281890541012","title":"Axon guidance and synaptic vesicle trafficking","description":"The cluster is enriched for neuronal development and connectivity processes (ROBO signaling, regulation of axonogenesis, nervous system development) and synaptic function (regulation of synaptic vesicle exocytosis, plasma membrane\u2013endosome transport), suggesting proteins involved in neural wiring and vesicle trafficking.","confidence":"High","size":21,"edges":141,"triangles":424,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0048227","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0031384","count":4},{"id":"GO:0010796","count":4}]},{"hash":"1189735976462799968","title":"Neural development and synaptic adhesion","description":"This cluster is driven by GO terms tied to cell-cell adhesion (homophilic/heterophilic) and nervous system development, including synapse assembly and mechanosensory detection, pointing to roles in neural tissue organization and connectivity. Immune-related terms are present but do not override the neural-focused signal.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":9},{"id":"GO:0007157","count":9},{"id":"GO:0050910","count":9},{"id":"GO:0007399","count":8},{"id":"GO:0051965","count":8}]},{"hash":"2175298413911030554","title":"Cardiac ion transport and stress signaling","description":"The proteins are linked to calcium release into the cytosol, Na+ import and K+ export across membranes, and heart-related processes such as heart development and hypertrophy in response to stress. Although some terms touch on systemic stress or sensory aspects (pain, thermogenesis), the dominant pattern centers on cardiac muscle physiology, calcium signaling, and ion homeostasis under stress. This supports labeling as cardiac ion transport and stress signaling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051281","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0098719","count":3}]},{"hash":"1798213181373878062","title":"ER-Golgi vesicle trafficking","description":"This cluster is dominated by GO terms related to the secretory pathway, including ER to Golgi vesicle transport, COPII-coated vesicle budding, and retrograde Golgi-to-ER transport, all of which point to vesicle trafficking between the ER and Golgi. The presence of GO terms for positive regulation of GTPase activity (often Rab/Arf regulators) supports a trafficking-centric function. A few terms (e.g., retina development, mRNA transport, TORC1 signaling, cell division) seem secondary or broad, but they do not outweigh the clear trafficking theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0006888","count":7},{"id":"GO:0071276","count":6},{"id":"GO:0051301","count":6}]},{"hash":"526511832140317462","title":"Chromatin Regulation During Development","description":"This cluster highlights nuclear/chromatin-related processes (negative regulation of transcription by RNA Pol II, establishment of protein localization to chromatin, nucleus organization) coupled with developmental outcomes (cardiac atrium morphogenesis, vitellogenesis, multicellular growth), suggesting proteins coordinating gene expression and chromatin state during development, with supportive roles in signaling and protein interactions.","confidence":"Medium","size":21,"edges":202,"triangles":1191,"max_degree":20,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":18},{"id":"GO:0051290","count":17},{"id":"GO:0035023","count":11},{"id":"GO:0071169","count":11},{"id":"GO:0003209","count":10}]},{"hash":"620233128354115876","title":"Immune signaling and T cell development","description":"The cluster\u2019s top GO terms center on immune response and T cell differentiation, including DN2 thymocyte differentiation, interleukin-12 production, and immunological synapse formation, indicating an immune signaling module; a few terms about circadian rhythm and grooming behavior appear ancillary.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":21},{"id":"GO:1902239","count":21},{"id":"GO:0006955","count":21},{"id":"GO:1904155","count":21},{"id":"GO:0007625","count":21}]},{"hash":"2003296653175741634","title":"Calcium signaling in heart muscle and neurons","description":"The cluster shows strong enrichment for calcium-related terms (detection of calcium ion; regulation of heart contraction by release of sequestered calcium) alongside neural development and plasticity terms (memory; regulation of synaptic plasticity; axonogenesis) and a hypoxia response, pointing to a common theme of calcium-mediated signaling in cardiac and neural contexts.","confidence":"High","size":21,"edges":24,"triangles":9,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":9},{"id":"GO:0048741","count":8},{"id":"GO:0005513","count":8},{"id":"GO:0010881","count":7},{"id":"GO:0007613","count":7}]},{"hash":"1471857037011835949","title":"Genome stability and chromatin regulation","description":"This cluster is dominated by GO terms related to genome integrity and chromatin state, including subtelomeric heterochromatin formation, protection from non-homologous end joining at telomeres, G-quadruplex DNA formation, and DNA methylation involved in gamete generation. While there are some developmental signaling terms present (e.g., follicle epithelium polarity, egg chamber, and cortex development), the strongest recurring theme centers on chromatin organization and genome stability.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":4},{"id":"GO:0042248","count":3},{"id":"GO:0001744","count":3},{"id":"GO:0007299","count":3},{"id":"GO:0075015","count":3}]},{"hash":"1878149376051946850","title":"Membrane Transport Proteins","description":"The dominant GO terms describe transmembrane transport of vitamins, xenobiotics, ions, and other substrates, plus vesicular loading, indicating membrane transport is the cluster's main function. A few terms (e.g., replicative senescence) appear as outliers but do not change the overall theme.","confidence":"High","size":21,"edges":175,"triangles":779,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":21},{"id":"GO:0006855","count":21},{"id":"GO:0071805","count":20},{"id":"GO:0042908","count":20},{"id":"GO:0006970","count":17}]},{"hash":"572295367498807935","title":"RTK-driven epithelial morphogenesis","description":"The cluster\u2019s top terms center on receptor tyrosine kinase signaling (collagen-activated RTK signaling, peptidyl-tyrosine autophosphorylation) and developmental morphogenesis (lung morphogenesis, trachea formation, melanocyte adhesion), suggesting a theme of RTK-mediated epithelial development and tissue remodeling. Some terms like telomere maintenance, CpG island methylation, and cadmium response appear less directly tied, possibly reflecting broader regulatory roles or pleiotropy within this protein set.","confidence":"Medium","size":21,"edges":196,"triangles":1086,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032212","count":21},{"id":"GO:0010568","count":21},{"id":"GO:0097326","count":21},{"id":"GO:0060440","count":21},{"id":"GO:0071276","count":21}]},{"hash":"823650728215490768","title":"Plant cell wall polysaccharide biosynthesis","description":"The top GO terms cluster around plant cell wall construction and polysaccharide biosynthesis, including cell wall organization, plant-type secondary cell wall biogenesis, and the biosynthesis of homogalacturonan, glucuronoxylan, and mucilage. This points to proteins involved in wall polysaccharide assembly and cell wall\u2013related glycosylation. While a few entries (e.g., DNA replication, sperm binding) seem unrelated, the dominant signal reflects a plant cell wall biosynthesis program.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071555","count":4},{"id":"GO:0016266","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0007339","count":3},{"id":"GO:0005978","count":3}]},{"hash":"935714760886305421","title":"RNA processing and spliceosome regulation","description":"The cluster shows strong enrichment for GO terms centered on RNA metabolism, especially splicing via the spliceosome (cis and alternative), small-subunit processome assembly, mRNA export, and mRNA stabilization, along with related processes like regulation in stress and translation initiation complex assembly. This points to a cohesive function in RNA processing and spliceosome-mediated maturation and export of mRNA, rather than a single isolated pathway.","confidence":"High","size":21,"edges":204,"triangles":1222,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":13},{"id":"GO:0031047","count":12},{"id":"GO:0006378","count":12},{"id":"GO:0048026","count":12},{"id":"GO:0000381","count":11}]},{"hash":"2152634414248144646","title":"Rho-regulated actin dynamics and cell motility","description":"The topGO terms cluster around actin cytoskeleton dynamics and Rho signaling (regulation of Rho protein signal transduction, microspike assembly, actin crosslink formation, regulation of the force of skeletal muscle contraction), indicating a shared function in cytoskeletal remodeling and cell movement. Some neural development terms appear (retinal cone cell development, Purkinje cell layer morphogenesis), but the dominant theme is actin-mediated motility and structural organization.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0030035","count":5},{"id":"GO:1901018","count":5},{"id":"GO:0051764","count":5},{"id":"GO:0048549","count":5}]},{"hash":"423320539361282956","title":"Insulin signaling and glucose metabolism in adipose","description":"Most terms point to insulin signaling, glucose transport, and glycogen synthesis, plus brown fat differentiation. Together they indicate a group of proteins coordinating insulin-regulated metabolism and adipose tissue development. Some terms (complement activation, inner ear development) are unrelated outliers but do not define the cluster.","confidence":"High","size":21,"edges":4,"triangles":0,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0050873","count":4},{"id":"GO:0045721","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0015758","count":3}]},{"hash":"267152793542899883","title":"Neuronal development and brain barrier regulation","description":"The cluster shows brain-development terms (substantia nigra, dorsal motor nucleus), neuronal synaptic plasticity, and barrier-related processes (tight junction assembly, endothelial barrier), along with immune modulation signals (IL-10, Th2 cytokines) and xenobiotic response, suggesting a cohesive role in neurodevelopment with barrier integrity and neuroimmune communication.","confidence":"Medium","size":21,"edges":163,"triangles":822,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":4},{"id":"GO:0060263","count":4},{"id":"GO:0035690","count":3},{"id":"GO:0048169","count":3},{"id":"GO:0070830","count":3}]},{"hash":"106093416842620930","title":"Embryonic and Organ Morphogenesis","description":"The top GO terms cluster around morphogenesis across various tissues and developmental contexts (digits, inner ear, forebrain, cochlea, ureteric bud, gonads, prostate, dopaminergic neurons), plus general multicellular development. This suggests the proteins collectively participate in shaping tissues during development rather than a single tissue-specific function.","confidence":"High","size":21,"edges":11,"triangles":0,"max_degree":11,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0090190","count":4},{"id":"GO:0042733","count":4},{"id":"GO:0042472","count":4},{"id":"GO:0048853","count":4},{"id":"GO:0060527","count":4}]},{"hash":"278742521116592486","title":"Nucleotide metabolism and stress responses","description":"This cluster centers on nucleotide metabolism: uridine biosynthesis, UMP salvage, and cytosine/guanine catabolism are prominent. It also includes RNA editing of tRNA and stress-response terms to lipopolysaccharide and antibiotics, suggesting a functional module linking nucleotide turnover with bacterial stress signaling. Some GO terms are obsolete, but the core theme remains coherent.","confidence":"Medium","size":21,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0009972","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0032496","count":5},{"id":"GO:0006147","count":5},{"id":"GO:0046109","count":5}]},{"hash":"422949304852410825","title":"Mitochondrial Transport and Energy Metabolism","description":"These proteins cluster around mitochondrial functions: membrane fission and permeability regulation indicate mitochondrial dynamics, while the malate\u2013aspartate shuttle and ATP transport point to energy metabolism. Transport of ions and metabolites (manganese, phosphate, thiosulfate, heme) further supports a mitochondria-centric transport theme, with additional links to stress signaling and necroptosis regulation. Overall, the dominant theme is mitochondrial transport coupled to energy metabolism.","confidence":"High","size":21,"edges":56,"triangles":8,"max_degree":10,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0090149","count":13},{"id":"GO:0046902","count":13},{"id":"GO:0006828","count":13},{"id":"GO:0035435","count":13},{"id":"GO:0043490","count":13}]},{"hash":"1347508645109450457","title":"Adhesion Molecules in Immune and Neural Development","description":"This cluster is defined by strong signals for cell-cell adhesion (both homophilic and heterophilic) and synapse-related processes, with substantial representation of nervous system development and synapse assembly. It also includes immune-related terms (innate immune response, B cell receptor signaling, phagocytosis) and bone-related ossification, suggesting a theme around adhesion molecules that function at interfaces between immune signaling and neural development, with ancillary roles in bone ECM interactions. Overall, a cohesive label emphasizing adhesion-focused roles across immune and neural contexts is most representative.","confidence":"Medium","size":21,"edges":68,"triangles":71,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":14},{"id":"GO:0007157","count":14},{"id":"GO:0043931","count":13},{"id":"GO:0006958","count":12},{"id":"GO:0007399","count":12}]},{"hash":"1241351675742452248","title":"Ribosome Biogenesis and Nuclear Transport","description":"The proteins cluster around ribosome assembly and nucleocytoplasmic trafficking, with multiple terms for ribosomal biogenesis, ribosomal subunit export from the nucleus, ribosomal protein import, and mRNA export, as well as NLS-dependent import and general intracellular transport. A few terms related to actin regulation and cell division are present but likely reflect intersecting processes during mitosis rather than core functions of the cluster.","confidence":"Medium","size":21,"edges":3,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0006886","count":3},{"id":"GO:0000055","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0051301","count":3}]},{"hash":"97189717307229156","title":"Heart Function and NF-kappaB Immune Signaling","description":"The terms show a blend of cardiac biology (heart development, cardiac muscle contraction, acetylcholine receptor signaling) with immune and inflammatory pathways (NF-kappaB signaling, leukocyte migration, cytokine production, TLR4 signaling). This suggests a theme where heart function intersects with NF-kappaB\u2013driven immune responses, with membrane trafficking terms likely reflecting general cellular processes. ","confidence":"Medium","size":21,"edges":21,"triangles":0,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0002687","count":3},{"id":"GO:0010765","count":3},{"id":"GO:0002374","count":3}]},{"hash":"1804553910299874928","title":"Embryonic heart and neural crest morphogenesis","description":"These proteins cluster around embryonic morphogenesis, with strong emphasis on cardiovascular development (cardiac septum morphogenesis, cardiac neural crest cell migration in outflow tract morphogenesis, hemangioblast differentiation) and neural/axial patterning (floor plate development, somitogenesis). Transcription by RNA polymerase II indicates coordinated gene regulation during development. Some immune-related terms appear but do not override the developmental theme. Overall, the cluster best fits embryonic cardiovascular and neural crest morphogenesis.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006959","count":17},{"id":"GO:0006366","count":17},{"id":"GO:0060411","count":16},{"id":"GO:0003253","count":16},{"id":"GO:0001756","count":16}]},{"hash":"2241650679271080530","title":"Migration and mechanotransduction","description":"The top terms are dominated by cell movement (cell migration, fibroblast migration) and responses to mechanical cues (response to muscle stretch), pointing to migratory and mechanosensitive signaling as the core theme. While there are additional terms (mRNA processing, telomere maintenance, fat cell differentiation), they are less central to the main pattern. Confidence: Medium.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0016477","count":6},{"id":"GO:2001275","count":5},{"id":"GO:0007205","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0010763","count":4}]},{"hash":"228605556259837118","title":"Lipid and pigment biosynthesis, retinoid metabolism, antibiotic response","description":"The Top Terms cluster around biosynthesis of lipid- and pigment-derived metabolites (polyhydroxybutyrate, mycolic acid, melanin) and retinoids (retinol, retinal, retinoic acid), plus antibiotic biosynthesis and response. This points to a cohesive theme of lipid/pigment metabolite production with an antibiotic-related context, despite some terms (e.g., lung development) being less directly connected.","confidence":"Medium","size":21,"edges":57,"triangles":48,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0046677","count":17},{"id":"GO:0042619","count":17},{"id":"GO:0017000","count":17},{"id":"GO:0055114","count":17},{"id":"GO:0042438","count":16}]},{"hash":"1588212772521603492","title":"Ribosome Biogenesis and Translation","description":"The dominant GO terms cluster around ribosome production and protein synthesis\u2014translation, ribosome biogenesis, large and small subunit biogenesis/maturation, and rRNA processing\u2014indicating the proteins are mainly components and assembly factors of the ribosome and core translation machinery, with a minor note of antibiotic response that does not change the overall theme.","confidence":"High","size":21,"edges":209,"triangles":1311,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":18},{"id":"GO:0042254","count":8},{"id":"GO:0046677","count":5},{"id":"GO:0000027","count":5},{"id":"GO:0006415","count":5}]},{"hash":"380276475854687814","title":"Endothelial development and vessel maturation","description":"This cluster centers on vascular-related processes: blood coagulation, establishment of endothelial barriers, and blood vessel maturation, alongside embryo implantation and multicellular development. The strong presence of cell\u2013cell adhesion (homophilic/heterophilic) and receptor clustering signals support endothelial interactions and tissue remodeling during development. While a few terms are broader (e.g., ossification, synapse assembly), the dominant theme ties to endothelial/vessel development and adhesion-driven morphogenesis. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":5},{"id":"GO:0043113","count":4},{"id":"GO:1903142","count":4},{"id":"GO:0007566","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1674680606769551526","title":"Regulation of inflammatory signaling and apoptosis","description":"The top GO terms are dominated by regulatory actions in immune signaling and cell fate, including negative regulation of inflammatory response, negative regulation of TNF-mediated signaling, and positive regulation of extrinsic apoptotic signaling, plus related calcium signaling and nuclear export regulation. This suggests the proteins function as modulators of signaling pathways involved in inflammation and apoptosis, rather than executing a single metabolic task. Confidence: Medium","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":3},{"id":"GO:0006465","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0050728","count":2}]},{"hash":"47032125453819404","title":"Neural development and axon guidance","description":"The terms point strongly to CNS development, axon guidance, and nerve organization (central nervous system development; axonal fasciculation; semaphorin-plexin signaling in axon guidance; trigeminal nerve structural organization), indicating the proteins function together in neural patterning and pathfinding. Some items like lymphangiogenesis appear ancillary rather than defining the cluster.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:1901492","count":12},{"id":"GO:0043154","count":11},{"id":"GO:0001501","count":11},{"id":"GO:0071260","count":10},{"id":"GO:0021637","count":8}]},{"hash":"1914334007774320618","title":"Ubiquitin-Dependent Protein Turnover and Immune Signaling","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes and autoubiquitination, suggesting a core role in ubiquitin-mediated protein turnover. Additional terms touch on immune signaling (TNF pathways) and V(D)J recombination, implying links between ubiquitination and immune regulation, with some histone-related terms possibly reflecting chromatin dynamics influenced by ubiquitination. Overall, the cluster appears centered on ubiquitin-driven proteolysis with immune signaling connections.","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":7},{"id":"GO:0033151","count":6},{"id":"GO:1903265","count":6},{"id":"GO:2000620","count":6}]},{"hash":"1645980164355083869","title":"Ubiquitin-Dependent Proteolysis & NF-\u03baB Signaling","description":"The GO terms point strongly to ubiquitination-driven protein turnover (ubiquitin-dependent proteolysis, autoubiquitination, K48-linked ubiquitination) and regulation of I\u03baB phosphorylation, TNF signaling, and apoptosis, indicating a module centered on the ubiquitin-proteasome system and its control of immune signaling pathways such as NF-\u03baB. Some terms related to histone ubiquitination and V(D)J recombination reflect chromatin and immune cell development connections, but the core theme is ubiquitin-mediated degradation and signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0051865","count":10},{"id":"GO:0070936","count":10},{"id":"GO:1903721","count":9},{"id":"GO:0090073","count":9}]},{"hash":"1780512457773507794","title":"Catabolic Metabolism & Detoxification","description":"The dominant GO terms are various substrate-specific catabolic processes (chlorophyll, formaldehyde, triglycerides, cellulose, beta-ketoadipate) and detoxification, with supporting terms like proteolysis and biosynthesis of essential cofactors. This pattern suggests proteins primarily involved in breaking down diverse compounds and managing cellular metabolism, rather than a single unified pathway. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0015996","count":5},{"id":"GO:0098869","count":5},{"id":"GO:0046294","count":4},{"id":"GO:0019433","count":4},{"id":"GO:0030245","count":4}]},{"hash":"2206426497462718319","title":"Neural development with angiogenic and immune signals","description":"The top GO terms cluster around neural development (axon extension, axon guidance, synapse structural plasticity, adhesion) and also include angiogenesis and immune-related processes (mast cell differentiation/chemotaxis, B cell activation), suggesting a developmental program coordinating neural connectivity with vascular and immune cues. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048675","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0060374","count":2},{"id":"GO:0007156","count":2},{"id":"GO:0007411","count":2}]},{"hash":"1265744252620517280","title":"Ribosome Biogenesis and Cell Cycle Machinery","description":"This cluster is enriched in terms related to ribosome biogenesis, translation initiation, and mRNA transport, alongside mitotic cell cycle andcell division processes, pointing to a core set of proteins involved in protein synthesis and division. The presence of a positive regulation of GTPase activity suggests regulatory signaling coordinating these processes, with a minor note of hypoxia response indicating stress-related modulation. Overall, it represents growth- and division-associated cellular machinery.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000747","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0001731","count":3}]},{"hash":"1547761183437671386","title":"Embryonic development and organogenesis","description":"This cluster centers on diverse embryonic development processes across multiple tissues (mouth roof, heart, CNS, cartilage, placenta) and includes DNA-templated transcription, pointing to transcriptional regulators coordinating organogenesis. The shared theme is embryonic development and tissue formation rather than a single tissue. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0007417","count":3},{"id":"GO:0003323","count":3}]},{"hash":"721912597957257070","title":"Drug-Response GPCR-ERK Signaling","description":"The cluster's top GO terms cluster around drug and xenobiotic responses and GPCR-ERK signaling: positive regulation of ERK1/2 cascade, adenylate cyclase-activating GPCR signaling pathway, and various drug-response terms (response to morphine, to xenobiotic stimulus, to prostaglandin stimulus, behavioral response to cocaine). This suggests a common theme of GPCR-driven signaling leading to ERK activation in response to drugs and neuroactive or inflammatory stimuli. Some terms like visual learning, blood coagulation, or heart development may be peripheral or reflect broader physiological contexts in which these pathways operate, but the dominant signal is pharmacological signaling. Therefore, a concise name capturing drug-response signaling is appropriate.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":10},{"id":"GO:0008542","count":9},{"id":"GO:0007596","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0045777","count":9}]},{"hash":"810240819172783155","title":"Unknown","description":"The GO terms cover very disparate areas: brain, adipose, and kidney development; propionyl-CoA and ketone body metabolism; apoptosis regulation and protein oligomerization; and sporulation. There isn't a single unifying function or pathway linking the proteins. Therefore no cohesive label can be assigned beyond Unknown.","confidence":"","size":20,"edges":101,"triangles":248,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0051260","count":6},{"id":"GO:1901029","count":4},{"id":"GO:1902860","count":4},{"id":"GO:0060612","count":4}]},{"hash":"1285073413790021926","title":"Cardiovascular signaling and coagulation","description":"The top GO terms cluster around heart development, blood coagulation, blood pressure regulation, and GPCR-mediated signaling (dopamine and prostaglandin pathways), plus Rho/GTPase regulation. This suggests a coherent theme of cardiovascular signaling and vascular homeostasis, with coagulation as a central aspect and GPCR-driven signal transduction as a key mechanism. A peripheral energy metabolism term (electron transport chain) may reflect general cellular activity in cardiac-related proteins, but the core theme remains cardiovascular signaling and coagulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0007191","count":5},{"id":"GO:0071380","count":5}]},{"hash":"424137071044428170","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":9},{"id":"GO:0071456","count":9},{"id":"GO:0002188","count":9},{"id":"GO:0000398","count":8},{"id":"GO:0031047","count":6}]},{"hash":"2063942397622467127","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms tied to protein synthesis and ribosome assembly\u2014translation, cytoplasmic translation, ribosomal large subunit assembly, ribosome biogenesis, and regulation of translational fidelity\u2014indicating proteins involved in ribosome production and function; a couple of other terms (mitochondrial electron transport, antibiotic response) are less central.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0000027","count":3},{"id":"GO:0006123","count":2},{"id":"GO:0017148","count":2},{"id":"GO:0046677","count":2}]},{"hash":"639933038243421016","title":"Mitochondrial translation and cofactor biosynthesis","description":"The top terms cluster around mitochondrial protein synthesis (translation) and import into the mitochondrial matrix, plus components of the electron transport chain, along with methylation of tRNA/rRNA and biosynthetic pathways for cofactors such as molybdopterin and porphyrin derivatives. This combination suggests a cohesive group of mitochondrial-related translation/assembly factors and cofactor biosynthesis supporting respiration. ","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0030150","count":2},{"id":"GO:0006123","count":2},{"id":"GO:0070475","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1888073490230831778","title":"T cell signaling and cytoskeletal remodeling","description":"This cluster's top GO terms converge on T cell receptor signaling, beta selection, and immune cell functions (mast cell degranulation), coupled with cytoskeleton/adhesion processes (regulation of focal adhesion assembly, actin cytoskeleton reorganization) and signaling cascades (PI3K/AKT, ERK). The combination points to a module of immune receptor\u2013driven signaling that is tightly linked to cytoskeletal dynamics and cell adhesion, common in T cell development and activation. Some terms are labeled obsolete, but the overall theme remains immune signaling with cytoskeletal remodeling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051893","count":17},{"id":"GO:0000186","count":17},{"id":"GO:0043552","count":17},{"id":"GO:0050852","count":17},{"id":"GO:0051897","count":17}]},{"hash":"1794592990077678431","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":141,"triangles":584,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1905869","count":19},{"id":"GO:0002098","count":19},{"id":"GO:1905608","count":19},{"id":"GO:0051301","count":19},{"id":"GO:0007601","count":19}]},{"hash":"969407840908447228","title":"Mitosis-Associated Membrane Trafficking","description":"The top GO terms cluster around mitotic progression (mitotic cell cycle, mitotic metaphase chromosome alignment) together with nuclear export (mRNA and ribosomal subunit export) and vesicle/membrane processes (intralumenal vesicle formation, phosphatidylcholine biosynthesis). This suggests a theme where proteins participate in chromosome segregation while also engaging in membrane trafficking and lipid biosynthesis, indicating a coordinated role in cell division and membrane dynamics.","confidence":"Medium","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0051301","count":4},{"id":"GO:0007080","count":4},{"id":"GO:0006406","count":4}]},{"hash":"1702406882897308399","title":"mRNA processing, export, and translation initiation","description":"The top terms center on mRNA splicing and processing via the spliceosome, mRNA stability and export, and assembly of the translation initiation machinery (eIF4F), indicating a cohesive group of post-transcriptional RNA metabolism functions rather than a single enzymatic activity.","confidence":"High","size":20,"edges":66,"triangles":48,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":9},{"id":"GO:0031047","count":9},{"id":"GO:1901407","count":8},{"id":"GO:0000398","count":7},{"id":"GO:0034462","count":7}]},{"hash":"1425933467381436232","title":"Endosomal trafficking and migratory signaling","description":"Top GO terms indicate a core of endocytic and endosomal transport processes (endocytosis; plasma membrane to endosome; early to late endosome; Golgi-to-ER retrograde transport), together with migration and signaling (hemocyte migration; mast cell chemotaxis; Robo and Rap pathways; angiogenesis regulation). This points to a cluster centered on endosomal trafficking linked to cell movement and guidance.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007286","count":5},{"id":"GO:0048227","count":5},{"id":"GO:0006890","count":4},{"id":"GO:0006897","count":4},{"id":"GO:0035099","count":4}]},{"hash":"160027729922158965","title":"ECM remodeling and tissue morphogenesis","description":"The top GO terms point to extracellular matrix breakdown and remodeling (collagen catabolic process, basement membrane disassembly, bone resorption, proteolysis) along with development-related processes like lung branching morphogenesis and regulation of catalytic activity. This combination suggests proteins that participate in ECM remodeling during tissue development and turnover, rather than a single signaling or cellular process. Hence the label ECM remodeling and tissue morphogenesis.","confidence":"High","size":20,"edges":171,"triangles":840,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0050790","count":4},{"id":"GO:0060448","count":4},{"id":"GO:2000179","count":4},{"id":"GO:0001913","count":4},{"id":"GO:0045453","count":4}]},{"hash":"1168806101414745827","title":"Embryonic Morphogenesis and Organ Development","description":"This cluster is dominated by GO terms related to embryonic development and tissue morphogenesis, including palate formation, placental/embryonic tissue development, cartilage morphogenesis, left-right patterning, and EMT in heart development, plus endocrine system development. The shared theme is development and formation of organs and structures, suggesting these proteins function in developmental processes rather than a single enzymatic activity. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":14},{"id":"GO:0003323","count":13},{"id":"GO:0060707","count":13},{"id":"GO:0060806","count":13},{"id":"GO:0060536","count":13}]},{"hash":"2111827906264007888","title":"Developmental processes and actin dynamics","description":"The terms show a clear split between developmental processes (brain development, osteoblast differentiation, neuron projection development, multicellular organism growth, male gonad development) and cytoskeletal regulation (Arp2/3-mediated actin nucleation, actin filament depolymerization, stress fiber assembly). Together they suggest proteins involved in morphogenesis and cell movement, especially via actin cytoskeleton remodeling. The lack of edges does not undermine the thematic link, just the observed interactions.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0031175","count":2}]},{"hash":"2046388941102547828","title":"Immune-Receptor and Neural Signaling","description":"This cluster centers on signaling pathways associated with Fc-epsilon receptor signaling and adaptive immune response, plus Kit signaling; these points to immune receptor\u2013mediated signaling. The presence of terms related to neurotransmitter secretion and long-term synaptic potentiation suggests activity in neuronal synapses as well. Additional terms for regulation of Rho/Ras signaling and blood vessel remodeling indicate broader cellular signaling control, linking immune, neural, and vascular contexts. Overall, the proteins seem to participate in cross-domain signaling networks rather than a single, narrow pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0060313","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0046580","count":3}]},{"hash":"2077268651049512314","title":"Developmental signaling and intracellular transport","description":"Top GO terms point to development (heart development, multicellular organism development) and mitotic processes (mitotic cell cycle, mitotic spindle assembly), alongside vesicle trafficking between ER and Golgi and regulation of signaling enzymes, suggesting a broad theme of developmental signaling coupled with intracellular transport and cell division rather than a single, tight function.","confidence":"Low","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0007507","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1588973725153413693","title":"Chromosome organization, meiosis, and transcription regulation","description":"This cluster centers on nuclear processes: DNA-templated transcription and its negative regulation, CENP-A\u2013containing chromatin assembly, homologous chromosome pairing at meiosis, and general cell division, plus microtubule severing. These terms together suggest chromosome dynamics and regulation during meiosis and cell division, with transcriptional control as an associated layer. Some other terms (ERAD pathway, ER-to-Golgi transport) may reflect broader proteostasis rather than core chromosomal functions, but the dominant signal is chromatin organization and chromosome segregation.","confidence":"Medium","size":20,"edges":164,"triangles":747,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0046677","count":4},{"id":"GO:0045892","count":4},{"id":"GO:0051013","count":3},{"id":"GO:0030433","count":3}]},{"hash":"1163035652574326631","title":"Innate antiviral signaling and ubiquitination","description":"The top GO terms center on innate immunity (innate immune response, defense response to virus) and ubiquitin-mediated signaling (K63-linked ubiquitination, NF-kappaB regulation), suggesting these proteins form a cohort involved in antiviral signaling pathways where ubiquitination modulates NF-kB activity. While a few terms touch on development or vitamin D signaling, the dominant pattern is innate immune response and ubiquitin-dependent signaling. Overall, the cluster most plausibly represents innate antiviral signaling with regulatory ubiquitination machinery.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0060669","count":4},{"id":"GO:1901536","count":4},{"id":"GO:0070534","count":4}]},{"hash":"724885655771294511","title":"MAPK signaling with cytoskeletal remodeling and vesicle trafficking","description":"The cluster is enriched for MAPK-related cascades (JNK/ERK), ephrin receptor signaling, Cdc42 signaling, focal adhesion regulation, pseudopodium assembly, SNARE disassembly, and terms linked to neuronal signaling and behavior (excitatory postsynaptic potential, locomotory exploration). Together these terms point to a cohesive theme of signaling-driven cytoskeletal remodeling and vesicle trafficking, spanning cell movement and synaptic contexts.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0048013","count":4},{"id":"GO:0032488","count":3},{"id":"GO:0051893","count":3}]},{"hash":"1164638707816817597","title":"Transcription Regulation and Chromatin Remodeling","description":"The top GO terms are dominated by transcription-related processes (negative regulation of transcription by RNA polymerase II, transcription elongation, and initiation-coupled chromatin remodeling), pointing to a core function in controlling gene expression at the transcriptional level. While several development-related terms appear (myotome development, anther dehiscence, pollen exine formation), these likely reflect cross-species annotations or broader developmental roles; overall, transcriptional regulation appears to be the guiding theme of this cluster. ","confidence":"Medium","size":20,"edges":17,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0061055","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0006368","count":2},{"id":"GO:0048096","count":2}]},{"hash":"1137151833410411612","title":"Vertebrate neural crest and forebrain development","description":"This cluster centers on neural development and brain patterning, with GO terms for neural crest cell migration, forebrain-midbrain boundary formation, telencephalon regionalization, and glial differentiation. Transcriptional regulation terms are present but secondary. A couple of terms (heart and uterus development) point to broader vertebrate development or noise, but the dominant signal is neural crest/forebrain development.","confidence":"High","size":20,"edges":12,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0009952","count":3},{"id":"GO:0031424","count":3}]},{"hash":"2086977126539487025","title":"Embryonic development and immune signaling","description":"This cluster centers on developmental processes (outflow tract morphogenesis, osteoblast differentiation, segmental identity) and transcriptional regulation, with concurrent immune-related activity (interleukin-4 response, cytokine production, MHC II biosynthesis). The GO terms suggest a module coordinating differentiation and tissue patterning with immune signaling pathways.","confidence":"Medium","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0045669","count":11},{"id":"GO:0003151","count":11},{"id":"GO:0071277","count":10},{"id":"GO:0071353","count":10}]},{"hash":"2260254363001529809","title":"Organ Development and Cardiac/Visual Function","description":"This cluster's top GO terms mainly point to organ development (kidney, heart) and functional aspects like cardiac muscle contraction and visual perception (including opsin signaling). A secondary set touches ion transport (bicarbonate, chloride) and translation, suggesting a theme of organ- or tissue-specific development and physiology rather than a single cellular process.","confidence":"Medium","size":20,"edges":41,"triangles":11,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0001822","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0060048","count":2}]},{"hash":"1153660198642755564","title":"Glycolysis and TCA Cycle","description":"The dominant GO terms describe core carbon metabolism: glycolytic process, glucose metabolic process, the tricarboxylic acid cycle, and regulation of pyruvate decarboxylation to acetyl-CoA, consistent with enzymes that funnel glucose to energy via acetyl-CoA and the TCA cycle. Some terms (thiamine biosynthesis, terpenoid biosynthesis, olfactory bulb development) are peripheral or potential annotation noise, but the main signal is central energy metabolism.","confidence":"High","size":20,"edges":93,"triangles":144,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006006","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0061732","count":2}]},{"hash":"73346083959163277","title":"RNA processing and translation initiation","description":"The proteins in this cluster are dominated by splicing-related processes (alternative splicing via spliceosome, spliceosome regulation, small-subunit processome assembly) and mRNA handling (export, stabilization, and regulation of stability), plus components of translation initiation complex formation, indicating a cohesive role in post-transcriptional RNA processing and initiation of translation.","confidence":"High","size":20,"edges":15,"triangles":2,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000380","count":4},{"id":"GO:0034462","count":3},{"id":"GO:0048255","count":3},{"id":"GO:0097010","count":3},{"id":"GO:0031047","count":3}]},{"hash":"1467721415385775987","title":"Mitochondrial respiration and OXPHOS assembly","description":"The cluster is dominated by GO terms related to mitochondrial energy production: assembly of respiratory chain complexes (IV and II), NADH to ubiquinone electron transport, proton transmembrane transport, and pyruvate import into mitochondria, plus respirasome assembly. While a couple of terms touch on development or insulin secretion, the central theme is mitochondrial oxidative phosphorylation and assembly of its machinery.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0034553","count":1},{"id":"GO:0006120","count":1},{"id":"GO:0007417","count":1},{"id":"GO:1902600","count":1}]},{"hash":"764851587882198897","title":"Multi-tissue organogenesis","description":"These proteins map to developmental processes across many tissues (brain/midbrain, eye, neural crest, tooth/odontogenesis, liver, pancreas, gonads) and include transcriptional regulation, suggesting a broad role in organ formation and tissue patterning rather than a single tissue-specific function. The common theme is developmental regulation across multiple organs. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":6},{"id":"GO:0060021","count":6},{"id":"GO:0043010","count":5},{"id":"GO:0001755","count":5}]},{"hash":"195466562543387363","title":"Organ development and systemic regulation","description":"The terms cluster around organ/tissue development (midbrain, spleen) and growth, with additional signals related to immune defense, coagulation (fibrinogen), and metabolic responses (glucose). This suggests a theme of developmental regulation that is coordinated with systemic physiological processes, rather than a single, focused pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":8},{"id":"GO:0044130","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0048536","count":5}]},{"hash":"1662666760964077155","title":"RNA Methyltransferases","description":"The cluster\u2019s top GO terms include RNA base methylation, tRNA methylation, and general methylation, pointing to enzymes that modify RNA via methyl groups. While some biosynthetic processes (lipids and cofactors) appear, the RNA methylation signals are the strongest unifying theme across the set.","confidence":"High","size":20,"edges":183,"triangles":1018,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0070475","count":2},{"id":"GO:0006656","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0032259","count":2}]},{"hash":"276685670889346106","title":"RNA Processing and RNAi Machinery","description":"This cluster is dominated by RNA-centric processes: translation, primary miRNA processing, siRNA processing, miRNA regulation, and rRNA processing, pointing to RNA maturation and post-transcriptional gene silencing pathways. Additional terms reference RNA-based antiviral responses and RNA metabolism, supporting a cohesive theme around RNA processing and RNA interference machinery, with a few outliers likely reflecting broader regulatory contexts in the species studied.","confidence":"Medium","size":20,"edges":186,"triangles":1072,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0045433","count":7},{"id":"GO:0090502","count":7},{"id":"GO:2000628","count":7},{"id":"GO:0009047","count":7}]},{"hash":"1879384207309527070","title":"Neural Development and Migration","description":"The cluster is dominated by neural development terms: lateral motor column neuron migration, peripheral nervous system neuron axonogenesis, and ectoderm formation, with supporting roles for cell-matrix adhesion and NFAT signaling. Although there are some non-neural terms (platelet aggregation, uterine epithelium development, nephron differentiation), the strongest and most frequent signals point to neural development and neuronal migration as the core theme.","confidence":"Medium","size":20,"edges":89,"triangles":186,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0097477","count":18},{"id":"GO:0070527","count":18},{"id":"GO:0010735","count":16},{"id":"GO:2000768","count":16},{"id":"GO:0001705","count":16}]},{"hash":"89076206426652066","title":"Placental Development and Vascularization","description":"The top GO terms cluster around embryo implantation, placental branching morphogenesis, and blood vessel maturation, with hypoxia response and coagulation also appearing, which together point to placental development and vascular remodeling. Some terms like spermatogenesis, osteoclast regulation, neuronal synaptic plasticity, and immune activation are less directly connected and may reflect broader multifunctional proteins or annotation noise, but the dominant signal supports a placental development theme. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045671","count":3},{"id":"GO:0007566","count":3},{"id":"GO:0001955","count":2},{"id":"GO:0001970","count":2},{"id":"GO:0007596","count":2}]},{"hash":"888785946280760368","title":"RNA Methylation and Capping Cluster","description":"The dominant GO terms center on RNA processing and modification\u2014guanine-N7 methylation, 7-methylguanosine mRNA capping, and tRNA wobble uridine modification\u2014indicating core RNA modification activities; other terms reflect broader metabolic or stress-related contexts but are secondary to the RNA-modification theme.","confidence":"High","size":20,"edges":24,"triangles":10,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0036265","count":5},{"id":"GO:0006370","count":5},{"id":"GO:0006596","count":4},{"id":"GO:0042220","count":4},{"id":"GO:0017000","count":4}]},{"hash":"850853405501207014","title":"Mitosis and cell-cycle regulation","description":"Top terms are strongly enriched for mitotic processes (mitotic cell cycle, cell division, APC-dependent catabolic process, chromatid cohesion), suggesting the cluster centers on mitosis-related machinery. Some terms about photoreceptor morphogenesis and myelination appear but likely reflect ancillary or pleiotropic annotations rather than core function. Overall, the dominant theme is cell-cycle regulation during mitosis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0051301","count":4},{"id":"GO:2001162","count":4},{"id":"GO:0031145","count":4},{"id":"GO:0035845","count":3}]},{"hash":"917591673055384535","title":"Epidermal Differentiation and ECM-Integrin Signaling","description":"The GO terms center on keratinocyte differentiation, Notch receptor processing, integrin-mediated adhesion and signaling, and collagen fibril organization, all of which point to epidermal development and extracellular matrix interactions. VEGF signaling and TNF response further suggest skin-related vascularization and inflammatory contexts, supporting a cohesive theme of epidermal differentiation coupled with ECM remodeling and cell\u2013matrix signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030216","count":7},{"id":"GO:0034612","count":7},{"id":"GO:0055114","count":7},{"id":"GO:0033631","count":7},{"id":"GO:0007220","count":7}]},{"hash":"1178006776990281353","title":"Genome Expression and Chromatin Maintenance in Development","description":"The top GO terms point to core processes of transcription and chromatin regulation (DNA-templated transcription, chromatin organization, sister chromatid cohesion, DNA repair) with additional signals of ribosome biogenesis and several developmental differentiation programs (seminiferous tubule, lens, skeletal development) and growth hormone response. This suggests a cluster centered on genome expression control and chromatin maintenance that supports developmental differentiation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0007064","count":5},{"id":"GO:0072520","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0001501","count":5}]},{"hash":"191615209670742476","title":"Nuclear RNA Processing and Ubiquitin-Regulated Protein Turnover","description":"This cluster's top GO terms cluster around nuclear RNA processing (capping, splicing, export) and ubiquitin-proteasome\u2013mediated protein degradation (including autoubiquitination), suggesting a theme of gene expression regulation and protein quality control in the nucleus; developmental and immune terms appear as less dominant outliers.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006370","count":2},{"id":"GO:0008380","count":2},{"id":"GO:0046827","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0014047","count":2}]},{"hash":"476780166808514938","title":"Ubiquitin-mediated immune signaling","description":"This cluster is dominated by ubiquitination-related terms (ubiquitin-dependent protein catabolic process, autoubiquitination, K63- and K6-linked ubiquitination) alongside immune system terms (innate immune response, TNF signaling, B cell receptor signaling, type 2 immune response). The strongest common thread appears to be ubiquitin-regulated signaling pathways in immune responses, including B cell and TNF pathways, with histone ubiquitination suggesting chromatin involvement as a secondary facet.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0051865","count":8},{"id":"GO:0070534","count":7},{"id":"GO:1903265","count":7},{"id":"GO:0085020","count":7}]},{"hash":"1427728139033236205","title":"Thymocyte Development and Immune Signaling","description":"The top GO terms cluster around immune system activation and T-cell development (immune response, IL-12 production, immunological synapse formation, DN2 thymocyte differentiation), supported by signaling-related terms (GPCR/EGFR transactivation, arrestin desensitization, apoptotic regulation). This suggests the proteins collectively participate in thymocyte development and immune signaling networks, making this label representative of the cluster\u2019s core function, despite a few outlier terms. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":20},{"id":"GO:1902239","count":20},{"id":"GO:0006955","count":20},{"id":"GO:1904155","count":20},{"id":"GO:0007625","count":20}]},{"hash":"13074691972770289","title":"Rho/Rac GTPase signaling and actin dynamics","description":"Proteins in this cluster are enriched for regulation and activation of Rho family GTPases and for actin cytoskeleton organization, indicating a theme of controlling cytoskeletal dynamics. Additional terms point to Golgi localization and endocytic recycling, consistent with trafficking roles that interface with the actin network. A minority of terms relate to extrinsic apoptotic signaling and osteoclast differentiation, but the dominant signal centers on Rho/Rac-mediated regulation of the cytoskeleton.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0051683","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0051497","count":3}]},{"hash":"2899618914404290","title":"Innate Immune Signaling and Related Pathways","description":"Dominant terms indicate innate immune activity (innate immune response, defense response to virus) and NOD-like signaling, supported by other signaling processes (Wnt signaling, vitamin D response). The presence of spindle assembly and cellular responses to mechanical stimulus suggests broader involvement in signaling and stress-related processes, rather than a single, tightly linked function. Therefore, the cluster appears to capture a set of signaling and immune-related pathways with diverse roles.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":9},{"id":"GO:0016055","count":8},{"id":"GO:0070431","count":8},{"id":"GO:0032088","count":8},{"id":"GO:0048549","count":8}]},{"hash":"1957058928910219100","title":"Neuronal GPCR Pain Signaling with Immune Links","description":"The cluster is dominated by GO terms for sensory perception of pain and neuropeptide signaling, with additional immune-related terms like response to lipopolysaccharide and eosinophil chemotaxis, plus GPCR signaling. This suggests a theme of neuronal signaling via GPCRs connected to immune/inflammatory and metabolic regulation, rather than a single linear pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0007218","count":10},{"id":"GO:0032496","count":10},{"id":"GO:0048245","count":10},{"id":"GO:0002024","count":10}]},{"hash":"1089230325416933876","title":"Cardiac morphogenesis and cell-adhesion signaling","description":"The cluster\u2019s top GO terms center on heart development and morphogenesis (ventricular septum development, cardiac right atrium morphogenesis, Notch signaling in heart field) along with adhesion-related processes (cell-matrix and cell-substrate adhesion) and endothelial chemotaxis, suggesting a coordinated role in heart formation and vascular interaction. Some terms like vitamin D response and osteoblast differentiation appear as secondary associations but do not redefine the core theme. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007160","count":3},{"id":"GO:0010811","count":3},{"id":"GO:0003270","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0035767","count":3}]},{"hash":"549725022751930733","title":"GPCR-cAMP Signaling for Blood Pressure and Thermogenesis","description":"Most prominent terms are GPCR signaling that activates adenylate cyclase and cAMP pathways, linked to positive regulation of blood pressure, diet-induced thermogenesis, and temperature-responsive processes. The presence of energy metabolism and Rho signaling suggests broader signaling coordination, but the core thread is GPCR-cAMP\u2013mediated regulation of cardiovascular and thermogenic/metabolic responses.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":13},{"id":"GO:0010579","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0002024","count":12},{"id":"GO:0019233","count":12}]},{"hash":"513346719512238761","title":"Cardiometabolic signaling and thermogenesis","description":"The cluster prominently features GO terms tied to thermogenesis and energy metabolism (diet-induced thermogenesis, electron transport chain, regulation of membrane potential) alongside cardiovascular-related processes (positive regulation of blood pressure, heart development) and GPCR-AC signaling (adenylate cyclase activation). This suggests a coherent theme around how metabolic energy state is integrated with cardiovascular signaling and heart function, with signaling pathways (GPCR, Rho) and membrane potential playing central roles. While there is some diversity (e.g., pain perception), the dominant pattern centers on cardiometabolic signaling and energy regulation.","confidence":"High","size":19,"edges":7,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0071502","count":12}]},{"hash":"1123351804496543659","title":"Dopaminergic GPCR signaling and neural regulation","description":"The cluster is enriched for dopamine receptor signaling pathways that activate phospholipase C and adenylate cyclase (GPCR signaling), along with neural processes like pain perception, morphine response, and learning, plus autonomic/physiological functions such as blood pressure and thermogenesis. Together these terms point to a cohesive theme of neural GPCR-mediated signaling influencing pain, learning, and physiological regulation, even though some terms reflect broader systemic roles.","confidence":"Medium","size":19,"edges":20,"triangles":2,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0002024","count":16},{"id":"GO:0007507","count":16},{"id":"GO:0071502","count":16},{"id":"GO:0008542","count":15}]},{"hash":"1648232886325655730","title":"Neuronal ion transport and synaptic signaling","description":"The terms point to ion transmembrane transport (K+, Na+, Ca2+), membrane depolarization, and GABA signaling, all key to neuronal excitability and synaptic transmission. Coupled with excitatory postsynaptic potential and behavioral terms like startle, locomotion, and conditioned taste aversion, the cluster reflects neural circuits governing movement, learning, and rhythmic regulation, anchored by ion-channel\u2013mediated signaling.","confidence":"High","size":19,"edges":107,"triangles":280,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":15},{"id":"GO:0035725","count":14},{"id":"GO:0060079","count":13},{"id":"GO:0098703","count":12},{"id":"GO:0001964","count":12}]},{"hash":"803921934083641765","title":"Multi-tissue developmental and immune signaling","description":"The terms span neural and organ development (nervous system, kidney, dendrite self-avoidance) and diverse signaling axes (Roundabout, Smoothened, T cell receptor, IL-27, Th2 cytokines, STAT). This suggests a cross-tissue signaling cluster centered on developmental and immune signal transduction rather than a single pathway.","confidence":"Medium","size":19,"edges":155,"triangles":733,"max_degree":18,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035385","count":9},{"id":"GO:0007224","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0001822","count":9}]},{"hash":"740368528660540342","title":"Stress Response and Immune Signaling","description":"The cluster shows enrichment for temperature- and osmotic-stress related terms, signaling regulation (GTPase activity), immune response, and even behavioral terms (grooming). This points to a broad theme of stress-activated signaling pathways that integrate immune and nervous system outputs, rather than a single precise function, so a label capturing stress response and immune signaling seems most representative.","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0042391","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0071502","count":11}]},{"hash":"710908076271736420","title":"GPCR-Driven Thermogenesis and Metabolic Signaling","description":"This cluster centers on GPCR-mediated signaling (adenylate cyclase activation) linked to temperature-related responses and diet-induced thermogenesis, with supporting links to energy metabolism (electron transport chain) and systemic regulation (blood pressure, IL-8). The dominant theme is GPCR-driven metabolic and thermogenic signaling, with related stress/inflammatory cues.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":15},{"id":"GO:0045777","count":15},{"id":"GO:0010579","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0071502","count":15}]},{"hash":"1143938388105840586","title":"Developmental Morphogenesis and Signaling","description":"This cluster centers on tissue morphogenesis and associated signaling processes, as evidenced by terms for bone development, axonogenesis, otolith morphogenesis, and renal tubule morphogenesis, together with signaling pathways like RTK signaling and modulation of protein kinase activity. While innate immune signaling (TLR pathways) is also present, the common thread appears to be developmentally focused signaling and morphogenetic processes across tissues. ","confidence":"Medium","size":19,"edges":9,"triangles":2,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":17},{"id":"GO:0060348","count":12},{"id":"GO:0007409","count":11},{"id":"GO:0019800","count":11},{"id":"GO:0016525","count":11}]},{"hash":"580737487957392493","title":"Planar cell polarity and morphogenesis","description":"The top GO terms cluster around planar cell polarity (establishment of planar polarity, planar orientation) and morphogenesis processes (lung branching, palatal shelf morphogenesis), with supporting roles for integrin-mediated cell adhesion and axon guidance, indicating a cohesive PCP/morphogenesis module across tissues.","confidence":"High","size":19,"edges":74,"triangles":97,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":14},{"id":"GO:1990134","count":12},{"id":"GO:0090251","count":12},{"id":"GO:0060489","count":12},{"id":"GO:0048105","count":12}]},{"hash":"1779174380479149179","title":"Immune Regulation and Cytotoxic Signaling","description":"The proteins cluster around immune system modulation, including NK cell susceptibility, negative regulation of T cell activation, IFN-\u03b3 production, Fc-epsilon receptor signaling, and tolerance induction. These terms point to coordinated regulation of cytotoxic and helper immune responses, particularly T cells and NK cells, with cytokine signaling as a core thread. A few terms like lens morphogenesis or heart rate regulation appear as potential annotation noise but do not change the dominant immune theme.","confidence":"Medium","size":19,"edges":63,"triangles":78,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042271","count":19},{"id":"GO:0045590","count":19},{"id":"GO:0046007","count":19},{"id":"GO:0072643","count":19},{"id":"GO:0086091","count":19}]},{"hash":"323510059724426486","title":"Kinetochore Localization and Mitotic Spindle Checkpoint","description":"The top GO terms are strongly skewed toward mitosis and chromosome segregation, including protein localization to the kinetochore, chromosome passenger complex localization to the spindle midzone, and mitotic cytokinesis checkpoint signaling. Dephosphorylation terms for tyrosine/threonine residues and signaling regulation also support regulation by phosphatases during mitosis. A few terms appear unrelated (neuronal/immune), but the dominant pattern points to mitotic machinery.","confidence":"High","size":19,"edges":164,"triangles":860,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034501","count":19},{"id":"GO:0035335","count":16},{"id":"GO:0039563","count":16},{"id":"GO:0044878","count":16},{"id":"GO:0035853","count":16}]},{"hash":"790917251255170827","title":"Circadian Transcriptional Regulation","description":"The top GO terms center on DNA-templated transcription and circadian regulation, including positive circadian rhythm regulation, indicating a module of circadian control of gene expression; hypoxia-related signaling and metabolic terms may reflect broader regulatory cross-talk but do not override the dominant circadian transcription theme.","confidence":"High","size":19,"edges":161,"triangles":824,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":17},{"id":"GO:0032922","count":16},{"id":"GO:0042753","count":15},{"id":"GO:0061419","count":14},{"id":"GO:0097411","count":14}]},{"hash":"480491251269415086","title":"Immune and Developmental Signaling","description":"The proteins are linked to immune signaling (LPS response, TH1-type immunity) and broad developmental processes (nervous system development, cartilage condensation, lymph vessel morphogenesis) with shared signaling pathways (ERK cascade, phosphatidylinositol signaling) and mechanotransduction. This suggests a general theme of signaling pathways coordinating immune responses and tissue development in vertebrates, rather than a single narrow function. ","confidence":"Medium","size":19,"edges":52,"triangles":27,"max_degree":9,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071222","count":5},{"id":"GO:0035751","count":4},{"id":"GO:0043524","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0070374","count":4}]},{"hash":"1332291803354421145","title":"Regulators of Signaling and Immune Cell Migration","description":"The terms point to broad modulation of signaling pathways (Rho, Ras, GABAergic transmission) and processes related to cell movement and immune cell activity (neutrophil chemotaxis, extravasation, degranulation), along with a couple developmental processes (eye morphogenesis, acrosome reaction). This suggests the cluster comprises proteins that act as negative regulators of signaling and cellular trafficking/migration, spanning immune and developmental contexts. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060313","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0030593","count":3},{"id":"GO:0048593","count":3},{"id":"GO:0002692","count":3}]},{"hash":"1427352854936315690","title":"Neural ion channels and synaptic signaling","description":"The cluster centers on ion transport (sodium/potassium channels) and synaptic transmission (GABA signaling and excitatory postsynaptic potentials), with links to sensory processing (sound perception, mechanical stimulus detection) and related behaviors (locomotion, conditioned taste aversion). This points to a cohesive theme of neuronal signaling and sensory processing. ","confidence":"High","size":19,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":9},{"id":"GO:0060079","count":9},{"id":"GO:0035725","count":9},{"id":"GO:0001661","count":9},{"id":"GO:0007214","count":9}]},{"hash":"322084044272962510","title":"Developmental Transcription and Differentiation","description":"This cluster centers on transcriptional regulation (RNA polymerase II transcription, DNA-templated transcription) and several development and differentiation processes (pituitary gland development, embryonic placenta development, macrophage and myoblast differentiation, vascular wound healing). The combination suggests a group of proteins involved in coordinating transcription during developmental programs and tissue differentiation.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":8},{"id":"GO:0006366","count":8},{"id":"GO:0006351","count":7},{"id":"GO:0006990","count":7},{"id":"GO:1990440","count":7}]},{"hash":"1979215069199145340","title":"Embryonic and organ morphogenesis","description":"The top terms point to diverse developmental and morphogenetic processes across multiple vertebrate organs (heart, eye, hindlimb, habenula, placenta, gonads), with DNA-templated transcription supporting these programs. This suggests proteins in the cluster are collectively involved in broad embryonic organogenesis and tissue morphogenesis rather than a single pathway or tissue-specific function.","confidence":"Medium","size":19,"edges":6,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:0001890","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0060527","count":10},{"id":"GO:2000288","count":10}]},{"hash":"2211554873406370344","title":"Neural development and neuron fate specification","description":"The top terms predominantly describe nervous system development and cell fate specification across spinal cord (motor neurons, oligodendrocytes, GABAergic interneurons) and forebrain regions, suggesting a coherent neural differentiation program. Other development terms (bronchiole, skeletal muscle, endocrine pancreas) appear as broader developmental contexts, but do not override the neural focus. Confidence: High","confidence":"","size":19,"edges":166,"triangles":890,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:0031018","count":13},{"id":"GO:0021520","count":12},{"id":"GO:0021530","count":12},{"id":"GO:0021892","count":12}]},{"hash":"726051380172647249","title":"Septin-Driven Cytokinesis and Vesicle Trafficking","description":"The top GO terms point to a core theme of cell division and cytokinesis, with strong signals for mitotic cell cycle, cell division, septin ring assembly, and protein localization to the bud neck, suggesting septin- and cytoskeleton-driven processes. Regulation of exocytosis and cell differentiation add a trafficking and morphogenesis aspect, while oxidative stress terms may reflect general cellular maintenance during rapid division. Overall, this cluster seems best described by septin-mediated cytokinesis and vesicle trafficking.","confidence":"Medium","size":19,"edges":19,"triangles":1,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031175","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0098869","count":6},{"id":"GO:0045454","count":6},{"id":"GO:0097271","count":6}]},{"hash":"1156206504921908097","title":"Hepatic steroid and xenobiotic metabolism","description":"The GO terms cluster around steroid metabolism (testosterone biosynthesis, androgen metabolic process), vitamin D and fatty acid oxidation, and xenobiotic/dioxin catabolic pathways, all characteristic of liver detoxification and metabolic functions, with hepatocyte differentiation appearing as a supporting liver context.","confidence":"High","size":19,"edges":8,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061370","count":9},{"id":"GO:0008209","count":9},{"id":"GO:0042369","count":8},{"id":"GO:0010430","count":8},{"id":"GO:0070365","count":8}]},{"hash":"2014510595383054233","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":101,"triangles":242,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007183","count":12},{"id":"GO:0007179","count":12},{"id":"GO:0006351","count":9},{"id":"GO:0006939","count":8},{"id":"GO:0048680","count":8}]},{"hash":"1358544364474526332","title":"Golgi-to-plasma membrane trafficking and cell adhesion","description":"The GO terms point strongly to transport from the Golgi to the plasma membrane, exocytosis regulation, and adherens junction organization, indicating a membrane trafficking and cell-adhesion core. Some terms (e.g., prospore assembly, nuclear envelope organization, Roundabout signaling) are peripheral but do not negate the central theme of vesicle trafficking to the membrane and junction maintenance.","confidence":"Medium","size":19,"edges":22,"triangles":8,"max_degree":12,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0015031","count":4},{"id":"GO:0034332","count":4},{"id":"GO:0045956","count":4},{"id":"GO:1903078","count":4},{"id":"GO:0035264","count":4}]},{"hash":"1641415907821475613","title":"RNA splicing and translation initiation machinery","description":"The cluster concentrates on post-transcriptional RNA processing and translation initiation, with strong representation of mRNA splicing (spliceosome, small-subunit processome, alternative splicing regulation), mRNA export and stabilization, and assembly of translation initiation machinery (eIF4F complex, preinitiation complex). This points to a cohesive group coordinating mRNA maturation and the start of translation, including stress-related regulation.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":17},{"id":"GO:0006378","count":15},{"id":"GO:0045292","count":15},{"id":"GO:0034462","count":13},{"id":"GO:0048255","count":13}]},{"hash":"2221235375423358657","title":"B cell receptor and integrin signaling cluster","description":"This cluster centers on immune cell signaling, especially B cell activation and adhesion. It links integrin-mediated signaling, B cell receptor signaling, and pathways regulating Rho/Ras and PI3K signaling, together with phagocytosis regulation and collagen receptor signaling, suggesting a network of immune signaling and cytoskeletal dynamics.","confidence":"High","size":19,"edges":8,"triangles":2,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007229","count":14},{"id":"GO:0035023","count":13},{"id":"GO:0046580","count":13},{"id":"GO:0050861","count":12},{"id":"GO:0032959","count":12}]},{"hash":"748665616572478166","title":"Microtubule dynamics and vesicle trafficking","description":"The cluster emphasizes microtubule-based movement, mitotic spindle assembly, and GTPase-regulated signaling, with retrograde Golgi-to-ER transport pointing to coordinated cytoskeletal dynamics driving intracellular trafficking; other terms appear less central.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0007018","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0006890","count":2}]},{"hash":"836924551025340744","title":"Cytoskeleton dynamics and neuronal projection development","description":"The top GO terms point strongly to actin cytoskeleton remodeling (lamellipodium assembly, barbed-end capping, positive regulation of Arp2/3-mediated nucleation) and microtubule-based processes (microtubule movement, mitotic spindle assembly). The inclusion of neuron projection and spinal cord development suggests roles in neurite outgrowth and neural development, with TORC2 signaling and Ras regulation providing upstream regulatory context. Taken together, the cluster appears to group proteins involved in cytoskeletal dynamics that drive neuronal projection development.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":3},{"id":"GO:0038203","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0007018","count":2}]},{"hash":"1254355605903711635","title":"ER stress and calcium signaling in cell fate","description":"This cluster centers on stress responses, with PERK mediated unfolded protein response and calcium signaling as core themes, linked to apoptosis and transcriptional regulation. The inclusion of differentiation and immune-related terms likely reflects downstream programs activated by stress or shared signaling pathways, but the overarching pattern is ER stress\u2013driven signaling that influences cell fate decisions.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0045669","count":7},{"id":"GO:0045348","count":7},{"id":"GO:0035470","count":7},{"id":"GO:0071277","count":7}]},{"hash":"1477565363786798781","title":"Immune recognition, adhesion, and T cell regulation","description":"This cluster centers on immune recognition and signaling, with GO terms for phagocytosis recognition, innate and adaptive immune responses, and both heterophilic/homophilic cell\u2013cell adhesion, plus modulation of T cell activity (IL-2 production, negative regulation of activated T cell proliferation). An outlier term about atrial cardiac muscle cell action potential is present but immune-related terms predominate.","confidence":"High","size":19,"edges":11,"triangles":0,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006910","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0046007","count":6},{"id":"GO:0002250","count":6},{"id":"GO:0007156","count":6}]},{"hash":"790349914505256222","title":"Intracellular trafficking and lipid metabolism","description":"Explanation: The prominent GO terms cluster around intracellular trafficking (ER-Golgi transport, ER organization, mitochondrial protein import, nuclear envelope organization) and lipid metabolism (lipid transport, lipoprotein metabolic process), with brain development and endothelial activation suggesting neural/vascular contexts that rely on these processes. The core theme is intracellular trafficking coupled with lipid handling.","confidence":"Medium","size":19,"edges":28,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":4},{"id":"GO:0030150","count":4},{"id":"GO:0042118","count":4},{"id":"GO:0042157","count":4},{"id":"GO:0006869","count":4}]},{"hash":"1164472204617401297","title":"Insect neural signaling and circadian metabolism","description":"The terms cluster around calcium-mediated neuronal signaling, neurotransmitter biosynthesis (dopamine, histamine, glutamate), circadian rhythm, and related metabolic processes, including insect-specific traits like cuticle pigmentation. This pattern suggests a cohesive group of proteins involved in insect neural signaling and metabolic regulation, particularly under circadian control.","confidence":"Medium","size":19,"edges":21,"triangles":8,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048085","count":4},{"id":"GO:0007615","count":4},{"id":"GO:0019722","count":4},{"id":"GO:0006538","count":4},{"id":"GO:0033076","count":4}]},{"hash":"2040101297112442725","title":"Forebrain development and neural patterning","description":"The terms center on forebrain formation, telencephalon regionalization, neural crest migration, and glial differentiation, indicating a core function in brain development and neural patterning; a few non-neural morphogenesis terms are present but do not outweigh the neural theme.","confidence":"Medium","size":19,"edges":23,"triangles":10,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0021905","count":19},{"id":"GO:0010001","count":19},{"id":"GO:0021882","count":19},{"id":"GO:0001755","count":19},{"id":"GO:0021978","count":19}]},{"hash":"1870828661022239171","title":"Embryonic Development and Lymphocyte Differentiation","description":"The top GO terms cluster around embryogenesis (in utero embryonic development, somitogenesis) and immune cell lineage processes (pre-B cell differentiation, regulation of T cell proliferation, IgE isotype switching, IL-6 production). This suggests the proteins are involved in early development and immune system differentiation, with some neural/developmental behavioral terms also appearing, but the core signal is embryonic development coupled with lymphocyte differentiation.","confidence":"Medium","size":19,"edges":132,"triangles":544,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":19},{"id":"GO:0033092","count":19},{"id":"GO:0010688","count":18},{"id":"GO:0045409","count":18},{"id":"GO:0002329","count":18}]},{"hash":"1717933391881819880","title":"Neural development and synaptic plasticity","description":"Most frequent terms center on neural development and synaptic function: axonogenesis, long-term potentiation, excitatory postsynaptic potential, Schwann cell development, and related transcriptional regulation. Additional terms reflect broader developmental processes and stress responses, but the dominant pattern is neuronal development and synaptic plasticity.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0007275","count":7},{"id":"GO:0007409","count":6},{"id":"GO:0035690","count":5},{"id":"GO:0060079","count":5}]},{"hash":"463614935216803746","title":"Deubiquitination and kinase signaling regulators","description":"The top GO terms emphasize protein deubiquitination (K6- and K29-linked) and regulation of kinase activity (serine/threonine kinase activity, protein autophosphorylation) as well as GTPase activity, pointing to a cluster of proteins involved in ubiquitin-related modification and modulation of signaling pathways. Some terms (e.g., certain histone methylations and ERAD-related items) are dated/obsolete, but the repeated theme centers on ubiquitin processing and signaling regulation rather than a single, cohesive process. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0044313","count":4},{"id":"GO:1904378","count":4},{"id":"GO:0051568","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0035523","count":4}]},{"hash":"1307767272330684801","title":"Vascular coagulation, complement activation, and ECM remodeling","description":"This cluster centers on vascular-related processes: coagulation, complement activation (classical and lectin), fibrinolysis regulation, endothelial barrier establishment, and ECM remodeling (collagen/elastin catabolism, fibrinogen regulation). The combination of these terms suggests a cohesive module involved in vascular inflammation and tissue remodeling.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0006958","count":10},{"id":"GO:0001867","count":10},{"id":"GO:1903142","count":10},{"id":"GO:0007596","count":10}]},{"hash":"1476642218906504573","title":"Pol II Transcription Regulators with Immune/Coagulation Roles","description":"The cluster is dominated by GO terms for transcriptional regulation by RNA polymerase II (both negative and positive), suggesting a core theme of transcriptional control. The presence of immune-related and coagulation-related terms (defense response to Gram-positive bacteria, response to lipopolysaccharide, complement activation, blood coagulation, and fibrinogen regulation) indicates these transcription regulators may influence immune and hemostatic pathways, with some developmental associations. Overall, a cohesive label is a set of Pol II transcription regulators involved in immunity and coagulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0045944","count":8},{"id":"GO:0044130","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0006958","count":7}]},{"hash":"1781755996815186962","title":"Kidney and heart organogenesis","description":"This cluster combines GO terms related to developmental signaling, cell behavior, and organ-specific morphogenesis, notably renal development (nephrogenesis, EMT) and cardiac muscle development, with regulators like Wnt signaling, GTPase activity, apoptosis, and nuclear import. The collective emphasis appears to be on organogenesis across tissues, with kidney and heart being the most clearly represented areas. Confidence is Medium.","confidence":"Medium","size":19,"edges":102,"triangles":279,"max_degree":18,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":11},{"id":"GO:0008285","count":11},{"id":"GO:0090090","count":11},{"id":"GO:0043065","count":11},{"id":"GO:0006607","count":11}]},{"hash":"2133759966674258285","title":"mRNA processing and translation initiation","description":"This cluster centers on multiple stages of mRNA maturation and handling (polyadenylation, spliceosome-mediated splicing, small-subunit processome assembly, mRNA export, and mRNA stabilization) and the assembly of translation initiation machinery (preinitiation complex, eIF4F complex). The presence of regulatory ncRNA-mediated silencing and stress-responsive mRNA stability further supports a coordinated module linking RNA processing/export to translation readiness. This cohesive theme justifies a label focused on RNA processing coupled to translation initiation.","confidence":"High","size":19,"edges":61,"triangles":147,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":8},{"id":"GO:0045292","count":8},{"id":"GO:0034462","count":7},{"id":"GO:0048255","count":7},{"id":"GO:0097010","count":7}]},{"hash":"805276780813202818","title":"Muscle proteostasis and sarcomere maintenance","description":"The cluster includes terms for sarcomere organization and cytoplasmic translation, as well as ubiquitin-dependent protein degradation and deubiquitination, suggesting a focus on protein synthesis and turnover that supports muscle structure and proteostasis. The inclusion of apoptosis regulation also aligns with cell viability in muscle contexts, though the signals are not exclusively muscle-specific, so the label is plausible but not definitive.","confidence":"Medium","size":19,"edges":35,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0042981","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0016579","count":2}]},{"hash":"1194886243344392192","title":"Chromatin Regulation and Plant Hormone Responses","description":"The cluster shows enrichment for chromatin-related processes (histone deacetylation, heterochromatin formation, deubiquitination) alongside plant hormone responses (gibberellin, salicylic acid, jasmonic acid) and osmotic stress, suggesting proteins involved in epigenetic control linked to stress and development signaling in plants. Some GO terms are deprecated, but the overall theme is epigenetic regulation connected to hormone signaling.","confidence":"Medium","size":19,"edges":23,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:1902499","count":2},{"id":"GO:0060137","count":2},{"id":"GO:0035522","count":2},{"id":"GO:0009739","count":2},{"id":"GO:0006970","count":2}]},{"hash":"868709782941088565","title":"Immune signaling and lymphocyte development","description":"The top GO terms are dominated by immune-related functions (immune response; DN2 thymocyte differentiation; IL-12 production; immunological synapse formation), indicating a cluster centered on immune activation and T cell development. A few terms like circadian sleep/wake cycle and grooming behavior are peripheral or reflect broader neuro-immune connections, but do not overshadow the core immune theme. The lack of edges suggests diverse roles within this broad immune-related set rather than a single tight activity.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":19},{"id":"GO:1902239","count":19},{"id":"GO:0006955","count":19},{"id":"GO:1904155","count":19},{"id":"GO:0007625","count":19}]},{"hash":"1801660430474774084","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000083","count":2},{"id":"GO:0006364","count":2}]},{"hash":"758436895216723064","title":"T cell Activation and Innate Immunity","description":"This cluster is dominated by GO terms for T cell regulation (proliferation, costimulation, IL-2 production) and innate antibacterial defense (innate immune response, defense against bacteria, NK susceptibility, complement activation), indicating a cohesive theme around immune activation. A couple of terms (ion transport, cardiac action potential) are outliers but do not override the core immune signal.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042102","count":6},{"id":"GO:2000649","count":6},{"id":"GO:0031295","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0042742","count":6}]},{"hash":"2032062965922265489","title":"Protein N-terminal acetylation and related acetylation processes","description":"The top GO terms are dominated by several N-terminal peptidyl acetylation events (for serine, glutamic acid, methionine) and related acetylation activities (spermine acetylation, N-acetylglucosamine metabolism), suggesting a cohesive theme centered on acetylation modifications and acetyltransferase function, possibly linked to chromatin regulation via acetylation. ","confidence":"High","size":19,"edges":168,"triangles":921,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":15},{"id":"GO:0060358","count":15},{"id":"GO:0018002","count":15},{"id":"GO:0006041","count":15},{"id":"GO:0032919","count":15}]},{"hash":"162547370067820299","title":"Unknown","description":"Top terms span diverse regulatory and signaling processes (cellular response to cAMP; phosphatidylinositol dephosphorylation), mRNA stability regulation, metabolism, and physiology, with some obsolete annotations. There is no clear, single shared function tying these proteins together, so a specific cohesive label is not apparent.","confidence":"","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0014912","count":4},{"id":"GO:2000466","count":4},{"id":"GO:0090502","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0044179","count":4}]},{"hash":"1044765079223937941","title":"ECM remodeling and vascular development","description":"The cluster centers on extracellular matrix (ECM) remodeling terms (collagen catabolic process, extracellular matrix disassembly) and vascular-related terms (positive regulation of angiogenesis, establishment of endothelial barrier), suggesting a cohesive function in ECM remodeling to support blood vessel formation and barrier integrity. Additional developmental terms (placental and trophoblast differentiation) indicate broader roles in tissue development, while the transcriptional regulation term is less tied to the core theme. Overall, ECM remodeling coupled with vascular development best explains the top terms.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0006958","count":4},{"id":"GO:0030574","count":4},{"id":"GO:0022617","count":4},{"id":"GO:1903142","count":4}]},{"hash":"689352672965243527","title":"Lipid signaling and secondary metabolism","description":"This cluster centers on metabolism of lipid-derived signals (endocannabinoid regulation, prostaglandin and triglyceride catabolism, phospholipid dephosphorylation) alongside secondary metabolite processes (alkaloid and antibiotic biosynthesis) and detoxification, suggesting a broad theme of small-molecule metabolism and lipid signaling rather than a single focused pathway. The presence of several catabolic and detox terms supports a metabolic/maintenance role, but the diversity and lack of network connectivity indicate a heterogeneous set. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":10},{"id":"GO:0098869","count":9},{"id":"GO:2000124","count":8},{"id":"GO:0019433","count":8},{"id":"GO:1905344","count":8}]},{"hash":"2199393217722973791","title":"Calcium-Driven Neuroimmune Signaling","description":"Top GO terms show calcium release into cytosol as a core event, accompanied by immune response, neural/behavioral processes (grooming behavior, morphine response), circadian rhythm, and cytokine production (IL-12). This pattern suggests a cluster whose proteins participate in calcium-dependent signaling that links neural activity with immune function and daily rhythms, rather than a single classical pathway. Some terms are obsolete or broad, but the recurring theme is calcium-mediated signaling modulating neuroimmune and behavioral processes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":16},{"id":"GO:0043278","count":15},{"id":"GO:0035625","count":15},{"id":"GO:1902239","count":14},{"id":"GO:0006955","count":14}]},{"hash":"772653956971731637","title":"ER-Golgi protein processing and trafficking","description":"These proteins show enrichment for ER-Golgi transport and quality-control processes (retrograde Golgi-to-ER transport, protein retention in Golgi, unfolded protein response) along with proteasome assembly and related processing steps, suggesting a cohesive cluster centered on intracellular protein maturation and trafficking rather than extracellular signaling. A few other terms (e.g., signaling and RNA processing) may reflect broader cellular roles, but the dominant theme is ER-Golgi handling and quality control.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0007223","count":3},{"id":"GO:0070682","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0016049","count":3}]},{"hash":"893293611443660546","title":"Rho-actin signaling and innate immune response","description":"This cluster centers on actin cytoskeleton organization and Rho signaling, with immune-related terms like innate immune response and TNF production, and connects to stress-induced apoptosis. The combination suggests a theme where cytoskeletal dynamics interface with immune signaling and cellular stress responses.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902231","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0019933","count":3},{"id":"GO:1900477","count":3}]},{"hash":"1507213329679682739","title":"Immune response and thymocyte differentiation","description":"The top GO terms highlight immune system processes, including immune response and interleukin-12 production, along with thymocyte differentiation (DN2). Although there are some terms related to circadian rhythms and behavior, the strongest and most cohesive signal is immune activation and T-cell lineage development, suggesting these proteins function in immune signaling and thymocyte maturation.","confidence":"Medium","size":18,"edges":111,"triangles":316,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":15},{"id":"GO:1902239","count":15},{"id":"GO:0006955","count":15},{"id":"GO:1904155","count":15},{"id":"GO:0007625","count":15}]},{"hash":"1138384149830356183","title":"Thermal stress response and immune signaling","description":"The top GO terms cluster around temperature-related processes (diet induced thermogenesis; cellular response to temperature stimulus; sensory perception of pain), suggesting a shared theme of thermal stress response. Immune-related terms (immune response; interleukin-12 production) and associated processes (circadian sleep/wake cycle; grooming behavior; thymocyte differentiation) imply that this cluster integrates immune signaling and behavioral responses with temperature stress. Overall, the proteins likely participate in coordinated thermal stress responses that link immune and behavioral regulation.","confidence":"Medium","size":18,"edges":21,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0071502","count":15},{"id":"GO:0035625","count":13},{"id":"GO:1902239","count":13}]},{"hash":"2202276548550380368","title":"GPCR-AC signaling and energy metabolism","description":"Top terms cluster around GPCR signaling and adenylate cyclase activation (GO:0010579, GO:0007190), pointing to cAMP-mediated signal transduction as a core function. The presence of electron transport chain and diet-induced thermogenesis terms suggests links to cellular energy metabolism. Some terms (retina development, visual learning, xenobiotic response) are less central to this theme. Overall, the cluster seems best described as proteins involved in GPCR-cAMP signaling with metabolic regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":9},{"id":"GO:0010579","count":9},{"id":"GO:0022900","count":9},{"id":"GO:0008283","count":9},{"id":"GO:0007190","count":9}]},{"hash":"212552978751236835","title":"Vesicle trafficking and epithelial morphogenesis","description":"The terms cluster around membrane trafficking (COPII budding, endocytosis, transmembrane transport) and developmental morphogenesis (hair follicle, salivary gland, lung) with associated cell polarity and migration (lamellipodium assembly, hemocyte migration). This suggests proteins in this cluster coordinate vesicle movement with epithelial morphogenesis and cell shape changes.","confidence":"Medium","size":18,"edges":81,"triangles":128,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":9},{"id":"GO:0090114","count":9},{"id":"GO:0035099","count":9},{"id":"GO:0071963","count":9},{"id":"GO:0031069","count":9}]},{"hash":"2283436433719020391","title":"Nutrient transport and xenobiotic metabolism","description":"The cluster shows a mix of transport-related GO terms (nitrate assimilation, nitrite transport, D-glucose transmembrane transport) and metabolic/catabolic processes (fatty acid omega-oxidation, dioxin and vitamin D catabolism), plus stress and environmental response terms (response to immobilization stress, response to ozone). This pattern suggests a functional grouping around uptake of nutrients and processing of xenobiotics/metabolic compounds, rather than a single narrow pathway. ","confidence":"Medium","size":18,"edges":40,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":4},{"id":"GO:0015707","count":3},{"id":"GO:1904659","count":3},{"id":"GO:0042369","count":2},{"id":"GO:0010430","count":2}]},{"hash":"59543812997873227","title":"Cardiac development and calcium signaling","description":"The top GO terms cluster around heart development and function (multicellular organism development, outflow tract morphogenesis, regulation of SA node cell action potential) and calcium handling (release of sequestered calcium from the SR), suggesting proteins involved in cardiac morphogenesis and excitation-contraction coupling. Additional terms like transcription regulation, memory, and pain response are broader or context-dependent, but the heart-development/calcium signaling theme is prominent.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0098907","count":3},{"id":"GO:0003151","count":3},{"id":"GO:0000122","count":3}]},{"hash":"1468283514780417072","title":"Vesicle trafficking and cell-cycle signaling","description":"This cluster is dominated by GO terms for Rab protein\u2013mediated signal transduction and endocytosis, pointing to vesicle trafficking and membrane trafficking processes. Its inclusion of Hedgehog/Smoothened pathway signaling and cell-cycle related terms (exit from mitosis, cell cycle) suggests an overarching theme of membrane signaling linked to cell-cycle control. Other terms like ER stress response and ribosomal biogenesis appear as supporting, broader cellular processes that often accompany trafficking/signaling activities. Overall, the cluster centers on vesicle trafficking and signaling with cell-cycle regulation as a core thread.","confidence":"Medium","size":18,"edges":131,"triangles":563,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032482","count":11},{"id":"GO:0050771","count":11},{"id":"GO:0042274","count":8},{"id":"GO:0006897","count":8},{"id":"GO:1903206","count":8}]},{"hash":"1149508444488730410","title":"Actin-driven cytoskeleton remodeling and adhesion signaling","description":"These terms cluster around actin-based structure formation (filopodium and podosome assembly, actin branching) and signaling pathways that regulate adhesion and cytoskeletal dynamics (small GTPases, EGFR, ephrin, TCR, and Wnt pathways). The emphasis on substrate adhesion-dependent spreading and receptor-mediated signaling points to a cohesive module controlling actin remodeling in response to adhesive cues. ","confidence":"High","size":18,"edges":43,"triangles":16,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046847","count":9},{"id":"GO:0043552","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0007173","count":9},{"id":"GO:0071803","count":9}]},{"hash":"1742499579742474059","title":"Unknown","description":"The top GO terms span immune signaling (immune response, thymocyte differentiation, IL-12 production, immunological synapse formation) and GPCR-related pathways, plus unrelated topics like circadian rhythm and grooming behavior. This mix suggests no single cohesive function ties the cluster together, indicating an Unknown label with no confidence.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":17},{"id":"GO:1902239","count":17},{"id":"GO:0006955","count":17},{"id":"GO:1904155","count":17},{"id":"GO:0007625","count":17}]},{"hash":"136804516826611591","title":"Splicing and mRNA processing regulation","description":"The cluster shows strong enrichment for spliceosome-related terms (mRNA splicing, processome assembly, alternative splicing regulation), mRNA stability/export, and other post-transcriptional RNA processes (ncRNA-mediated silencing, mRNA polyadenylation, translation initiation complex assembly). This points to a cohesive module governing RNA processing and regulation after transcription.","confidence":"High","size":18,"edges":152,"triangles":800,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":15},{"id":"GO:0048026","count":15},{"id":"GO:0010610","count":14},{"id":"GO:0006378","count":14},{"id":"GO:0045292","count":14}]},{"hash":"2128978098869275825","title":"Mitochondrial protein import and quality control","description":"The set of GO terms centers on mitochondrial protein trafficking (inner membrane insertion from matrix, import into intermembrane space) and quality-control pathways (response to misfolded protein, oxidative-dependent degradation), with additional vesicle trafficking terms. This points to a cohesive theme of mitochondrial protein handling and proteostasis, with some cell-cycle terms that may reflect broader cellular coordination.","confidence":"Medium","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0070407","count":2},{"id":"GO:0032979","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0070676","count":2},{"id":"GO:0045053","count":2}]},{"hash":"2063187501061706680","title":"Developmental Morphogenesis and RTK Signaling","description":"This cluster centers on organ and tissue development (lung and trachea morphogenesis; melanocyte adhesion) and signaling via collagen-activated tyrosine kinase receptors, including tyrosine autophosphorylation. While there are also epigenetic and telomere maintenance terms, the dominant pattern points to morphogenesis coordinated by RTK pathways and cell\u2013ECM interactions. Confidence: Medium","confidence":"","size":18,"edges":110,"triangles":342,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032212","count":18},{"id":"GO:0010568","count":18},{"id":"GO:0097326","count":18},{"id":"GO:0060440","count":18},{"id":"GO:0071276","count":18}]},{"hash":"678017413025709652","title":"DNA replication and chromatin maintenance under stress","description":"The top GO terms are dominated by DNA replication and DNA biosynthetic processes, plus CENP-A\u2013containing chromatin assembly and translesion synthesis, indicating a core of nuclear DNA metabolism and chromosome maintenance. The accompanying terms reference cellular responses to toxic substances, xenobiotics, ethanol, and oxidative stress, suggesting this cluster integrates DNA replication/repair with stress response pathways. The presence of spermatid development hints at germline chromatin remodeling. Together, the cluster likely represents DNA replication/maintenance and chromatin organization functions in a stress context.","confidence":"High","size":18,"edges":120,"triangles":501,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0071897","count":7},{"id":"GO:0051260","count":7},{"id":"GO:0009636","count":7},{"id":"GO:0045471","count":6}]},{"hash":"1479361453770302004","title":"Cytoskeletal remodeling and receptor trafficking","description":"The terms cluster around cytoskeletal dynamics (stress fiber and filopodium assembly, cell spreading), Rho and ERK signaling regulation, adhesion-related processes, and receptor internalization/endocytosis (GPCR and clathrin-mediated). This suggests a cohesive function coordinating cytoskeletal remodeling with signaling and membrane trafficking, characteristic of mechanotransduction and surface receptor turnover.","confidence":"High","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0043149","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0033138","count":4},{"id":"GO:0072583","count":4}]},{"hash":"1658189959703889536","title":"mRNA Processing and Translation Initiation","description":"This cluster centers on RNA metabolism and early translation steps, with strong signals for spliceosome-dependent mRNA splicing, mRNA export and stabilization, and the assembly of translation initiation complexes.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":15},{"id":"GO:0006378","count":15},{"id":"GO:0000381","count":15},{"id":"GO:0045292","count":15},{"id":"GO:0034462","count":14}]},{"hash":"441567583580361179","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":18},{"id":"GO:0000381","count":11},{"id":"GO:0044830","count":9},{"id":"GO:0010738","count":9},{"id":"GO:0006402","count":9}]},{"hash":"1333857441900437265","title":"RNA processing and splicing regulation","description":"This cluster centers on post-transcriptional control and RNA maturation, with strong representation of spliceosome-mediated mRNA splicing (and its regulation), mRNA stability and export from the nucleus, and components involved in ribonucleoprotein complex assembly (e.g., small-subunit processome and translation initiation factors). Together these terms suggest a cohesive module governing RNA processing and gene expression at the RNA level, including regulation via ncRNA pathways.","confidence":"High","size":18,"edges":125,"triangles":444,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":12},{"id":"GO:0006378","count":12},{"id":"GO:0045292","count":12},{"id":"GO:0010610","count":12},{"id":"GO:0048026","count":11}]},{"hash":"1045135804578810282","title":"Developmental transcription regulation and chromatin remodeling","description":"This cluster is dominated by GO terms related to DNA-templated transcription, chromatin remodeling, and regulation of RNA Pol II transcription, alongside several embryonic and organ development processes (semicircular canal morphogenesis, trachea cartilage development, harderian gland development, in utero embryonic development, and gonad development). This suggests proteins that modulate gene expression during development and morphogenesis.","confidence":"High","size":18,"edges":47,"triangles":32,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0048752","count":8},{"id":"GO:0043044","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0070384","count":8}]},{"hash":"2153875538699278523","title":"Adaptive Immune Activation and NF-kappaB Signaling","description":"The terms are dominated by adaptive immune processes: T and B cell proliferation, dendritic cell migration, interferon production, and canonical NF-kappaB signaling. This points to proteins functioning in immune activation and inflammatory signaling rather than basic cellular housekeeping. Some terms are broader (cellular response to mechanical stimulus, extrinsic apoptotic signaling) but the core theme centers on immune cell activation and signaling.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0097192","count":3},{"id":"GO:0042104","count":3},{"id":"GO:0032729","count":3},{"id":"GO:0043123","count":3}]},{"hash":"1848738468732514859","title":"Neuronal synaptic plasticity and spine maintenance","description":"This cluster shows strong signals for long-term potentiation and depression, and dendritic spine maintenance, pointing to synaptic plasticity and structural spine regulation. Actin crosslinking and vesicle trafficking terms further support a neuronal cytoskeletal and secretory context. Some terms (heart development, G2/M transition) are less specific here but don\u2019t override the core neuronal theme. Confidence: Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0060292","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0046626","count":2}]},{"hash":"1582537241329548095","title":"Neuronal Signaling and Epithelial Polarity Regulators","description":"The top GO terms point to neural communication processes (exocytosis, synapse structural plasticity, retrograde nitric oxide signaling, vocalization behavior) and to membrane localization/polarity maintenance (basolateral plasma membrane localization, apical/basal polarity). Although immune-related terms appear, the strongest shared theme across the cluster appears to be regulators of signaling at membranes, bridging neuronal signaling and epithelial cell polarity.","confidence":"Medium","size":18,"edges":12,"triangles":1,"max_degree":7,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0070433","count":16},{"id":"GO:0006470","count":15},{"id":"GO:0090179","count":15},{"id":"GO:0071625","count":15},{"id":"GO:1903361","count":15}]},{"hash":"865845009178847073","title":"Radial glial development and proliferation","description":"The top GO terms cluster around forebrain radial glia: formation of radial glial scaffolds, radial glial differentiation, and glial cell proliferation. There is also evidence of active gene expression programs (DNA-templated transcription, transcription regulation, and translation/ribosome biogenesis) and signaling involvement (TGF-beta response) consistent with proliferating neural progenitors differentiating into radial glia during forebrain development.","confidence":"High","size":18,"edges":24,"triangles":2,"max_degree":12,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0021943","count":6},{"id":"GO:0021861","count":6},{"id":"GO:0071560","count":5},{"id":"GO:0002181","count":5},{"id":"GO:1903833","count":5}]},{"hash":"1110122616430755886","title":"Organ Development and Transcription Regulation","description":"The proteins here are enriched for embryonic organ development across multiple tissues (pituitary gland, midbrain, hindlimb, gonad, pancreas) and for regulation of transcription by RNA polymerase II, including negative regulation, suggesting a cohesive role in developmental processes coupled with transcriptional control.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0006355","count":7},{"id":"GO:0030901","count":7},{"id":"GO:0000122","count":7}]},{"hash":"849873273355641453","title":"ER-Golgi and endosome vesicle transport","description":"The proteins cluster around vesicle trafficking pathways: COPII-coated vesicle budding, Golgi-to-ER retrograde transport, intracellular protein transport, and plasma membrane-to-endosome transport, plus regulation of vacuole fusion. Together these terms point to a cohesive role in intracellular membrane trafficking and vesicle transport rather than a single metabolic pathway. Some mitosis and insulin-related terms may be ancillary signals rather than primary functions.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0032889","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0032486","count":3},{"id":"GO:0031578","count":3},{"id":"GO:0048227","count":3}]},{"hash":"935843471117477088","title":"Neuronal signaling and cell adhesion","description":"The top GO terms are heavily biased toward nervous system functions: transmission of nerve impulse, paranodal junction assembly, and detection of mechanical stimuli related to sensory perception, plus heterophilic cell-cell adhesion and related adhesion in melanocytes. A sodium transporter regulation term also fits with membrane excitability crucial for neural signaling. Immune-related terms (complement activation and phagocytosis recognition) appear less central, suggesting these proteins collectively contribute to neural communication and cell adhesion rather than immune functions. Confidence in this thematic label is Medium.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":5},{"id":"GO:0030913","count":5},{"id":"GO:2000649","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0050910","count":5}]},{"hash":"979743455897229096","title":"Cell signaling and cytoskeletal regulation","description":"The top GO terms cluster around signaling and cytoskeletal dynamics: canonical Wnt signaling, NF-kappaB regulation, positive regulation of GTPase activity and tyrosine phosphorylation, and bicellular tight junction assembly along with actin cytoskeleton reorganization. While a few terms (sound perception, thymus development) may reflect broader or overlapping annotations, the dominant themes point to coordinated signaling pathways that control cell adhesion, cytoskeleton remodeling, and related regulatory processes. Overall, this suggests a functional theme of signaling-integrated cytoskeletal regulation within the protein set.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0010923","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0031532","count":2}]},{"hash":"1656388175388229095","title":"NF-kappaB signaling and K63-ubiquitination","description":"The cluster is dominated by GO terms tied to NF-kappaB pathway regulation (positive regulation of NF-kappaB transcription factor activity; positive regulation of canonical NF-kappaB signal transduction) and K63-linked ubiquitination, which examples of signaling events that modulate NF-kappaB and innate immune responses, as reflected by innate immune response and viral process terms. Although there are outlier terms (brain/uterus development, ribosome biogenesis), the core theme centers on NF-kappaB signaling and ubiquitin-mediated regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0070534","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0042275","count":3},{"id":"GO:0016032","count":3}]},{"hash":"676388958791796195","title":"Ubiquitin-Dependent Protein Degradation and Peroxisomal Import","description":"The cluster is dominated by terms tied to ubiquitin-mediated proteolysis and protein turnover, including ubiquitin-dependent protein catabolic processes, K48-linked ubiquitination, autoubiquitination, and ERAD, as well as peroxisomal matrix protein import that involves ubiquitination for receptor turnover. Wnt receptor catabolic process further supports a theme of receptor degradation via ubiquitination. A couple of terms related to X chromosome dosage compensation likely reflect annotation noise rather than core function. Overall, these proteins appear to participate in ubiquitin-dependent degradation and related quality-control pathways.","confidence":"High","size":18,"edges":27,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":2},{"id":"GO:0016558","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0060816","count":2},{"id":"GO:0042787","count":2}]},{"hash":"1244355881074257859","title":"RNA processing and post-transcriptional regulation","description":"These terms cluster around RNA metabolism and post-transcriptional control of gene expression, including mRNA processing, deadenylation-dependent decapping, and miRNA-mediated silencing, with circadian regulation as a related regulatory layer; broader processes like myelin and olfactory learning appear as weaker associations rather than core functions.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032922","count":2},{"id":"GO:0032288","count":2},{"id":"GO:0070294","count":2},{"id":"GO:0008355","count":1},{"id":"GO:1903608","count":1}]},{"hash":"1445538141529374376","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034316","count":7},{"id":"GO:0000447","count":6},{"id":"GO:1904263","count":6},{"id":"GO:0000480","count":6},{"id":"GO:0000472","count":6}]},{"hash":"295333101923232004","title":"Immune Receptor Tyrosine Kinase Signaling","description":"These proteins cluster around receptor-driven signaling in immune cells, highlighted by collagen-activated tyrosine kinase signaling, peptidyl-tyrosine autophosphorylation, mast cell degranulation, and B cell receptor signaling. Additional terms point to phosphorylation/dephosphorylation regulation and ER-stress\u2013related translation, suggesting a broader signaling network with a core emphasis on tyrosine kinase\u2013mediated immune signaling. Confidence: Medium","confidence":"","size":18,"edges":66,"triangles":84,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":17},{"id":"GO:0038063","count":15},{"id":"GO:0043306","count":14},{"id":"GO:0006470","count":14},{"id":"GO:0021587","count":14}]},{"hash":"1214785032170250891","title":"Neural development and brain patterning","description":"The cluster centers on neural development and brain regional specification, with terms covering brain segmentation, motor neuron axon guidance, peripheral nervous system neuron development, hypothalamus differentiation, and habenula development, as well as embryonic patterning like primitive streak formation and eye morphogenesis. Transcriptional regulation terms indicate regulatory factors guiding these processes.","confidence":"High","size":18,"edges":19,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0006366","count":7},{"id":"GO:0048048","count":6},{"id":"GO:0021986","count":6},{"id":"GO:0008584","count":6}]},{"hash":"1427167006383533272","title":"Adhesion and morphogenesis in development","description":"Top GO terms point to cell adhesion (homophilic cell-cell adhesion, integrin activation), axon guidance, and morphogenesis across tissues (heart valve, lung, nervous system) as well as synaptic localization and mechanosensation. This pattern suggests proteins involved in adhesion-mediated signaling that guide tissue shaping and neural connectivity during development, hence the chosen label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003192","count":18},{"id":"GO:0033626","count":18},{"id":"GO:0036514","count":18},{"id":"GO:0032533","count":18},{"id":"GO:0060243","count":18}]},{"hash":"367430166214412430","title":"Proteasome-regulated oocyte meiosis and spindle assembly","description":"This cluster shows strong signals for ubiquitin-dependent protein catabolic processes and SCF-dependent proteasomal degradation, together with components of meiotic spindle assembly, oocyte maturation, and microtubule polymerization. These features suggest coordinated proteolysis-driven regulation of meiosis and spindle dynamics in oocytes, with broader developmental themes reflected in related terms. Confidence: High","confidence":"","size":18,"edges":6,"triangles":0,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0031146","count":9},{"id":"GO:0007057","count":8},{"id":"GO:0006516","count":8},{"id":"GO:0051436","count":8}]},{"hash":"292758400889329339","title":"Ubiquitin-Dependent Proteolysis and Signaling Modulation","description":"The cluster is dominated by ubiquitin-related processes, including ubiquitin-dependent proteolysis, autoubiquitination, polyubiquitination, and various ubiquitin linkages (K63, K6). This points to components of the ubiquitin-proteasome system governing protein turnover, with additional hints of signaling and chromatin regulation (JNK cascade, TNF signaling, histone catabolism, V(D)J recombination). Together, these terms support a cohesive role in ubiquitination-driven proteolysis and modulation of signaling and chromatin states.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0051865","count":7},{"id":"GO:0070534","count":6},{"id":"GO:1903265","count":6},{"id":"GO:0036205","count":6}]},{"hash":"2066603085598872481","title":"Innate immunity with coagulation and complement activation","description":"The cluster is dominated by GO terms related to innate immune responses and coagulation: complement activation (classical and lectin pathways), blood coagulation, response to lipopolysaccharide, regulation of fibrinogen, and fibrinolysis. These suggest a cohesive theme of inflammation intertwined with coagulation and complement pathways, despite some broader terms like transcription regulation or development appearing peripherally. Confidence reflects a clear, plausible link among the core terms.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0016055","count":4}]},{"hash":"1436856547324127680","title":"Endothelial barrier regulation and coagulation","description":"Explanation: The top terms point to vascular integrity (endothelial barrier), coagulation (blood coagulation) and innate immune processes (complement activation). Collagen catabolic activity and regulation of fibrinogen levels suggest extracellular matrix remodeling linked to vessel stability, while Wnt signaling and multicellular growth imply developmental/tissue remodeling contexts. Overall, the cluster seems centered on endothelial function and coagulation/immune interactions, with some ancillary developmental signals.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1903142","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0016055","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0001867","count":7}]},{"hash":"1476694331055699940","title":"Ubiquitin-Dependent Protein Degradation & Regulation","description":"The cluster is strongly enriched for ubiquitination-related terms (ubiquitin-dependent protein catabolic process, protein ubiquitination, polyubiquitination, ERAD pathway, autoubiquitination), pointing to components of the ubiquitin-proteasome system. In addition, regulatory roles appear (circadian rhythm regulation, apoptosis regulation, TNF signaling), suggesting these proteins act as ubiquitin ligases or regulators of proteostasis and signaling. A few peroxisome import and growth-related terms may reflect broader proteostasis networks, but the core theme centers on ubiquitin-mediated protein turnover and signaling control.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0000209","count":8},{"id":"GO:0042752","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0030433","count":7}]},{"hash":"784322254865152204","title":"Neural and craniofacial morphogenesis","description":"The cluster is enriched for brain development terms (midbrain, telencephalon regionalization, locus ceruleus development) and craniofacial/inner ear morphogenesis (inner ear, semicircular canal formation, embryonic cranial skeleton), along with neural crest migration and primitive streak formation, suggesting a cohesive theme of embryonic neural and craniofacial development.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030901","count":7},{"id":"GO:0048839","count":6},{"id":"GO:0001755","count":5},{"id":"GO:0021978","count":5}]},{"hash":"17895326832030346","title":"Embryonic Development and Differentiation (Wnt Signaling)","description":"The cluster contains GO terms spanning endocrine pancreas development, placental/trophoblast differentiation, cartilage morphogenesis, EMT in heart cushion formation, left-right pattern formation, and overall transcription regulation, all pointing to developmental differentiation processes with Wnt signaling as a central regulatory pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0003323","count":4},{"id":"GO:0045944","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060806","count":3}]},{"hash":"2116622072297116496","title":"Multisubstrate membrane transporters","description":"This cluster is enriched for transmembrane transport across diverse substrates, including vitamins, xenobiotics, and ions (Na+, K+), as well as sugars like arabinose and trehalose, and even neurotransmitter loading into synaptic vesicles. The common thread is membrane transport activity for small molecules, with a few auxiliary terms that may reflect regulatory or secondary roles (e.g., osmotic stress response). ","confidence":"High","size":18,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":14},{"id":"GO:0006855","count":14},{"id":"GO:0071805","count":13},{"id":"GO:0042908","count":13},{"id":"GO:0006970","count":11}]},{"hash":"1439182696205461744","title":"Glycan biosynthesis and cell wall assembly","description":"Consistent theme: multiple GO terms relate to building carbohydrate structures for the cell wall and external glycans, including glycogen biosynthesis, GDP-mannose and UDP-GlcNAc biosynthesis, and O-antigen/LPS assembly, as well as associated sugar catabolic processes that feed into these pathways. This points to a cluster of proteins involved in carbohydrate biosynthesis and cell wall component production.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":5},{"id":"GO:0009298","count":4},{"id":"GO:0009103","count":4},{"id":"GO:0046115","count":4},{"id":"GO:0009243","count":4}]},{"hash":"470566269594808580","title":"Keratinocyte differentiation and glial development","description":"The term set is dominated by keratinocyte-related processes (differentiation, cornification, activation, migration) but also includes glial development signals (Bergmann glia, Schwann cell proliferation) and neural aspects (axonogenesis, axonal transport, microtubule polarity). This suggests a broader theme of developmental differentiation across skin epithelium and neural-supporting glial cells, rather than a single cohesive pathway. The presence of an immune-related term is less central to the core theme. ","confidence":"Medium","size":18,"edges":17,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0045616","count":5},{"id":"GO:0060020","count":5},{"id":"GO:0048936","count":5},{"id":"GO:0030951","count":5},{"id":"GO:0051546","count":5}]},{"hash":"199735629526389788","title":"Organ Identity and Tissue Development","description":"Top GO terms point to development across multiple tissues (striatum, ureter) and organ identity maintenance, plus neural differentiation (asymmetric neuroblast division) and regulatory processes (GPCR signaling, protein secretion). The cluster seems to reflect broad developmental programs rather than a single pathway, making this label a reasonable, if not highly specific, summary.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0021756","count":3},{"id":"GO:0050714","count":3},{"id":"GO:0008277","count":3}]},{"hash":"409846875637815635","title":"mRNA processing and translation initiation","description":"These GO terms center on RNA processing (splicing via the spliceosome, polyadenylation, export, stabilization) and translation initiation (preinitiation complex formation, eIF4F assembly, translation reinitiation). The overlap of splicing/processing and initiation factors indicates a cohesive RNA metabolism cluster involved in mRNA maturation and the start of translation.","confidence":"High","size":18,"edges":7,"triangles":0,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":13},{"id":"GO:0001731","count":13},{"id":"GO:0002188","count":13},{"id":"GO:0045292","count":13},{"id":"GO:0034462","count":12}]},{"hash":"76872746666489344","title":"ER-Golgi Vesicle Transport","description":"The top GO terms show strong enrichment for vesicle transport between the ER and Golgi, including ER-to-Golgi and Golgi-to-ER trafficking, plus retrograde transport. This core theme is complemented by related regulatory processes (GTPase activity, TORC1 signaling) and ancillary transport roles (mRNA transport), suggesting a cluster centered on ER-Golgi trafficking and its regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0038202","count":3},{"id":"GO:0006890","count":3}]},{"hash":"1227733600067974011","title":"Apoptosis and necroptosis regulation","description":"Based on the top GO terms, several entries point to apoptotic signaling and necroptosis (apoptotic process, mitochondrial membrane permeability, ripoptosome assembly). These suggest the cluster centers on cell death pathways. A few terms touch RNA processing or development (RNA splicing, oskar translation, segmentation), which may reflect broader roles or incidental annotations, but the dominant theme is apoptosis/necroptosis regulation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":2},{"id":"GO:0008380","count":2},{"id":"GO:1902108","count":2},{"id":"GO:0035289","count":2},{"id":"GO:0046011","count":2}]},{"hash":"1275838850640651027","title":"GPCR Signaling and Immune-Circadian Regulation","description":"This cluster shows a strong representation of GPCR-related terms (EGFR transactivation by GPCR signaling; GPCR desensitization by arrestin) alongside immune- and circadian-related processes (immune response, interleukin-12 production, immunological synapse formation, grooming behavior, circadian sleep/wake cycle). The co-occurrence of GPCR signaling cross-talk with immune function and circadian/behavioral processes suggests a theme where GPCR pathways coordinate immunity and daily rhythms. The diversity of related terms supports a cohesive, albeit broad, GPCR-centered signaling role across these contexts.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":18},{"id":"GO:1902239","count":18},{"id":"GO:0006955","count":18},{"id":"GO:1904155","count":18},{"id":"GO:0007625","count":18}]},{"hash":"555874449647721357","title":"Neural development and neurotransmitter signaling","description":"This cluster is dominated by GO terms related to brain development, nervous system development, cerebral cortex development, and neurotransmitter secretion, indicating proteins likely involved in neural development and synaptic signaling. While there are also terms tied to immune signaling (NF-kappaB, B cell receptor) and GPCR pathways, the strongest and most frequent signals point to neural development and neurotransmitter release processes. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":3},{"id":"GO:0007249","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0035773","count":3}]},{"hash":"909671284448337963","title":"Immune signaling and GPCR modulation","description":"The top GO terms point to immune system processes (immune response, IL-12 production, thymocyte differentiation, immunological synapse formation) and GPCR-related signaling regulation (EGFR transactivation by GPCR signaling, GPCR desensitization). This combination suggests a cluster of proteins involved in immune cell communication and activation, with modulation by GPCR pathways; the circadian and grooming terms may reflect broader behavioral-immune interactions rather than a core cluster function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":16},{"id":"GO:1902239","count":16},{"id":"GO:0006955","count":16},{"id":"GO:1904155","count":16},{"id":"GO:0007625","count":16}]},{"hash":"1744729097961440569","title":"Embryonic development and organ morphogenesis","description":"This cluster's top GO terms cluster around embryonic development across multiple tissues and morphogenetic processes (pancreas, CNS, somite, cochlea, cartilage, placenta, etc.), indicating a shared theme of developmental patterning and tissue morphogenesis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0001756","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060806","count":2}]},{"hash":"702962611850720921","title":"Rho-driven cytoskeleton remodeling in muscle and angiogenesis","description":"Top GO terms point to Rho-mediated signaling and actin cytoskeleton dynamics (microspike assembly, cytoskeleton reorganization) with muscle development and contraction regulation, plus some vascular/immune signaling. The common theme is cytoskeletal remodeling that underpins muscle and vascular tissues, explaining the cluster\u2019s grouping despite a few outlier terms.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:1900042","count":5},{"id":"GO:0030035","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0001525","count":4}]},{"hash":"938892388634218622","title":"GPCR-cAMP Signaling in Metabolic and Vascular Regulation","description":"The top GO terms cluster around GPCR signaling that activates adenylate cyclase and raises cAMP, which drives vascular (blood pressure) and metabolic responses (thermogenesis, energy metabolism). There's also support from terms related to temperature sensation, pain perception, and immune signaling, suggesting a broader physiological role tied to GPCR-cAMP pathways. The combination strongly points to GPCR-driven regulatory signaling governing metabolic and vascular functions, with ancillary immune/metabolic context.","confidence":"High","size":17,"edges":6,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":14},{"id":"GO:0010579","count":14},{"id":"GO:0022900","count":14},{"id":"GO:0007190","count":14},{"id":"GO:0002024","count":13}]},{"hash":"84343085515326112","title":"Immune signaling and T cell development","description":"This cluster is strongly linked to immune processes: immune response, IL-12 production, and positive regulation of immunological synapse formation, plus DN2 thymocyte differentiation, indicating a core theme of immune activation and early T cell development. Some terms (GPCR signaling cross-talk, circadian/grooming-related terms) may reflect broader signaling roles or pleiotropy, but the dominant signal is immune signaling and T cell maturation.","confidence":"Medium","size":17,"edges":106,"triangles":340,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":17},{"id":"GO:1902239","count":17},{"id":"GO:0006955","count":17},{"id":"GO:1904155","count":17},{"id":"GO:0007625","count":17}]},{"hash":"98294316420520816","title":"Immune signaling with circadian-behavior links","description":"The GO terms cluster around immune function (immune response, interleukin-12 production, immunological synapse formation, thymocyte differentiation) and GPCR-related signaling, with additional references to circadian rhythm and grooming behavior. This points to a core immune signaling theme, with secondary links to circadian and behavioral regulation via GPCR pathways, explaining the varied terms observed.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":9},{"id":"GO:1902239","count":9},{"id":"GO:0006955","count":9},{"id":"GO:1904155","count":9},{"id":"GO:0007625","count":9}]},{"hash":"1327287698433287158","title":"Epigenetic Regulation in Organ Development","description":"The cluster is dominated by organogenesis-related GO terms (multicellular organism development, inner ear development, trachea formation, melanocyte adhesion, and related growth processes), suggesting a focus on development of sensory and epithelial structures. It also includes epigenetic regulation terms (genomic imprinting, CpG island methylation) and telomere maintenance regulation, indicating that epigenetic control modulates these developmental programs. A few terms like sensory perception of pain appear but are less central to the core theme, which is developmental processes governed by epigenetic mechanisms.","confidence":"Medium","size":17,"edges":29,"triangles":41,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006349","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0007275","count":10},{"id":"GO:0048839","count":10},{"id":"GO:0032212","count":9}]},{"hash":"820271166875944354","title":"DNA Damage Repair and Stress Response","description":"The top GO term is base-excision repair, pointing to DNA repair activity; apoptosis and xenobiotic-response terms further suggest a cellular stress/response role. While some terms (aging, some metabolic and transport processes) are less directly connected, they can reflect broader stress signaling and regulatory networks. Together, the cluster appears to group proteins involved in DNA damage response and stress signaling, with some related signaling and metabolic regulation context.","confidence":"Medium","size":17,"edges":52,"triangles":63,"max_degree":13,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006284","count":10},{"id":"GO:0007568","count":9},{"id":"GO:0046856","count":9},{"id":"GO:0006915","count":9},{"id":"GO:0042493","count":9}]},{"hash":"303618912080832116","title":"Synaptic trafficking and spine remodeling","description":"The top GO terms cluster around intracellular transport to the plasma membrane, protein complex localization, and Cdc42 signaling, with several terms tied to dendritic spine morphogenesis, regulation of synaptic structure, and learning. This suggests a module of vesicle trafficking and actin/cytoskeleton remodeling that supports synaptic plasticity. Some terms (keratinocyte development, mast cell chemotaxis, copper homeostasis) may reflect broader protein roles, but the dominant signal is neuronal trafficking and spine remodeling.","confidence":"Medium","size":17,"edges":84,"triangles":185,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0003334","count":17},{"id":"GO:0034629","count":17},{"id":"GO:0043001","count":17},{"id":"GO:0032488","count":17},{"id":"GO:0060753","count":17}]},{"hash":"36630257035436899","title":"Neuronal dendrite and synapse morphogenesis","description":"GO terms cluster around neuronal development, including dendrite development, dendritic spine morphogenesis, and synapse organization and plasticity, suggesting a module for establishing neuronal connectivity; Golgi localization and protein dephosphorylation point to trafficking and signaling shaping neurite/synapse maturation, with cochlea morphogenesis implying sensory neuron development.","confidence":"High","size":17,"edges":63,"triangles":147,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016358","count":10},{"id":"GO:0051683","count":10},{"id":"GO:0090103","count":10},{"id":"GO:0070830","count":10},{"id":"GO:0051835","count":10}]},{"hash":"665870521087251206","title":"Dopaminergic GPCR Signaling and Thermogenesis","description":"Dominant GO terms point to GPCR-mediated signaling, especially adenylate cyclase-activating dopamine receptor pathways and GPCR signaling, with additional links to temperature- and prostaglandin-responsive processes, diet-induced thermogenesis, and related pain perception; the presence of Rho signaling and blood pressure regulation suggests downstream GPCR cascades, while electron transport chain terms reflect metabolic context. Together, these terms support a cohesive label centered on dopaminergic GPCR signaling involved in thermogenic/metabolic responses.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0007191","count":7},{"id":"GO:0071380","count":7}]},{"hash":"1313034196393516866","title":"Neural development and axon guidance","description":"This cluster\u2019s top GO terms cluster around nervous system development, axon guidance pathways (Roundabout signaling, dendrite self-avoidance), receptor tyrosine kinase signaling, and processes like myelination and retina morphogenesis, all pointing to neural circuit formation and maturation. A few terms may reflect broader cytoskeletal roles, but the dominant theme is neural development and connectivity.","confidence":"High","size":17,"edges":44,"triangles":34,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035385","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0070593","count":5},{"id":"GO:0007169","count":5},{"id":"GO:0060168","count":5}]},{"hash":"1145329755593124932","title":"Neuropeptide GPCR signaling and blood pressure regulation","description":"The top GO terms cluster around GPCR signaling, especially adenylate cyclase activation, and neuropeptide signaling, with a clear emphasis on positive regulation of blood pressure. This pattern points to proteins involved in neuroendocrine GPCR pathways that modulate vascular tone and cardiovascular signaling. While there are also terms related to immune signaling and energy metabolism, the dominant theme is GPCR-mediated neuropeptide signaling linked to blood pressure regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0035025","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0007190","count":6}]},{"hash":"1425102739049207072","title":"Plant AGP glycosylation and mucilage biosynthesis","description":"This cluster centers on arabinogalactan protein (AGP) glycosylation and related hydroxyproline O-linked processes, along with mucilage and polysaccharide biosynthesis in plants. The inclusion of root hair development and epithelial polarity hints at AGP-associated cell-wall glycoprotein roles in epidermal cell polarity and surface coat formation, tying together glycosylation, cell wall biosynthesis, and mucilage production.","confidence":"Medium","size":17,"edges":97,"triangles":260,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":6},{"id":"GO:0007299","count":5},{"id":"GO:0080147","count":5},{"id":"GO:0018258","count":5},{"id":"GO:0042248","count":5}]},{"hash":"1538198514548777107","title":"Hormone-regulated inflammatory and vascular signaling","description":"The proteins are enriched for GO terms related to hormonal responses (estradiol, glucocorticoids) and regulation of inflammation, including negative regulation of leukocyte activity and smooth muscle cell proliferation/chemotaxis. Additional terms for DNA damage response and CNS development suggest a broader stress-regulated regulatory network that connects hormonal cues to tissue remodeling. Overall, the cluster seems to represent hormone-influenced signaling that modulates inflammation and vascular dynamics, with related development signals.","confidence":"High","size":17,"edges":64,"triangles":118,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0032355","count":4},{"id":"GO:0071385","count":4},{"id":"GO:0002674","count":4},{"id":"GO:0009635","count":4},{"id":"GO:0070664","count":4}]},{"hash":"1770186112451481587","title":"Calcium handling in cardiac muscle","description":"The top GO terms center on calcium signaling and handling (response to calcium, SR Ca2+ release, calcium-dependent processes) and on cardiac electrophysiology (regulation of ventricular muscle cell action potential and membrane repolarization) as well as contraction (smooth muscle related). This suggests the proteins are involved in calcium signaling and excitation-contraction coupling in cardiac muscle, with some ancillary roles in broader calcium-dependent processes. ","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0051592","count":4},{"id":"GO:0098911","count":3},{"id":"GO:0014808","count":3},{"id":"GO:0009454","count":3}]},{"hash":"922095120276169373","title":"Immune signaling and thymocyte differentiation","description":"The top terms are dominated by immune-related processes: immune response, immunological synapse formation, IL-12 production, and DN2 thymocyte differentiation, suggesting a core theme of immune activation and development. GPCR-related and desensitization terms appear as signaling background, and a couple of terms reference circadian rhythm and grooming behavior, which may reflect broader regulatory roles or annotation noise. Overall, the cluster appears centered on immune signaling and immune cell differentiation, with peripheral signals adding context. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":17},{"id":"GO:1902239","count":17},{"id":"GO:0006955","count":17},{"id":"GO:1904155","count":17},{"id":"GO:0007625","count":17}]},{"hash":"1993203407530147076","title":"Rho-Regulated Synaptic Localization and Spine Morphogenesis","description":"The prominent GO terms cluster around protein localization to the synapse, Rho-protein signal transduction, receptor clustering, and dendritic spine morphogenesis, indicating a primary theme of neuronal synapse organization and cytoskeletal remodeling. Some DNA-related terms are present, but the strongest signals are the synaptic/spine terms, suggesting the proteins act together in synapse localization and spine development through Rho signaling.","confidence":"High","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035418","count":15},{"id":"GO:0007266","count":15},{"id":"GO:0043113","count":15},{"id":"GO:0008285","count":15},{"id":"GO:0060997","count":15}]},{"hash":"548190700312558797","title":"Calcium-Dependent Exocytosis and Secretory Transport","description":"The cluster is dominated by GO terms linked to the secretory pathway and vesicle trafficking, including positive regulation of calcium ion-dependent exocytosis, Golgi to plasma membrane transport, and Cdc42 signaling involved in cytoskeletal dynamics necessary for vesicle movement. While some terms touch on diverse processes (development, learning, immune cell migration, copper homeostasis), the strongest shared theme is exocytosis and secretory transport, justifying a focused label around the calcium-dependent secretory pathway.","confidence":"High","size":17,"edges":24,"triangles":3,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045956","count":15},{"id":"GO:0003334","count":14},{"id":"GO:0034629","count":14},{"id":"GO:0043001","count":14},{"id":"GO:0032488","count":14}]},{"hash":"1483792465867038696","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":126,"triangles":555,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":13},{"id":"GO:0048026","count":11},{"id":"GO:0031047","count":11},{"id":"GO:0034476","count":10},{"id":"GO:0071038","count":10}]},{"hash":"43249565423985230","title":"RNA splicing and translation initiation regulation","description":"The cluster is enriched for splicing-related terms (spliceosome, small-subunit processome, mRNA splicing) and for steps in translation initiation and reinitiation (preinitiation complex formation, eIF4F complex assembly, translation reinitiation, mRNA stabilization, stress-related mRNA stability). The co-occurrence suggests a coordinated module that links RNA processing with regulation of translation under stress, hence the label.","confidence":"High","size":17,"edges":22,"triangles":5,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:1901407","count":8},{"id":"GO:0001731","count":7},{"id":"GO:0000398","count":6}]},{"hash":"492335840956732238","title":"Golgi-ER-Endosome Vesicle Trafficking","description":"Evidence shows strong enrichment for transport within the secretory pathway: retrograde Golgi-to-ER transport, ER-to-Golgi transport, plasma membrane-to-endosome transport, Golgi organization, and general protein transport. These terms collectively point to vesicle trafficking between the Golgi, ER, endosomes, and related compartments as the core function of this cluster, with development terms appearing as secondary contexts. ","confidence":"High","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0032088","count":2},{"id":"GO:0048227","count":2},{"id":"GO:0007286","count":2}]},{"hash":"2219956116821901350","title":"Innate immune signaling and inflammation","description":"The top GO terms center on innate immune response, lipopolysaccharide signaling, and neutrophil chemotaxis, indicating an innate immune/inflammatory signaling cluster, with additional links to ERK pathway regulation and glucose-responsive signaling that reflect immune-metabolic cross-talk.","confidence":"High","size":17,"edges":17,"triangles":1,"max_degree":16,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0046676","count":5},{"id":"GO:0031663","count":5},{"id":"GO:0071333","count":4},{"id":"GO:0030593","count":4}]},{"hash":"58481562984250593","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":48,"triangles":62,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":4},{"id":"GO:1902600","count":3},{"id":"GO:0032543","count":3},{"id":"GO:0022417","count":3},{"id":"GO:0051084","count":3}]},{"hash":"1282464255553924789","title":"Neural and sensory morphogenesis","description":"The top GO terms are dominated by embryonic and sensory organ morphogenesis (otolith morphogenesis, olfactory placode morphogenesis, embryonic morphogenesis) and neuronal wiring (dendrite self-avoidance), with supporting neural signaling terms, suggesting a neural/sensory development theme rather than a unified metabolic or immune function. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":3},{"id":"GO:0042026","count":2},{"id":"GO:0046686","count":2},{"id":"GO:1904469","count":2},{"id":"GO:0032474","count":2}]},{"hash":"437130058155140065","title":"Epigenetic Transcription Regulation and Development","description":"These proteins are enriched for GO terms tied to regulation of transcription by RNA Pol II and chromatin-related processes (nucleosome assembly, histone/DNA methylation). The presence of several developmental processes (pituitary development, neural crest migration, atrial septum morphogenesis, erythrocyte differentiation, IgA isotype switching) suggests the cluster represents factors that modulate gene expression programs during development through epigenetic mechanisms.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0010452","count":4},{"id":"GO:0045648","count":3},{"id":"GO:0043046","count":3},{"id":"GO:0021983","count":3}]},{"hash":"1648953927115125123","title":"Developmental signaling and cytoskeletal remodeling","description":"The terms converge on development-related signaling (heart development, left-right patterning, Smoothened/Hedgehog) and cytoskeletal/ciliogenic processes (Rho/Rac signaling, filopodium assembly, non-motile cilium assembly, cell spreading). Together they suggest a cluster centered on developmental signaling that orchestrates cytoskeletal dynamics and ciliogenesis, with some apoptotic context but within development. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0046847","count":3},{"id":"GO:1905515","count":2}]},{"hash":"857676540079830119","title":"Adaptive Immune Activation and T Cell Regulation","description":"This cluster is dominated by immune-related GO terms: complement activation (classical pathway), Fc-epsilon receptor signaling, adaptive immune response, positive regulation of IL-2 production, NK cell susceptibility, and negative regulation of regulatory T cell differentiation, as well as modulation of MyD88-dependent TLR signaling. These collectively point to an adaptive immune activation/regulatory theme, with some peripheral associations to cardiac-related terms. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0038095","count":4},{"id":"GO:0002250","count":4},{"id":"GO:1900042","count":3},{"id":"GO:0086014","count":3}]},{"hash":"438492306761079050","title":"Drosophila circadian rhythm and neural behavior","description":"The GO terms point to insect-specific biology: circadian rhythm, thermotaxis, anesthesia-resistant memory, and cuticle pigmentation suggest Drosophila neural regulation and daily-behavior processes. Additional terms like histamine biosynthesis and sphingolipid metabolism fit neural signaling and membrane biology. Some annotations (phytoalexin/isoquinoline metabolism) are more general or cross-species, but the strongest signal is insect circadian/behavioral function, making a neural-behavior cluster most plausible.","confidence":"Medium","size":17,"edges":72,"triangles":213,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0033076","count":4},{"id":"GO:0007623","count":4},{"id":"GO:0048082","count":4},{"id":"GO:0043052","count":4},{"id":"GO:0052314","count":4}]},{"hash":"1481991440106764389","title":"Craniofacial and forebrain neural crest development","description":"The cluster centers on developmental processes that link craniofacial formation (roof of the mouth) with forebrain and neural crest\u2013driven patterning, including neural crest cell migration, telencephalon regionalization, forebrain\u2013midbrain boundary formation, and glial differentiation, with transcriptional regulation of RNA polymerase II also represented, suggesting coordinated gene regulation during these developmental programs.","confidence":"High","size":17,"edges":30,"triangles":1,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":16},{"id":"GO:0000122","count":12},{"id":"GO:0006366","count":10},{"id":"GO:0021905","count":9},{"id":"GO:0010001","count":9}]},{"hash":"1649898181263776712","title":"UV-induced DNA Repair and Transcription Regulation","description":"The top GO terms cluster around nucleotide-excision repair of UV-induced lesions (pyrimidine dimer repair by NER, transcription-coupled NER) and UV response (UV-B, UV-C), along with linked transcriptional regulation and cell-cycle control. This combination strongly suggests a module focused on DNA damage response to UV light, including repair and transcriptional management, with some unrelated development-related terms likely representing broader functional annotations in the set. Confidence: High","confidence":"","size":17,"edges":18,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0048597","count":3},{"id":"GO:0061178","count":3},{"id":"GO:0000720","count":3},{"id":"GO:0040034","count":3},{"id":"GO:0006283","count":3}]},{"hash":"1819860273621086793","title":"Nuclear RNA Processing and Chromatin Regulation","description":"Based on the Top Terms, the cluster is enriched for snoRNP assembly and snoRNA localization (RNA processing), as well as chromatin remodeling and regulation of transcription, suggesting a core role in nuclear gene expression control. Although included development terms (retina development, neural tube closure) hint at broader roles, the dominant signals point to RNA processing and chromatin regulation as the unifying function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0000492","count":2},{"id":"GO:0006338","count":2},{"id":"GO:0048254","count":2},{"id":"GO:0031063","count":2}]},{"hash":"158800361242646590","title":"DNA Damage Repair and Cell Cycle Control","description":"This cluster centers on genome maintenance and cell-cycle progression, reflected by strong enrichment for nucleotide-excision repair, homologous recombination, double-strand break repair, chromatin organization, and mitotic transitions (G2/M, exit from mitosis). The presence of SCF-dependent ubiquitin-proteasomal degradation and K63-linked ubiquitination links to regulation of cell-cycle proteins. A viral process term is noted, but the dominant theme is DNA repair, chromatin remodeling, and chromosome segregation during the cell cycle.","confidence":"High","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070911","count":17},{"id":"GO:0007059","count":17},{"id":"GO:0016032","count":17},{"id":"GO:0031146","count":17},{"id":"GO:0010458","count":17}]},{"hash":"1464300201523487649","title":"Ubiquitin-Proteasome\u2013Mediated Turnover and Circadian Regulation","description":"The top GO terms show strong enrichment for ubiquitin-dependent protein catabolic processes and protein polyubiquitination, including SCF-dependent proteasomal degradation, pointing to a proteostasis-focused cluster. There is also a notable signal for regulation of circadian rhythm, suggesting a link between ubiquitin-mediated turnover and daily cycles. Additional terms mention stress responses and development, but the dominant theme is ubiquitin-proteasome\u2013driven protein turnover with circadian regulation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0000209","count":7},{"id":"GO:0042752","count":7},{"id":"GO:0031146","count":6},{"id":"GO:1901253","count":5}]},{"hash":"1353963747400647137","title":"Developmental cell adhesion and morphogenesis","description":"The top GO terms cluster around cell adhesion (homophilic/heterophilic) and integrin signaling, plus several morphogenesis-related processes across bone maturation, heart valves, lung development, and neural tract formation. This points to a cohesive role for adhesion-mediated signaling in guiding developmental tissue morphogenesis, justifying a label that combines adhesion and morphogenesis.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007156","count":15},{"id":"GO:0007157","count":15},{"id":"GO:0043931","count":14},{"id":"GO:0003192","count":13},{"id":"GO:0033626","count":13}]},{"hash":"307389433095704991","title":"Ubiquitin-Dependent Degradation and NF-\u03baB/JNK Signaling","description":"The cluster shows strong enrichment for ubiquitin-dependent protein catabolic processes, ERAD, regulation of JNK cascade, I-kappaB phosphorylation, TNF signaling, apoptotic regulation, and histone ubiquitination, suggesting a core theme of ubiquitin-mediated proteolysis intertwined with inflammatory and stress signaling pathways (NF-\u03baB and JNK) and related chromatin regulation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0030433","count":5},{"id":"GO:0046328","count":5},{"id":"GO:1903721","count":4},{"id":"GO:0090073","count":4}]},{"hash":"510887556820794160","title":"B cell receptor signaling and immune activation","description":"The cluster is dominated by GO terms for adaptive and innate immunity, particularly B cell receptor signaling, adaptive immune response, and interleukin-2 production, plus signaling and cytoskeletal regulation (PI3K-AKT, Rho/GTPase) that drive cell migration and activation. This pattern suggests a cohesive module of immune signaling proteins centered on B cell\u2013mediated activation, with some peripheral terms appearing as noise. Confidence: High","confidence":"","size":17,"edges":32,"triangles":10,"max_degree":11,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0010765","count":12},{"id":"GO:1900042","count":10},{"id":"GO:0002250","count":10},{"id":"GO:0050853","count":10},{"id":"GO:0045087","count":10}]},{"hash":"834624752501239056","title":"Cardiovascular development and endothelial differentiation","description":"Proteins in this cluster predominantly map to heart development and vascular differentiation, with Notch signaling in the heart field, right atrium morphogenesis, and venous endothelial differentiation. The inclusion of cellular responses to mechanical stimulus supports a cardiovascular/mechanotransduction theme, making cardiovascular development and endothelial differentiation a cohesive label. Some ancillary terms (immune signaling, RNA regulation) appear less central to the core theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003270","count":7},{"id":"GO:0033280","count":7},{"id":"GO:0003213","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0060843","count":7}]},{"hash":"431528736731603495","title":"Neuronal synapse assembly and plasticity","description":"Most of the top GO terms point to neuronal/synaptic processes: AMPA receptor clustering, cerebellum morphogenesis, and long-term synaptic plasticity, together with actin remodeling and ruffle assembly that underlie synapse formation and structural changes. While a couple of terms touch on immune or vascular functions, the dominant signal is neural synapse organization and activity-dependent plasticity. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900042","count":13},{"id":"GO:1904694","count":13},{"id":"GO:0021587","count":13},{"id":"GO:0051016","count":13},{"id":"GO:0097178","count":13}]},{"hash":"1968133124815083393","title":"Protein folding and transcription regulation","description":"This cluster shows strong signals for protein folding (GO:0006457) and protein complex oligomerization (GO:0051259), plus DNA-templated transcription (GO:0006351) and cell-cycle related terms, suggesting a combined role in maintaining protein quality/assembly while also influencing gene expression and proliferation.","confidence":"High","size":17,"edges":123,"triangles":503,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0006457","count":2},{"id":"GO:0051259","count":2},{"id":"GO:0055114","count":2}]},{"hash":"1815465188341074591","title":"Vacuolar amino acid transport","description":"Dominant GO terms describe transmembrane transport of multiple amino acids (glutamine, asparagine, histidine, arginine, lysine) into or out of vacuoles, with accompanying nutrient-stress signals (nitrogen starvation, potassium starvation, pH). This points to a cohesive theme of vacuolar amino acid handling under nutrient stress. An outlier term like root cap development is present but does not define the primary function. Confidence: High","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000487","count":4},{"id":"GO:0006867","count":4},{"id":"GO:1901481","count":4},{"id":"GO:0089708","count":4},{"id":"GO:0048829","count":4}]},{"hash":"983499725471974222","title":"Calcium\u2013GPCR Signaling in Immunity","description":"The cluster is enriched for calcium release into the cytosol and GPCR signaling-related terms, along with immune processes (immune response, interleukin-12 production, thymocyte differentiation) and GPCR desensitization. Although some terms like grooming behavior and circadian rhythms appear, the dominant pattern is calcium signaling linked to GPCR pathways that drive immune cell signaling and development, supporting a coherent functional theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":16},{"id":"GO:0035625","count":15},{"id":"GO:1902239","count":15},{"id":"GO:0006955","count":15},{"id":"GO:1904155","count":15}]},{"hash":"994538643550262765","title":"MAPK Signaling and Protein Synthesis","description":"This cluster is dominated by GO terms for ERK1/ERK2 cascade and JNK cascade, plus a thrombin-activated receptor signaling pathway, all pointing to MAPK-mediated signaling. Developmental terms like regulation of osteoblast differentiation and skeletal system development align with MAPK\u2019s known roles in growth and differentiation. The translation and cytoplasmic translation terms suggest a link to protein synthesis, which often accompanies signaling during growth and mitosis. Overall, the proteins seem connected through MAPK-regulated signaling with ancillary ties to translation machinery.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007118","count":2},{"id":"GO:0033160","count":2},{"id":"GO:0070493","count":2},{"id":"GO:0007076","count":2},{"id":"GO:0006412","count":2}]},{"hash":"149967451798703518","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0000480","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0006888","count":2}]},{"hash":"316815552405011191","title":"Cell Cycle and Intracellular Trafficking","description":"Top GO terms cluster around regulation of the cell cycle and processes of cell division (regulation of cell cycle, negative regulation of fibroblast proliferation, abscission) together with intracellular transport and vesicle trafficking (protein transport, late endosome to vacuole transport via multivesicular body sorting pathway). This points to a module coordinating cell growth/division with intracellular trafficking. Neuron development and collateral sprouting reflect broader growth contexts, while some viral-related terms may reflect shared host pathways rather than a cohesive viral function. Overall, the dominant theme is cell-cycle control paired with trafficking processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":2},{"id":"GO:0007050","count":2},{"id":"GO:0048666","count":2},{"id":"GO:0015031","count":1},{"id":"GO:0048672","count":1}]},{"hash":"2212522512690042730","title":"Chloroplast Translation and Ribosome Biogenesis","description":"The top GO terms are centered on translation (general and cytoplasmic), ribosome biogenesis, and tRNA modification, with an additional term for protein targeting to chloroplast. Together these indicate a cluster of proteins involved in chloroplast-associated protein synthesis and ribosome assembly, including import into chloroplasts and RNA/tRNA processing essential for translation. Some metabolic terms appear but do not override the main ribosome/translation signal.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0002181","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0045036","count":3},{"id":"GO:0006007","count":3}]},{"hash":"535081436231035971","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around brain development, various synaptic transmissions (glutamatergic and GABAergic), and signaling/cytoskeletal processes relevant to neurons (Wnt signaling, Rho regulation, microtubule movement, SNARE regulation, and pinocytosis). This pattern points to proteins involved in neuronal development and synaptic function, including vesicle trafficking and cytoskeletal dynamics necessary for synapse formation and transmission.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0048549","count":3},{"id":"GO:0035544","count":3}]},{"hash":"1231794053993291165","title":"Actin cytoskeleton remodeling and cell migration","description":"This cluster is strongly enriched for terms tied to actin-based structures and signaling that drive cell movement and shape change, including lamellipodium and filopodium assembly, Rho GTPase signaling, and activation of small GTPases. Positive regulation of cell spreading and negative regulation of cytoskeletal-regulated processes in development (dendritic spine, blood vessels, heart) further supports a role in cytoskeletal dynamics during morphogenesis and motility. The collection therefore represents actin cytoskeleton remodeling and migration functions.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":9},{"id":"GO:0061000","count":9},{"id":"GO:0030032","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0060313","count":9}]},{"hash":"190830480187800720","title":"Unknown","description":"The top GO terms are a heterogeneous mix (telomere maintenance regulation, spindle assembly, Wnt and ephrin signaling, apoptosis, and several obsolete terms), with no clear single function tying all proteins together, so a cohesive cluster label cannot be assigned.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0032212","count":5},{"id":"GO:0051225","count":5},{"id":"GO:0097284","count":5},{"id":"GO:0090501","count":4}]},{"hash":"970952985998320802","title":"DSB repair via homologous recombination","description":"The cluster is dominated by GO terms centered on double-strand break repair, especially via homologous recombination, including regulation of HR-mediated repair, localization to DSB sites, and cellular response to ionizing radiation, which together indicate a role in DNA damage sensing and repair. Some non-core terms (e.g., face morphogenesis, thiamine biosynthesis regulation) appear as peripheral annotations but do not override the main theme of genome maintenance and HR repair.","confidence":"High","size":17,"edges":17,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:2000781","count":2},{"id":"GO:0034184","count":2},{"id":"GO:1990166","count":2},{"id":"GO:0010569","count":1},{"id":"GO:0071479","count":1}]},{"hash":"293896717364635574","title":"Hepatic Xenobiotic Detox and Lipid Oxidation","description":"This cluster is driven by liver-related detox and lipid metabolism processes: epoxygenase P450 pathway, fatty acid omega-oxidation, and dioxin/dioxin-like catabolic pathways indicate xenobiotic processing; vitamin D catabolic process and hepatocyte differentiation support liver-specific metabolism and maturation; plus responses to ozone and stress with anti-inflammatory regulation fit the hepatic oxidative stress and inflammation-modulating context.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019373","count":9},{"id":"GO:0008585","count":9},{"id":"GO:0042369","count":8},{"id":"GO:0010430","count":8},{"id":"GO:0070365","count":8}]},{"hash":"617532205177634651","title":"Unknown","description":"Top GO terms are split between sugar metabolism (response to sucrose; glycogen biosynthesis; UDP-glucose/UDP-galactose metabolism) and broad signaling/regulatory processes (Notch signaling regulation; transcriptional repression; IL-6 production; PI3K signaling; fibroblast proliferation). The terms do not converge on a single cohesive function, and the cluster has no edges, suggesting no clear shared role among these proteins.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009744","count":2},{"id":"GO:0005978","count":2},{"id":"GO:0075015","count":2},{"id":"GO:0045747","count":2},{"id":"GO:0048147","count":2}]},{"hash":"1563433657762998380","title":"Mitochondrial import, calcium handling, and autophagy","description":"The cluster is dominated by GO terms tied to mitochondrial function: calcium import into mitochondria, protein import into the mitochondrial matrix, and regulation of mitophagy, along with regulation of ROS metabolism and transport across membranes. While a few terms touch on neuronal processes (learning, synaptic transmission), the core theme centers on mitochondrial maintenance, calcium handling, and autophagic quality control, which likely drives the groupings. Confidence in this label is Medium.","confidence":"","size":17,"edges":34,"triangles":27,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0036444","count":5},{"id":"GO:1903146","count":4},{"id":"GO:0006820","count":4},{"id":"GO:1903959","count":4},{"id":"GO:2000378","count":4}]},{"hash":"1923412267834232760","title":"Growth factor signaling and cytoskeletal regulation","description":"This cluster is dominated by GO terms related to signaling pathways (ephrin receptor signaling, cellular response to TGF-beta, positive regulation of GTPase activity) and cytoskeletal dynamics (barbed-end actin filament capping, substrate adhesion-dependent cell spreading, endocytosis regulation). There are also nuclear functions present (DNA-templated transcription, ribosome biogenesis), suggesting co-regulation of gene expression with signaling and cytoskeletal processes. Overall, the proteins appear linked to signaling-driven control of the cytoskeleton and membrane trafficking.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050731","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0043547","count":2}]},{"hash":"845348451233231534","title":"Unknown","description":"Top terms form a grab-bag: some developmental terms (left/right pattern formation, metanephros morphogenesis, male gonad development) but others cover vesicle transport, NF-kappaB regulation, IL-6 signaling, PPAR signaling, and ribosome maturation. There is no single cohesive function connecting all terms, so a concise, representative label cannot be derived.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071107","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0000466","count":1}]},{"hash":"661547228949409872","title":"Glycinergic neurotransmission and amino acid transport","description":"This cluster is driven by glycine-related synaptic signaling, with multiple GO terms for glycinergic transmission and glycine transport/import/secretion, complemented by amino-acid uptake (taurine, proline) and neurotransmitter uptake (dopamine, serotonin), suggesting a cohesive module around glycine-mediated neuronal signaling and basic amino acid transport. An unrelated term about adenohypophysis development appears as noise.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0060092","count":5},{"id":"GO:0021984","count":5},{"id":"GO:1905847","count":5},{"id":"GO:0051610","count":5},{"id":"GO:0060012","count":5}]},{"hash":"427007324333624473","title":"Ubiquitin-Dependent Immune Signaling","description":"The GO terms point to ubiquitination processes (ubiquitin-dependent catabolic process, protein ubiquitination, K63-linked ubiquitination) intertwined with immune responses (innate defense against virus, innate immune response, TNF and non-canonical NF-kappaB signaling, MHC I biosynthesis). Although V(D)J recombination appears, the dominant theme is ubiquitin-regulated immune signaling and antiviral defense. This supports a label focused on ubiquitin-mediated immune 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:0051607","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0016567","count":6},{"id":"GO:0033280","count":6}]},{"hash":"1322726857991571269","title":"MAPK-mediated immune signaling","description":"GO terms point to immune signaling and cytokine regulation (T and B cell homeostasis, IL-2\u2013related regulation, GM-CSF and PMA responses) and an activated MAPK pathway (p38MAPK cascade), suggesting these proteins participate in MAPK-driven signal transduction in immune cells.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0071364","count":5},{"id":"GO:0001782","count":5},{"id":"GO:0097011","count":5},{"id":"GO:0071385","count":4},{"id":"GO:0038066","count":4}]},{"hash":"1399824077201707053","title":"Unknown","description":"Top GO terms cover spermatid development, endothelial morphogenesis, GTPase regulation, immune signaling, and cardiac electrophysiology with other diverse processes, giving no single cohesive function for the cluster.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:0001886","count":2},{"id":"GO:0043087","count":2},{"id":"GO:1900042","count":1},{"id":"GO:0086014","count":1}]},{"hash":"2097039247162855713","title":"Microvilli and brush border organization","description":"Based on the top GO terms, the cluster is enriched for microvilli- and brush border-related processes (brush border assembly, follicle cell microvillus organization) and equilibrioception, which can be associated with stereocilia in sensory cells. While some terms (DNA repair, transcription regulation) are broader, the strongest common theme across the terms is the assembly and organization of microvilli/brush border structures, suggesting these proteins may act together in structural or architectural roles rather than a single signaling pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904970","count":2},{"id":"GO:0009826","count":2},{"id":"GO:0032529","count":2},{"id":"GO:0050957","count":2},{"id":"GO:0006281","count":2}]},{"hash":"47696546269979435","title":"Unknown","description":"Top GO terms are highly diverse, including phagolysosome assembly, spinal cord development, Rap protein signaling, TORC1 signaling, cardiac muscle contraction, germ cell development, and multicellular organism growth. There is no single dominant process linking these proteins, and the absence of edges/triangles suggests no cohesive functional module, so a specific label cannot be determined.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001845","count":3},{"id":"GO:0021510","count":3},{"id":"GO:1903527","count":2},{"id":"GO:0032486","count":2},{"id":"GO:0032968","count":2}]},{"hash":"1989113686888237732","title":"Unknown","description":"The top GO terms span immune defense, extracellular matrix/collagen organization, eye development, nuclear export, proteasomal degradation, and chromatin modification, with no single dominant process. This diversity suggests there isn\u2019t a coherent, shared function tying the proteins together, so Unknown is the safest label.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0046827","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0061303","count":2}]},{"hash":"552925248147008156","title":"Germline development and membrane dynamics","description":"The GO terms point to germline processes (oogenesis, spermatid development) alongside membrane/cytoskeleton remodeling (microvillus and podosome assembly) and vesicle trafficking (vesicle fusion, intralumenal vesicle formation), with supportive signaling (GPCR acetylcholine receptor pathway). This suggests a cluster of proteins coordinating germ cell development with membrane dynamics and vesicle trafficking, rather than a single pathway. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032534","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0048477","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0031340","count":2}]},{"hash":"753628848419742868","title":"Unknown","description":"The GO terms cover diverse areas: immune response, GTPase signaling, retina development, cell proliferation, thymocyte differentiation, grooming behavior, circadian rhythms, and stress-related apoptosis. There is no single dominant function linking the proteins, so a coherent, specific label cannot be determined.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006955","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0060041","count":5},{"id":"GO:0008283","count":5},{"id":"GO:0035625","count":4}]},{"hash":"364001113059351675","title":"Cardiovascular signaling and pain response cluster","description":"The dominant terms cover cardiovascular function (blood pressure, heart development, coagulation) and pain/inflammatory signaling (pain perception, monocyte chemotaxis, prostaglandin response, morphine response), along with GPCR-AC signaling. A couple of terms (visual learning, diet-induced thermogenesis) are less connected but do not override the primary cardiovascular-pain theme.","confidence":"Medium","size":16,"edges":42,"triangles":21,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0008542","count":10},{"id":"GO:0007596","count":10},{"id":"GO:0002024","count":10}]},{"hash":"1543278449722151094","title":"Immune activation and lymphocyte differentiation","description":"This cluster is dominated by immune-related GO terms: immune response, interleukin-12 production, immunological synapse formation, and thymocyte differentiation, indicating a theme around immune signaling and lymphocyte development. Additional terms related to GPCR signaling and receptor regulation may reflect signaling cross-talk involved in immune cell communication. Some terms like circadian rhythm and grooming behavior are less central to immunity but do not override the core immune-centric pattern.","confidence":"High","size":16,"edges":73,"triangles":145,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":14},{"id":"GO:1902239","count":14},{"id":"GO:0006955","count":14},{"id":"GO:1904155","count":14},{"id":"GO:0007625","count":14}]},{"hash":"95932993084629091","title":"Neural Drug-Response Signaling","description":"The proteins cluster around brain- and behavior-related GO terms, including responses to cocaine and morphine, pain perception, and visual learning, alongside signaling processes like protein phosphorylation and ERK cascades that underpin neuropharmacology and neural signaling.","confidence":"High","size":16,"edges":66,"triangles":97,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048148","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0006468","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0071380","count":14}]},{"hash":"1299491079944450756","title":"Immune signaling and GPCR pathways","description":"This cluster is dominated by immune-related GO terms (immune response, IL-12 production, immunological synapse formation, thymocyte differentiation) indicating active immune signaling and lymphocyte development. It also includes GPCR signaling-related terms (GPCR transactivation, arrestin desensitization), suggesting a broader role in signaling pathways that modulate immune responses. Some terms about circadian rhythm and behavior are less central but may reflect pleiotropic signaling roles, so the strongest signal is immune communication with GPCR involvement.","confidence":"Medium","size":16,"edges":97,"triangles":319,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":15},{"id":"GO:1902239","count":15},{"id":"GO:0006955","count":15},{"id":"GO:1904155","count":15},{"id":"GO:0007625","count":15}]},{"hash":"2259939323394489936","title":"Cytokine-driven development and angiogenesis","description":"The GO terms highlight immune/cytokine signaling (TNF, IL-27, TH2 cytokines, IL-1\u03b2 regulation) alongside developmental processes (nervous system, organ, and kidney development) and angiogenesis. This suggests a cluster of proteins that mediate cytokine signaling linked to developmental and vascular outcomes rather than a single pathway. ","confidence":"Medium","size":16,"edges":66,"triangles":114,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":4},{"id":"GO:0007026","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0035745","count":3}]},{"hash":"600954164580549483","title":"MAPK-Mediated Neuronal Signaling and ER Homeostasis","description":"Top GO terms point to MAPK pathway regulation (ERK/JNK), neuronal signaling and exocytosis, and ER-related processes (reticulophagy, ER dynamics), suggesting a cluster of proteins coordinating MAPK-driven signaling with neuronal communication and ER/homeostatic aspects. While immune TCR signaling and cell cycle terms appear less central, the shared theme is signaling cascades influencing neuronal function and ER-associated processes.","confidence":"Medium","size":16,"edges":13,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":9},{"id":"GO:0046330","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0007399","count":8}]},{"hash":"371856675648294104","title":"Energy Metabolism and Sensory GPCR Signaling","description":"The cluster strongly centers on energy metabolism and thermal/temperature-related processes (diet-induced thermogenesis, cellular response to temperature stimulus, electron transport chain) alongside sensory perception terms (pain and visual perception). It also features GPCR-related signaling (adenylate cyclase-activating GPCR pathway) and signaling cross-talk (Rho signaling, EGFR transactivation), plus a stress-response component (osmotic-stress\u2013related apoptotic regulation). This combination suggests a cohesive theme of energy homeostasis linked to sensory inputs and GPCR-mediated signaling, with stress adaptation as a common thread.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12}]},{"hash":"1456647572296127608","title":"Nervous system development and myelination","description":"The cluster is dominated by terms tied to neural development and function\u2014myelination, clustering of voltage-gated sodium channels, paranode axon localization, synapse organization, and transmission of nerve impulses\u2014suggesting a nervous-system\u2013focused group. Some terms like angiogenesis or neutrophil clearance are less central and may reflect broader tissue processes, but neural-related terms predominate.","confidence":"High","size":16,"edges":110,"triangles":435,"max_degree":15,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0042552","count":11},{"id":"GO:0045162","count":11},{"id":"GO:0001525","count":11},{"id":"GO:0097350","count":11},{"id":"GO:0050808","count":11}]},{"hash":"1909207196633071890","title":"RTK signaling-driven morphogenesis","description":"The top terms emphasize receptor tyrosine kinase signaling, including peptidyl-tyrosine autophosphorylation and collagen-activated RTK signaling, along with developmental processes like lung morphogenesis and trachea formation, suggesting a cluster centered on RTK-mediated morphogenesis. A few terms touch on adhesion and epigenetic regulation, but the RTK/morphogenesis theme is most representative.","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032212","count":16},{"id":"GO:0010568","count":16},{"id":"GO:0097326","count":16},{"id":"GO:0060440","count":16},{"id":"GO:0071276","count":16}]},{"hash":"109131012233759151","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":111,"triangles":445,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000398","count":7},{"id":"GO:0006378","count":7},{"id":"GO:0034476","count":6},{"id":"GO:0071038","count":6},{"id":"GO:0071035","count":6}]},{"hash":"1507565698300907609","title":"Cell division and organelle distribution machinery","description":"This cluster emphasizes cell division, cell cycle, and septum assembly, with accompanying roles in mitochondrion inheritance and intracellular distribution, ribosomal large subunit export, and endocytic recycling.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":13},{"id":"GO:0051301","count":9},{"id":"GO:0000055","count":9},{"id":"GO:0000001","count":8},{"id":"GO:0032456","count":8}]},{"hash":"1254746644546764122","title":"DNA Damage Response and Translational Regulation","description":"This cluster centers on translation and ribosome biogenesis, with signals of DNA damage response and stress-induced transcription/translation control (p53-related pathways, UV and gamma radiation response), indicating proteins involved in the translation machinery and its regulation within genotoxic stress signaling.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":14},{"id":"GO:0042273","count":3},{"id":"GO:1902164","count":3},{"id":"GO:0032784","count":3},{"id":"GO:0006353","count":3}]},{"hash":"1092863181254806149","title":"Ubiquitin- and autophagy-mediated growth regulation","description":"This cluster features strong signals for ubiquitin-dependent protein catabolic processes and K63-linked ubiquitination, together with autophagosome engulfment, indicating a core focus on proteostasis and autophagy. It also includes terms related to negative regulation of signaling and cell motility (e.g., TGF-beta signaling suppression and contact inhibition), suggesting a role in tuning growth and movement via ubiquitin turnover and autophagic pathways. Some RNA processing and ergosterol biosynthesis regulation terms appear peripheral, but the dominant theme links proteostasis, autophagy, and growth control.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0030512","count":9},{"id":"GO:2000146","count":7},{"id":"GO:0060242","count":7},{"id":"GO:1901016","count":7},{"id":"GO:0042787","count":7}]},{"hash":"611994925378882363","title":"DNA replication and cell cycle control","description":"The top GO terms are dominated by DNA replication and mitotic checkpoint signaling, along with cell division, indicating a core focus on genome duplication and cell cycle progression. Supporting terms such as stress granule disassembly and chaperone-dependent refolding suggest protein quality control during stress, while membrane trafficking-related terms (mitochondrial inner membrane insertion, Golgi retention, intralumenal vesicle formation) reflect general organelle maintenance during cell cycle events. The combination points to a cluster centered on DNA replication and cell cycle regulation with ancillary cellular maintenance processes.","confidence":"Medium","size":16,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":11},{"id":"GO:0070389","count":10},{"id":"GO:0035617","count":9},{"id":"GO:0019079","count":8},{"id":"GO:0070407","count":7}]},{"hash":"721657928029628804","title":"Diverse Stimulus-Triggered Signaling and Transcription","description":"This cluster combines immune-related signaling (T cell receptor signaling, GM-CSF response, LPS response) with broad signal transduction (phosphorelay) and phototransduction/light-detection terms, all pointing toward downstream transcriptional regulation (DNA-templated transcription). The common theme is signal transduction from varied stimuli converging on transcriptional responses, despite the stimuli spanning immune cues and light. ","confidence":"Medium","size":16,"edges":83,"triangles":211,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":13},{"id":"GO:0097011","count":12},{"id":"GO:0071222","count":11},{"id":"GO:0006351","count":11},{"id":"GO:0000160","count":9}]},{"hash":"121277845961611738","title":"Innate antiviral signaling with vesicle trafficking","description":"The proteins cluster around innate immunity, including responses to dsRNA and interferon, and defense against viruses, pointing to an antiviral signaling theme. Trafficking-related terms such as vesicle fusion with the Golgi and intracellular protein transport suggest a role in delivering immune signals. A kidney development term appears less connected, so the core signal is antiviral innate immunity supported by membrane trafficking processes.","confidence":"Medium","size":16,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0001656","count":2},{"id":"GO:0048280","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0071357","count":2}]},{"hash":"1447916026268780435","title":"Growth factor receptor signaling and cell junction dynamics","description":"The cluster centers on receptor-mediated signaling pathways (insulin/IGF receptor signaling, Rac signaling, ephrin receptor signaling, GPCR-related signaling) and processes tied to cell contacts and receptor trafficking (adherens junction organization, regulation of receptor localization to synapse), with links to heart development and metabolic regulation (glycogen biosynthesis, fatty acid import). This suggests a cohesive theme around growth factor\u2013driven signaling coordinating metabolism, development, and cell\u2013cell junctions.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0008286","count":5},{"id":"GO:0016601","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0007507","count":5},{"id":"GO:1901187","count":4}]},{"hash":"2213583525729313323","title":"Actin Remodeling and Muscle Development","description":"Top GO terms indicate a strong emphasis on actin cytoskeleton dynamics (Arp2/3-mediated nucleation; mitotic actomyosin contractile ring assembly) and skeletal muscle fiber development/adaptation, suggesting the proteins cluster around cytoskeletal remodeling linked to cell division and muscle differentiation. Some terms are ancillary (e.g., obsolete annotations), but the core theme remains actin-driven remodeling and muscle-related processes.","confidence":"High","size":16,"edges":116,"triangles":508,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0043486","count":10},{"id":"GO:0001300","count":10},{"id":"GO:0016344","count":10},{"id":"GO:0034314","count":10},{"id":"GO:0048741","count":10}]},{"hash":"1923184906695365691","title":"ER-Golgi trafficking and sterol biosynthesis","description":"This cluster is dominated by GO terms for vesicle transport between the ER and Golgi and intracellular protein transport, plus sterol biosynthetic processes. Together these points strongly suggest a shared role in membrane trafficking and lipid metabolism, despite a few unrelated developmental terms present. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":3},{"id":"GO:0003198","count":2},{"id":"GO:0030502","count":2},{"id":"GO:0007368","count":2},{"id":"GO:0010765","count":2}]},{"hash":"756836530901781860","title":"Neuronal Growth and Synaptic Signaling","description":"Based on the enriched GO terms, the cluster centers on neural development and connectivity: axon extension, dendritic spine development, and cell\u2013cell adhesion point to neuronal growth and synaptic formation, while ERK1/2 and Rho signaling reflect cytoskeletal regulation and signal transduction relevant to neurons. Although there are a few terms tied to other lineages (heart development, megakaryocyte development), the dominant themes are neural growth, signaling, and synaptic regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0048675","count":2},{"id":"GO:0061000","count":2}]},{"hash":"1913164245026052192","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009408","count":15},{"id":"GO:0032781","count":15},{"id":"GO:0097428","count":15},{"id":"GO:1900035","count":15},{"id":"GO:0006458","count":15}]},{"hash":"1484517849863774574","title":"NF-kB/TNF signaling and proteasome regulation","description":"This cluster centers on immune/inflammatory signaling, with terms for non-canonical NF-kappaB signaling, TNF-mediated signaling, and T cell receptor signaling, indicating a core of immune signaling. The inclusion of proteasome core complex assembly links to proteostasis and substrate processing required for NF-kB pathway activation. Additional terms about mRNA stability regulation and stress responses (salt, cadmium) suggest broader regulatory and environmental responsiveness, compatible with a cohesive signaling-proteostasis module across contexts.","confidence":"High","size":16,"edges":118,"triangles":533,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0038061","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0080129","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0043488","count":6}]},{"hash":"316072915586923148","title":"Heterochromatin formation and transcriptional silencing","description":"The top GO terms cluster around heterochromatin formation (rDNA and silent mating-type cassette), and negative regulation of transcription by RNA Pol II, pointing to chromatin-mediated transcriptional silencing as the core theme. Additional terms about development and stress responses may reflect broader chromatin regulatory roles, but the central pattern is chromatin-based transcriptional repression.","confidence":"High","size":16,"edges":41,"triangles":49,"max_degree":10,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0000183","count":7},{"id":"GO:0000122","count":5},{"id":"GO:0009737","count":5},{"id":"GO:0016032","count":5},{"id":"GO:0030154","count":5}]},{"hash":"131156072938541188","title":"Transmembrane Transporters","description":"Proteins in this cluster are enriched for diverse membrane transport activities, spanning ion transport (potassium, sodium), nitrite/nitrate and xenobiotic transport, sugar and vitamin translocation, and neurotransmitter loading into synaptic vesicles\u2014pointing to a common function as membrane transport proteins handling a variety of substrates.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":10},{"id":"GO:0035725","count":10},{"id":"GO:0015707","count":9},{"id":"GO:0015706","count":9},{"id":"GO:0035461","count":9}]},{"hash":"2019631782043022201","title":"Hypoxia-driven endothelial PI3K/AKT and ERK angiogenic signaling","description":"This cluster centers on signaling pathways that promote angiogenesis in endothelial cells under hypoxic conditions, including PI3K/AKT and ERK cascades, with linked calcium mobilization and endothelial proliferation, and touches on coagulation-related processes.","confidence":"High","size":16,"edges":18,"triangles":7,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051897","count":8},{"id":"GO:0070374","count":8},{"id":"GO:0014068","count":7},{"id":"GO:0045766","count":7},{"id":"GO:0007596","count":7}]},{"hash":"1944426923014234474","title":"Translational control and ribosome biogenesis under stress","description":"This cluster centers on translation initiation and ribosome biogenesis, indicating a shared function in protein synthesis regulation. The presence of GO terms tied to cellular stress signals (amino acid starvation, nitric oxide, ethylene) suggests the cluster reflects stress-responsive control of translation and ribosome assembly. A few unrelated terms (like oligodendrocyte development) are present but do not override the prevailing theme.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903833","count":3},{"id":"GO:0071732","count":2},{"id":"GO:0019284","count":2},{"id":"GO:0014003","count":2},{"id":"GO:0019509","count":2}]},{"hash":"940066179410500436","title":"Embryonic organ morphogenesis and development","description":"The top GO terms cluster around early development across multiple organs, including neural crest cell migration, ureteric bud branching, palate formation, tooth odontogenesis, somitogenesis, pancreatic cell development, and digestive tract morphogenesis. This suggests a broad embryonic morphogenesis program rather than a single tissue-specific function. Some terms reflect transcriptional regulation during development, supporting a coordinated developmental theme. Hence, a concise label that captures the developmental and organogenesis theme is appropriate.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001755","count":5},{"id":"GO:0090190","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0060021","count":5},{"id":"GO:0043046","count":4}]},{"hash":"1285437554058659491","title":"UV Damage Response and Nucleotide-Excision Repair","description":"The top GO terms point strongly to nucleotide-excision repair mechanisms (transcription-coupled NER; pyrimidine dimer repair) and UV response (UV-C/UV-B). Additional terms about transcription regulation and cell cycle regulation fit with a coordinated DNA-damage response. While terms like eye morphogenesis and insulin secretion appear, they are less central; the core signal indicates proteins involved in sensing and repairing UV-induced DNA damage and coordinating transcription and cell-cycle responses.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048597","count":2},{"id":"GO:0061178","count":2},{"id":"GO:0000720","count":2},{"id":"GO:0040034","count":2},{"id":"GO:0006283","count":2}]},{"hash":"2226734915846246326","title":"Embryonic organogenesis and neural development","description":"The GO terms cluster around developmental processes across multiple tissues\u2014heart, spinal cord, ectoderm, kidney, and uterine epithelium\u2014with emphasis on neural differentiation and axon guidance. This suggests a broad embryonic development and organogenesis program rather than a single tissue-specific function, so the label captures the shared theme. ","confidence":"High","size":16,"edges":16,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0008045","count":4},{"id":"GO:0035852","count":4},{"id":"GO:0021521","count":4},{"id":"GO:0021520","count":4}]},{"hash":"1672277625528917318","title":"Translational Initiation and mRNA Stability","description":"The terms cluster around initiation and regulation of translation (preinitiation complex, initiation factor assembly, reinitiation, mRNA stability) and related RNA regulatory processes (stress-responsive stability, ncRNA-mediated silencing), with a note on ribosome biogenesis via small-subunit processome assembly and viral reinitiation mechanisms. This cohesive theme centers on how translation is started and how mRNA fate is controlled.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":5},{"id":"GO:0006378","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0075525","count":4}]},{"hash":"1645259152749633417","title":"Membrane signaling and ion-channel regulation","description":"Top GO terms point to phosphorylation, immune signaling (T cell receptor pathway, thymus development), neuronal and glial localization (synapse, myelin), and ion-channel\u2013related processes (membrane depolarization, calcium influx, and potassium channel regulation). This pattern suggests a cluster centered on membrane-initiated signaling and the regulation of excitable properties across immune, neural, and cardiac contexts, rather than a single, narrow function.","confidence":"Medium","size":16,"edges":24,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0035418","count":5},{"id":"GO:0086045","count":5},{"id":"GO:1903760","count":5}]},{"hash":"869860155777644327","title":"Diverse Biosynthetic and Metabolic Processes","description":"The top GO terms cover a range of biosynthetic and metabolic activities, including melanin, retinal, phylloquinone, glucocorticoid, and tropane alkaloid biosynthesis, as well as related catabolic processes. This suggests the cluster groups proteins involved in various biosynthetic and metabolic pathways rather than a single cohesive function. Some terms (like lung development or antibiotic response) appear broader or outliers, but the central theme is diverse biosynthesis/metabolism. ","confidence":"Medium","size":16,"edges":39,"triangles":35,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":12},{"id":"GO:0006355","count":12},{"id":"GO:0042438","count":10},{"id":"GO:0042574","count":10},{"id":"GO:0030324","count":10}]},{"hash":"1270552920049704827","title":"GPCR-driven vascular and platelet signaling","description":"This cluster is dominated by goto terms tied to G protein-coupled acetylcholine receptor signaling, along with processes that regulate vascular tone (vasoconstriction), platelet activation, and VEGF-driven responses, plus integrin regulation and cytoskeletal dynamics (microtubule movement, cell spreading). Together these point to a cohesive theme of signaling pathways coordinating vascular/platelet function and cytoskeletal remodeling, with related apoptosis-related terms adding a broader cell fate context. Therefore, a concise label focused on GPCR signaling in vascular and platelet contexts fits best.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007213","count":7},{"id":"GO:0045907","count":7},{"id":"GO:0006924","count":7},{"id":"GO:0035924","count":7},{"id":"GO:0033623","count":7}]},{"hash":"436817639860076398","title":"Neurodevelopmental signaling and cerebellar morphogenesis","description":"This cluster is dominated by neural development and signaling terms, such as neurotrophin TRK receptor signaling and cerebellum morphogenesis, along with related signaling activities (GTPase regulation, phosphorylation) and cell adhesion, suggesting a cohesive role in neural development and cerebellar signaling. A few immune-regulatory terms are present, but they appear secondary to the neural development theme.","confidence":"Medium","size":16,"edges":21,"triangles":0,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0010923","count":4},{"id":"GO:0045953","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0048011","count":3}]},{"hash":"1790642071295447674","title":"Unknown","description":"The top terms span immune signaling, sensory perception, cyclic nucleotide signaling, metabolism, and even fungal development, with several terms marked obsolete. The lack of edges (0) and the diverse, seemingly unrelated GO terms make it impossible to infer a single cohesive function for the cluster. Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":12},{"id":"GO:0019933","count":12},{"id":"GO:0071321","count":12},{"id":"GO:0010754","count":12},{"id":"GO:0007608","count":12}]},{"hash":"1822781601491602682","title":"Enteric nervous system and gut motility","description":"This cluster is dominated by terms tied to nervous system development and brain-related behaviors (enteric nervous system development, visual learning, grooming behavior) along with peristalsis, which points to neural control of gut motility. ERK signaling involvement supports neuronal signaling, while some immune-related terms may be peripheral noise. Overall, a nervous-system, gut-motility theme best fits.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":11},{"id":"GO:0042493","count":11},{"id":"GO:0030432","count":11},{"id":"GO:0070374","count":11},{"id":"GO:0048484","count":11}]},{"hash":"1222512027025330135","title":"Microtubule Dynamics and Organization","description":"The cluster is driven by GO terms related to microtubule nucleation, cytoplasmic microtubule organization, and positive regulation of microtubule polymerization, indicating a core role in cytoskeleton dynamics; additional terms touch on related trafficking and signaling processes but microtubule functions dominate.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":2},{"id":"GO:0090110","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0060368","count":2},{"id":"GO:0007020","count":2}]},{"hash":"1023018911889991305","title":"Unknown","description":"The top terms are diverse and cover neural development (substantia nigra development, oligodendrocyte differentiation), cardiac/muscle processes (SA node action potential regulation, muscle cell fate), hepatocyte apoptosis, mechanical stimulus response, telomere maintenance, and cytokine regulation, with no clear unifying function or pathway. Edges are absent, so there isn\u2019t a coherent cluster theme to honor with a specific label.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:0097284","count":5},{"id":"GO:0021762","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0048709","count":4}]},{"hash":"1334695241080193659","title":"Neuronal development and synaptic regulation","description":"The cluster shows GO terms centered on neural development and neuronal plasticity, including neural tube closure, dendritic spine morphogenesis, and visual learning, along with transcriptional regulation and ubiquitin-mediated protein turnover\u2014together suggesting gene expression control in neurons and synaptic remodeling. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0001662","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0006511","count":3},{"id":"GO:0051568","count":3}]},{"hash":"160290986380732605","title":"DNA repair and genome integrity","description":"The cluster is dominated by terms for nucleotide-excision repair, UV-damage repair, and mismatch repair, pointing to a core DNA repair/genome maintenance function; a related term on mitotic recombination supports genome stability, while unrelated stress-response terms appear peripheral.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0007339","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0000715","count":2},{"id":"GO:0010188","count":2}]},{"hash":"328828376216747213","title":"Skeletal Development and Wnt Signaling","description":"Most terms point to bone and craniofacial skeletal development and osteoblast lineage specification, with Wnt signaling as a central pathway; additional terms reflect related developmental and cytoskeletal processes that support skeletal formation, such as centrosome localization and podosome assembly. Thus a focused name is Skeletal Development and Wnt Signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051660","count":3},{"id":"GO:0060348","count":3},{"id":"GO:1904179","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0016055","count":3}]},{"hash":"1863184131430137838","title":"Telomere maintenance and telomeric localization","description":"The top GO terms cluster around telomere biology: maintenance, capping, and localization to telomeric regions, suggesting the proteins share a role in chromosome end protection and telomere regulation. Some terms (neurotransmitter secretion, smooth muscle development) appear peripheral or noisy, but the dominant signal is telomere-related functions.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048745","count":4},{"id":"GO:0070198","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0007269","count":3},{"id":"GO:1904743","count":3}]},{"hash":"1177446908951572137","title":"Embryonic organogenesis and patterning","description":"The top GO terms cluster around embryonic development and organ formation (pancreas/endocrine system development, placenta/trophoblast, cartilage morphogenesis) and body axis patterning (left-right formation), with EMT-related morphogenesis, indicating a cohesive developmental morphogenesis theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060707","count":6}]},{"hash":"1327712350913462207","title":"Actin cytoskeleton remodeling and cell adhesion","description":"Top terms emphasize actin-based structures and cell\u2013matrix interactions: podosome and lamellipodium assembly, substrate adhesion-dependent spreading, and Rac/Rho signaling. This points to dynamic cytoskeleton remodeling and adhesion regulation as the cluster's core function. Some developmental terms (heart and parathyroid gland development) may reflect broader roles in tissue morphogenesis but do not dominate the cluster.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0061847","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0071800","count":4},{"id":"GO:0035020","count":4},{"id":"GO:0060670","count":4}]},{"hash":"1472592376857055358","title":"Sensory Perception and Stimulus Response","description":"The cluster is enriched for GO terms tied to multiple sensory modalities (pain, vision) and responses to physical/chemical stimuli (temperature, morphine, prostaglandin E), along with regulation of membrane potential. This points to proteins involved in sensing environmental cues and signaling neural or cellular responses. Some terms like heart development or visual learning are broader or indirect, but the dominant theme is sensory perception and stimulus-driven signaling.","confidence":"Medium","size":15,"edges":24,"triangles":8,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":13},{"id":"GO:0002024","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0007601","count":12},{"id":"GO:0008542","count":11}]},{"hash":"292758361492857212","title":"Dopaminergic neural signaling and drug response","description":"This cluster is dominated by neural and addiction-related processes: dopaminergic synaptic transmission, behavioral responses to cocaine and morphine, sensory perception of pain, visual learning, and ERK/MAPK signaling, all pointing to brain signaling and synaptic plasticity in response to drugs. While a couple of terms (heart development, brain renin-angiotensin system) are peripheral, the core theme across most proteins appears to be neural signaling and drug-induced plasticity.","confidence":"High","size":15,"edges":86,"triangles":252,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048148","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0071380","count":14},{"id":"GO:0002035","count":14}]},{"hash":"1151996267069125956","title":"Dopaminergic Neural Signaling and Plasticity","description":"The top GO terms cluster around neural signaling and plasticity, especially dopaminergic synaptic transmission, ERK signaling, and protein phosphorylation, with a behavioral cue related to cocaine, suggesting dopamine-driven neuronal communication and synaptic remodeling. Some terms like visual perception appear but do not outweigh the dominant neural signaling theme.","confidence":"Medium","size":15,"edges":91,"triangles":304,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0008542","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0071380","count":10},{"id":"GO:0048148","count":10}]},{"hash":"582104618659700817","title":"Integrin-ECM Adhesion Signaling in Development","description":"The top GO terms cluster around cell-matrix adhesion, integrin signaling, receptor clustering, and ECM interactions, with supportive inputs from heart development and axon fasciculation terms. Together they suggest a module of proteins involved in integrin/ECM adhesion signaling that governs adhesion, survival, and morphogenesis.","confidence":"Medium","size":15,"edges":5,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0031914","count":8},{"id":"GO:0043065","count":8},{"id":"GO:2000811","count":8},{"id":"GO:0097155","count":8}]},{"hash":"1788578896995927226","title":"Immune and stress response signaling","description":"Top GO terms indicate immune system activity (immune response, DN2 thymocyte differentiation), temperature/osmotic stress responses (cellular response to temperature stimulus, diet-induced thermogenesis, negative regulation of apoptotic signaling in response to osmotic stress), and broader signaling roles (positive regulation of GTPase activity), along with some behavioral/exocrine processes (grooming behavior, saliva secretion). The terms are diverse and reflect organismal responses to stress and immune cues rather than a single, cohesive molecular function, so a broad label like \u201cimmune and stress response signaling\u201d best captures the cluster.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0002024","count":8},{"id":"GO:0046541","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0071502","count":8}]},{"hash":"2025751758716775448","title":"Neuro-immune stress and circadian signaling","description":"The top GO terms span temperature/thermal stress responses, pain perception, immune activity (immune response, IL-12 production, thymocyte differentiation), and behavioral/circadian processes (grooming, circadian sleep/wake cycle). This points to a broad theme of neuro-immune regulation under stress with circadian/behavioral modulation, rather than a single canonical pathway, so the label emphasizes a general neuro-immune stress signaling cluster.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0071502","count":13},{"id":"GO:0035625","count":12},{"id":"GO:1902239","count":12}]},{"hash":"896127512345482222","title":"Neuronal inflammation and signaling","description":"This cluster combines neuronal-related functions (brain development, synaptic vesicle exocytosis) with inflammatory and stress-response pathways (LPS response, glucocorticoid response, IL-6 regulation, inflammatory response) and PI3K/AKT signaling, suggesting proteins that coordinate neuronal signaling with inflammatory and stress responses, rather than a pure translation module.","confidence":"Medium","size":15,"edges":50,"triangles":100,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0051897","count":3},{"id":"GO:0071222","count":3},{"id":"GO:2000300","count":3},{"id":"GO:0032024","count":3}]},{"hash":"1363198188620378504","title":"Mammary epithelial development and cell cycle regulation","description":"The cluster shows strong representation of mammary gland development and mammary epithelial proliferation terms, along with clear cell cycle regulation signals (G1/S and G2/M transitions) and DNA-templated transcription. This points to proteins involved in epithelial growth during mammary development and coordination of cell division. Some terms like Leydig cell differentiation and early viral transcription are less central and may reflect broader transcriptional machinery, but the dominant theme is mammary epithelial development paired with cell cycle control.","confidence":"Medium","size":15,"edges":88,"triangles":268,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060749","count":14},{"id":"GO:0033327","count":14},{"id":"GO:0006351","count":14},{"id":"GO:0045737","count":13},{"id":"GO:0051301","count":13}]},{"hash":"788030479835831569","title":"Unknown","description":"The top GO terms span neural behaviors (visual learning, grooming behavior, circadian sleep/wake cycle) and immune-related processes (immune response, interleukin-12 production, thymocyte differentiation) with additional stress/apoptosis signals. There is no single, coherent function linking all terms, so a concise, representative label cannot be determined beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":13},{"id":"GO:0035625","count":12},{"id":"GO:1902239","count":12},{"id":"GO:0006955","count":12},{"id":"GO:1904155","count":12}]},{"hash":"1510808834805768446","title":"Neural and muscle development signaling","description":"This cluster centers on developmental signaling pathways and morphogenesis, with GO terms for nervous system development (including dendrite patterning and roundabout/hedgehog signaling) and myoblast fusion/muscle assembly, plus Rho-mediated cytoskeletal regulation. The terms collectively reflect signaling-driven neural and muscular development, with broader developmental roles such as kidney development. ","confidence":"High","size":15,"edges":53,"triangles":85,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":9},{"id":"GO:0007520","count":8},{"id":"GO:0035385","count":7},{"id":"GO:0007224","count":7},{"id":"GO:0007399","count":7}]},{"hash":"479153382767503127","title":"Embryonic organ morphogenesis","description":"The proteins cluster around diverse embryonic development processes, especially organ morphogenesis (heart, hindlimb, eye, placenta, habenula, prostate), plus some transcriptional regulatory activity, suggesting a cohesive role in shaping organs during development.","confidence":"High","size":15,"edges":24,"triangles":6,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003148","count":7},{"id":"GO:0035116","count":7},{"id":"GO:0008584","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0001890","count":6}]},{"hash":"1424792499845657038","title":"Inflammation-driven coagulation and vascular regulation","description":"This cluster is dominated by GO terms linking inflammatory response, blood coagulation, and vascular tone (e.g., response to lipopolysaccharide, inflammatory response, blood coagulation, positive regulation of vasoconstriction, negative regulation of smooth muscle contraction). The presence of pain perception and GTPase activity regulation further supports a coordinated inflammatory and vascular signaling theme. While a couple terms are less central (e.g., growth regulation, an obsolete term), the core pattern points to inflammation-associated coagulation and vascular response.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":9},{"id":"GO:0006954","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0032496","count":9},{"id":"GO:0045986","count":9}]},{"hash":"684244114941599835","title":"Cross-tissue Development and Differentiation","description":"This cluster's top GO terms point to transcriptional control (DNA-templated transcription) and development across several tissues, including mammary gland alveolus development, in utero embryonic development, Leydig cell differentiation, and type I pneumocyte differentiation, with hormone signaling (estrogen receptor) and immune modulation (mast cell activity). The diversity suggests a shared theme of differentiation programs active in multiple tissues rather than a single tissue-specific function. Therefore, a label describing broad developmental/differentiation processes across tissues fits best.","confidence":"Medium","size":15,"edges":29,"triangles":11,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0060749","count":5},{"id":"GO:0001701","count":5},{"id":"GO:0033327","count":5},{"id":"GO:0035902","count":4}]},{"hash":"2182392289571952171","title":"Thermal Stress and Immune Signaling","description":"The top GO terms point to temperature- and stress-related responses (diet-induced thermogenesis; cellular response to temperature stimulus; sensory perception of pain) alongside immune processes (immune response; interleukin-12 production), with additional notes on osmotic-stress\u2013mediated apoptotic regulation and thymocyte differentiation. This suggests a cluster centered on how organisms coordinate metabolic, neural/behavioral, and immune signaling under stress, rather than a single, narrow function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0051482","count":12},{"id":"GO:0035625","count":11}]},{"hash":"2243843062893081407","title":"Neural development and hair follicle morphogenesis","description":"This cluster centers on nervous system development (nervous system development, substantia nigra development, neuron apoptotic regulation) and hair follicle morphogenesis, with supporting signals like Wnt and ERK pathways guiding epithelial proliferation and morphogenesis in multiple tissues (lung, salivary gland). The common theme is developmental processes and morphogenesis across neural and integumentary lineages, driven by conserved signaling cascades.","confidence":"High","size":15,"edges":37,"triangles":58,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":10},{"id":"GO:0071338","count":10},{"id":"GO:0043524","count":10},{"id":"GO:0007399","count":10},{"id":"GO:0021762","count":10}]},{"hash":"550763661974344694","title":"Actin-Driven Cell Morphogenesis and Migration","description":"The top GO terms cluster around actin cytoskeleton dynamics and cell shape changes, including actin filament polymerization, barbed-end capping, lamellipodium and ruffle assembly, and dendritic spine morphogenesis. This points to a cohesive theme of actin-driven remodeling regulating morphogenesis across epithelial and neural contexts, with related terms like keratinization and gland morphogenesis supporting a broader involvement in tissue structure. Overall, the proteins likely function together to govern cytoskeletal organization during cell movement and shape changes.","confidence":"High","size":15,"edges":29,"triangles":16,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031424","count":4},{"id":"GO:0051016","count":4},{"id":"GO:0030036","count":4},{"id":"GO:0030041","count":4},{"id":"GO:0060997","count":4}]},{"hash":"508029237525741774","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006369","count":15},{"id":"GO:0034476","count":14},{"id":"GO:0071038","count":14},{"id":"GO:0072715","count":14},{"id":"GO:0016584","count":14}]},{"hash":"371540973253021784","title":"Golgi trafficking and endocytosis","description":"Based on the GO terms, the cluster centers on Golgi organization and vesicle trafficking, including regulation of Golgi, protein retention in Golgi, clathrin-dependent endocytosis, and synaptic vesicle recycling. These together point to a functional module governing Golgi-based trafficking and vesicle recycling, with some additional, more general processes present. ","confidence":"Medium","size":15,"edges":7,"triangles":0,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:1903358","count":5},{"id":"GO:0051301","count":4},{"id":"GO:1903526","count":4},{"id":"GO:1903423","count":4},{"id":"GO:0008344","count":4}]},{"hash":"1412484730510300384","title":"Golgi/COPII vesicle transport","description":"Most terms emphasize the Golgi apparatus and vesicle trafficking: Golgi organization, COPII-coated vesicle budding, intracellular protein transport, and regulation of synaptic vesicle exocytosis (which relies on the secretory pathway). Additional terms like phosphatidylinositol-mediated signaling and mitotic cell cycle suggest broader membrane trafficking and cellular division links. Taken together, the cluster seems to group proteins involved in the secretory pathway and Golgi-related vesicle transport, with some links to cell cycle processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0007030","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0010796","count":2}]},{"hash":"1337523661101837698","title":"ECM Catabolism and Proteolytic Remodeling","description":"Top GO terms point to breakdown of extracellular matrix components (collagen catabolic process, basement membrane disassembly, bone resorption) and general peptide/protein catabolism (bradykinin, neuropeptide catabolic processes). Additional terms for regulation of catalytic activity, thyroid hormone response, decidualization, and T cell cytotoxicity imply coordinated signaling and immune/hormonal context during tissue remodeling. This combination strongly supports a label centered on proteolysis-driven ECM remodeling with associated signaling.","confidence":"High","size":15,"edges":21,"triangles":26,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":9},{"id":"GO:0045453","count":8},{"id":"GO:0050790","count":7},{"id":"GO:2000179","count":7},{"id":"GO:0030574","count":7}]},{"hash":"2197234133744926154","title":"Neural development and microtubule-based GTPase signaling","description":"In this cluster, the strongest terms are related to nervous system and spinal cord development, together with microtubule-based movement and GTPase signaling (activation and small GTPase-mediated pathways). This points to proteins involved in neural development and cytoskeletal dynamics governed by GTPase activity. Metabolic terms like insulin signaling and glucose transport are present but appear secondary to the predominant neural-development and cytoskeletal themes.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0007018","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0015758","count":3}]},{"hash":"430626075127453668","title":"Rac-driven actin remodeling and lamellipodium organization","description":"The Top Terms show strong enrichment for actin cytoskeleton processes (stress fiber regulation, lamellipodium organization, barbed-end capping) and Rac signaling. Some terms reflect developmental contexts, which can involve cytoskeletal remodeling during morphogenesis. The lack of network edges suggests these proteins share a common cytoskeletal function rather than a single pathway, supporting a label focused on actin dynamics and cell movement.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":3},{"id":"GO:0006886","count":2},{"id":"GO:0001757","count":2},{"id":"GO:0035855","count":2},{"id":"GO:0097581","count":2}]},{"hash":"172836073643710676","title":"Actin dynamics and cell adhesion","description":"The cluster centers on actin cytoskeleton regulation, with terms for actin polymerization, filopodium and podosome assembly, and cell spreading/adhesion, plus small GTPase signaling and cell polarity pathways (including EGFR signaling). These convergent processes drive cytoskeletal remodeling and cell shape changes, consistent with a cohesive actin- and adhesion-focused program. Engulfment of apoptotic cells also involves cytoskeletal rearrangements, which complements this theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":13},{"id":"GO:0051835","count":13},{"id":"GO:0043652","count":13},{"id":"GO:0034260","count":13},{"id":"GO:0007173","count":13}]},{"hash":"460861086951710208","title":"Macrophage/Dendritic cell differentiation and MHC II biosynthesis","description":"The top GO terms cluster around differentiation of the myeloid lineage into macrophages and dendritic cells (macrophage differentiation; myeloid dendritic cell differentiation) and regulation of MHC class II biosynthesis, suggesting a coherent theme of immune cell development and antigen presentation in this cluster. While a few terms relate to other developmental processes, the strongest signals are immune-related, supporting a label focused on myeloid immune differentiation and MHC II biosynthesis.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0061614","count":6},{"id":"GO:0045348","count":6},{"id":"GO:0007464","count":6},{"id":"GO:0043011","count":6}]},{"hash":"1291942610409922088","title":"Neurodevelopmental transcription and chromatin regulation","description":"The cluster is enriched for neural development processes (brain segmentation, neural crest cell migration, motor neuron axon guidance) and for transcriptional control and chromatin modification (negative regulation of transcription by RNA Pol II, DNA-templated transcription, and PRMT-associated arginine methylation including histone methylation). Together these terms point to a cohesive role in regulating gene expression during neural development via epigenetic mechanisms, despite a few outliers that may reflect broader or noisy annotations. ","confidence":"High","size":15,"edges":14,"triangles":0,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0035284","count":5},{"id":"GO:0090398","count":4},{"id":"GO:0043985","count":4},{"id":"GO:0016049","count":4}]},{"hash":"2155964379435052106","title":"Forebrain Development and Neural Patterning","description":"The top GO terms are dominated by nervous system development and forebrain patterning: forebrain-midbrain boundary formation, telencephalon regionalization, brain segmentation, glial cell differentiation, and neuron fate-related transcription regulation. While a few terms touch other organs, the overall signal is cohesive around early neural development and regional identity in the forebrain.","confidence":"High","size":15,"edges":20,"triangles":0,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021905","count":11},{"id":"GO:0010001","count":11},{"id":"GO:0021882","count":11},{"id":"GO:0001755","count":11},{"id":"GO:0021978","count":11}]},{"hash":"1772506087464522271","title":"Epithelial Differentiation & Notch Signaling","description":"The cluster\u2019s top GO terms cluster around keratinocyte differentiation and Notch receptor processing, along with epithelial cell adhesion and migration involved in sprouting angiogenesis. These point to epithelial development and tissue remodeling, with TNF response reflecting inflammatory regulation. While a few terms (e.g., learning, glutamatergic transmission) seem less connected, the core pattern supports a theme of epidermal differentiation and Notch-driven morphogenesis with adhesion and remodeling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030216","count":5},{"id":"GO:0034612","count":5},{"id":"GO:0007220","count":5},{"id":"GO:0010042","count":5},{"id":"GO:0007612","count":4}]},{"hash":"1686240296836292900","title":"Signaling and actin cytoskeleton regulation","description":"The proteins cluster around multiple signaling pathways (insulin receptor, integrin, TGF-beta) and regulators of actin dynamics (positive regulation of GTPase activity, barbed-end actin capping, stress fiber assembly), suggesting a cohesive module where signaling cues drive cytoskeletal remodeling and adhesion processes. The presence of development-related (cerebellum morphogenesis) and immune-related (IL-2 production) terms indicates broader biological contexts, but the dominant pattern is signaling coordinated with cytoskeletal organization. Overall, a signaling-driven cytoskeletal remodeling function best fits this cluster.","confidence":"High","size":15,"edges":14,"triangles":0,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0051044","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0071560","count":4}]},{"hash":"2039155277375971793","title":"Neuronal plasticity and brain myelination","description":"The top GO terms cluster around neuronal function: regulation of short- and long-term synaptic plasticity, sensory perception of sound, substantia nigra development, and myelination, all pointing to brain development and neural signaling. A few terms related to B cell signaling and tight junctions appear, which may reflect annotation noise or shared signaling components, but the dominant pattern is neural. This name captures the main functional theme of the cluster.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048172","count":3},{"id":"GO:0070830","count":3},{"id":"GO:0002337","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0090038","count":2}]},{"hash":"997046391014443778","title":"Translation initiation and ribosome biogenesis","description":"This cluster is dominated by GO terms tied to translation initiation (formation of the preinitiation complex, reinitiation, IRES-driven initiation, and regulation of initiation) and ribosome-related RNA processing (small-subunit processome assembly) with additional RNA processing (spliceosome regulation) and mRNA stabilization terms. The convergence on initiation and ribosome biogenesis suggests a cohesive theme around early stages of protein synthesis and related RNA processing, even though other terms appear variably. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":7},{"id":"GO:0002188","count":7},{"id":"GO:0075522","count":6},{"id":"GO:0006446","count":6},{"id":"GO:0075525","count":6}]},{"hash":"1858690001401042228","title":"Innate Immune Signaling and Oxidative Stress Response","description":"Dominant GO terms point to innate immune signaling through MyD88-dependent TLR pathways and NF-\u03baB activation, plus cellular responses to oxidative stress (hydroperoxide). While a few terms touch neural development and protein aggregation, the strongest, recurring signals are immune signaling and oxidative stress responses, suggesting the cluster centers on these functions. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044130","count":2},{"id":"GO:0071447","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0043123","count":2},{"id":"GO:1990000","count":2}]},{"hash":"1294354798236360417","title":"Neurodevelopment and behavior","description":"The proteins are enriched for neural development and synaptic function terms (neural tube closure; regulation of excitatory postsynaptic potential; long-term synaptic depression) and behavior (social and vocalization behavior), suggesting a cluster focused on neural development and behavioral regulation, with some secondary terms linking to broader development.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001843","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0038202","count":3},{"id":"GO:2000463","count":3},{"id":"GO:0060292","count":3}]},{"hash":"610978568204074712","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010124","count":3},{"id":"GO:0044205","count":2},{"id":"GO:0033615","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0009239","count":2}]},{"hash":"1990031924311841577","title":"Brain-region neuronal development","description":"Based on the frequent GO terms, the cluster is strongly linked to development of multiple brain regions (hippocampus, thalamus, hypothalamus, midbrain) and pyramidal neuron development, with additional mitochondrial metabolism terms that may reflect neuronal energy needs. This points to a functional theme of brain-region\u2013specific neural development.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042219","count":1},{"id":"GO:0010756","count":1},{"id":"GO:0021766","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0009060","count":1}]},{"hash":"314220879131845905","title":"Nucleotide Catabolism and Salvage","description":"The majority of top GO terms point to breakdown and salvage of nucleotides and nucleosides (cellulose catabolic process appears as an outlier, but uridine and purine ribonucleoside salvage, nucleotide catabolic process, and UMP salvage are coherent). Additional terms touch on NAD and menaquinone biosynthesis, which can relate to broader metabolic contexts, while a couple of immune-related terms (interleukin-2 production and T cell differentiation) may reflect annotation cross-talk rather than a core cluster function. Overall, nucleotide metabolism and salvage best explain the cluster\u2019s functional signal.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":4},{"id":"GO:0006218","count":3},{"id":"GO:0009166","count":3},{"id":"GO:0006166","count":3},{"id":"GO:0070970","count":3}]},{"hash":"201602663300896934","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":45,"triangles":54,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":6},{"id":"GO:0030206","count":6},{"id":"GO:0006711","count":5},{"id":"GO:0006805","count":5},{"id":"GO:0018146","count":5}]},{"hash":"429997959796169729","title":"Ubiquitin-dependent proteolysis in immunity and muscle development","description":"Most frequent GO terms center on ubiquitin-dependent proteolysis and ubiquitination, with immune defense (innate and antiviral) and skeletal muscle development also represented. This points to a theme where the ubiquitin-proteasome system modulates immune signaling and muscle tissue development.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0051607","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0030433","count":5},{"id":"GO:0050853","count":4}]},{"hash":"1218744098611668950","title":"GPCR-Driven Immune Signaling","description":"The cluster shows strong representation of immune-related functions (immune response, immunological synapse formation, IL-12 production, thymocyte differentiation) alongside GPCR signaling processes (GPCR pathway activity and receptor transactivation). Although a few terms touch circadian or behavioral aspects, the predominant signal is immune signaling modulated by GPCR pathways, suggesting a cohesive theme around GPCR-mediated immune communication. ","confidence":"Medium","size":15,"edges":5,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":11},{"id":"GO:1902239","count":11},{"id":"GO:0006955","count":11},{"id":"GO:1904155","count":11},{"id":"GO:0007625","count":11}]},{"hash":"1795767867432365051","title":"Unknown","description":"The terms span mechanosensory perception, telomere maintenance, cell cycle/spindle assembly, Wnt and ephrin signaling, and protein ADP-ribosylation. There is no clear, cohesive biological theme linking these functions, and the cluster lacks interaction evidence, suggesting the proteins are a heterogeneous mix rather than a single functional module.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050966","count":3},{"id":"GO:0032212","count":3},{"id":"GO:1904743","count":3},{"id":"GO:0007205","count":3},{"id":"GO:1904357","count":3}]},{"hash":"1111270144060839097","title":"Immune and Hepatic Apoptosis with Migration and Polarity","description":"These proteins show strong links to apoptotic processes in immune (myeloid) cells and liver (hepatocytes), along with cell migration and establishment of epithelial cell polarity. While there are additional terms related to mRNA stability and telomere maintenance, the common thread appears to be apoptosis-linked cell movement and tissue organization, justifying a cohesive label around apoptosis with migration/polarity. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033028","count":8},{"id":"GO:0097284","count":8},{"id":"GO:0016477","count":8},{"id":"GO:0090162","count":8},{"id":"GO:0007205","count":7}]},{"hash":"2299903273629279673","title":"Immune Activation and T Cell Development","description":"This cluster\u2019s top GO terms are dominated by immune-related processes: immune response, interleukin-12 production, immunological synapse formation, and DN2 thymocyte differentiation, pointing to roles in immune signaling and early T cell development. Some terms like circadian rhythm and grooming behavior are present but appear peripheral to the main immune-focused theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":15},{"id":"GO:1902239","count":15},{"id":"GO:0006955","count":15},{"id":"GO:1904155","count":15},{"id":"GO:0007625","count":15}]},{"hash":"1518666053435280814","title":"Embryonic and Placental Development and Morphogenesis","description":"The cluster centers on embryonic development with emphasis on placenta and endocrine system development, tissue morphogenesis (cartilage), and patterning events (left-right), plus EMT in heart formation. This combination points to proteins involved in developmental differentiation and morphogenesis, particularly related to placental/endocrine contexts, with supporting signals from transcription regulation and RNA processing.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032298","count":7},{"id":"GO:0003323","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0000398","count":7},{"id":"GO:0060806","count":7}]},{"hash":"858040895175308775","title":"Neuronal Synaptic Signaling and Ion Transport","description":"The top GO terms cluster around neural communication and brain development (chemical synaptic transmission, long-term synaptic depression, sensory perception of sound, telencephalon development) with accompanying ion homeostasis processes (calcium export, manganese transport). While a couple terms touch on broader developmental themes, the strongest signal is neuronal signaling and ion handling, justifying this label.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990034","count":2},{"id":"GO:0060292","count":2},{"id":"GO:0006970","count":2},{"id":"GO:0007268","count":2},{"id":"GO:0007605","count":2}]},{"hash":"1894717131711479687","title":"Complement Activation and Coagulation","description":"The top GO terms are dominated by complement activation (classical and lectin pathways) and positive regulation of blood coagulation, with defense response to Gram-positive bacteria, indicating a cluster centered on innate immune and coagulation processes. A few developmental and transcription-related terms appear, likely reflecting pleiotropy or annotation noise, but the core signal supports a complement/coagulation focus.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0001867","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0031214","count":3},{"id":"GO:0030194","count":3}]},{"hash":"1002181931728531286","title":"Neuronal signaling and cytoskeletal dynamics","description":"These proteins cluster around neuronal signaling (dopamine-related terms and EPSP regulation), neural development/migration (tangential migration to the olfactory bulb, polarity maintenance), and actin cytoskeleton remodeling (actin filament severing), with links to signaling pathways like Wnt and CAMKK-AMPK. The mix points to a broad module involving neuronal communication and cytoskeletal dynamics, though the connections are not tied to a single clear pathway. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060161","count":1},{"id":"GO:0022028","count":1},{"id":"GO:0051014","count":1},{"id":"GO:1903351","count":1},{"id":"GO:1903125","count":1}]},{"hash":"1928603938237181496","title":"SHH-Dependent Developmental Signaling","description":"This cluster centers on hedgehog (Smoothened) signaling and broad developmental processes, including nervous system, brain, kidney, and hair follicle placode formation, all of which are governed by SHH signaling. The top GO terms strongly point to SHH-mediated organogenesis, with supportive hints from vesicle transport and exocytosis-related processes that can accompany developmental programs.","confidence":"High","size":14,"edges":40,"triangles":41,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0060789","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0000186","count":6},{"id":"GO:0051301","count":5}]},{"hash":"1403134294615109566","title":"GPCR Signaling and Immune Regulation","description":"The cluster is dominated by GO terms tied to GPCR signaling and downstream cAMP pathways (adenylate cyclase activation), including positive regulation of blood pressure and GPCR-mediated signaling. It also includes immune-related processes (immune response, interleukin-12 production, thymocyte differentiation) and neural/behavioral associations (grooming behavior), suggesting a set of proteins that participate in GPCR-driven signaling with immune and nervous system modulation. A metabolic term (electron transport chain) is less aligned but may reflect broader roles within the cluster.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0007190","count":12},{"id":"GO:0035625","count":10}]},{"hash":"901227389248554424","title":"Neuronal development and axon guidance","description":"The proteins in this cluster are strongly enriched for neuronal development and guidance processes, including dendrite self-avoidance, long-term synaptic plasticity, axon fasciculation, chemorepulsion in interneuron migration, Slit diaphragm/Slit-Robo\u2013related guidance, RTK signaling at the cell surface, and photoreceptor differentiation, all pointing to coordination of neuronal wiring and activity-dependent signaling.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0070593","count":9},{"id":"GO:0048170","count":9},{"id":"GO:0097155","count":9},{"id":"GO:0036060","count":9},{"id":"GO:1902948","count":9}]},{"hash":"1068336078097439083","title":"Neural development and synaptic signaling","description":"The top GO terms heavily point to nervous system development and synaptic activity: excitatory postsynaptic potential, substantia nigra development, and Schwann cell development. These together suggest a theme centered on neural development and neural communication, supported by related terms like dendrite morphogenesis and chromatin regulation that often accompany neuronal development programs. While there are some muscle development terms present, they are less central to the dominant pattern of neural development and synaptic function.","confidence":"Medium","size":14,"edges":10,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060079","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0021762","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0035562","count":4}]},{"hash":"2146884251212055878","title":"Neural and immune tyrosine kinase signaling","description":"The cluster is enriched for receptor tyrosine kinase\u2013driven signaling and STAT/cytokine pathways (e.g., IL-27 signaling, TH2 cytokine production, STAT phosphorylation), alongside neuronal development processes (dendrite self-avoidance, axon fasciculation, synaptic plasticity, photoreceptor differentiation, slit diaphragm assembly). This suggests a theme centered on tyrosine kinase\u2013mediated signaling that operates in both neural development and immune responses.","confidence":"High","size":14,"edges":73,"triangles":207,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":9},{"id":"GO:0070106","count":8},{"id":"GO:0035745","count":8},{"id":"GO:0070593","count":7},{"id":"GO:0048170","count":7}]},{"hash":"1157195839457081905","title":"Cardiovascular and Neural Development with Redox Regulation","description":"Top GO terms show heart development, axon guidance, and brain development, indicating neural and cardiac developmental themes. Additional terms point to redox-related processes (hydrogen peroxide catabolic process, nitrosative stress response, cellular oxidant detoxification) and related transport/differentiation (bicarbonate transport, enucleate erythrocyte differentiation). The combination suggests proteins involved in development of neural and cardiovascular tissues with concurrent redox regulation, hence the label.","confidence":"Medium","size":14,"edges":10,"triangles":4,"max_degree":5,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0007411","count":5},{"id":"GO:0007420","count":4},{"id":"GO:0042744","count":3},{"id":"GO:0015701","count":3}]},{"hash":"919810210025600013","title":"Signaling regulators and mitosis machinery","description":"This cluster combines negative regulation of MAPK/ERK and other signaling pathways (including TCR and JAK-STAT) with tyrosine dephosphorylation, alongside kinetochore and spindle-associated localization, suggesting proteins that modulate signaling while coordinating mitosis. ","confidence":"Medium","size":14,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0000200","count":12},{"id":"GO:0070373","count":12},{"id":"GO:0050860","count":12},{"id":"GO:0034501","count":10},{"id":"GO:0035335","count":10}]},{"hash":"2214802445713037208","title":"Neural development and axon guidance","description":"This cluster\u2019s terms cluster around nervous system development, axon pathfinding and connectivity (paranode localization, dendrite self-avoidance, fasciculation), and synaptic modulation, with additional eye-related neural differentiation. The presence of a heart development term appears incidental, but does not override the dominant neural connectivity theme.","confidence":"High","size":14,"edges":45,"triangles":51,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0002175","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0070593","count":8}]},{"hash":"2260076476411647415","title":"Oxidative Stress Response and Redox Homeostasis","description":"This cluster is dominated by GO terms related to redox biology and oxidative stress, including responses to hydrogen peroxide, oxidant detoxification, redox homeostasis, and related protein maintenance/modification processes, indicating a cohesive role in managing oxidative stress and maintaining redox balance.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0070301","count":3},{"id":"GO:0030091","count":3},{"id":"GO:0006464","count":3},{"id":"GO:0098869","count":2}]},{"hash":"1547810254039900195","title":"GPCR-Mediated Immune Signaling","description":"This cluster shows enrichment in immune-related GO terms (immune response, IL-12 production, immunological synapse formation, DN2 thymocyte differentiation) along with entries pointing to GPCR signaling and its regulation (GPCR transactivation, desensitization). The combination suggests proteins functioning in GPCR-driven immune signaling and T-cell development, rather than a single homogeneous process; thus a label emphasizing GPCR-mediated immune signaling captures the main theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":14},{"id":"GO:1902239","count":14},{"id":"GO:0006955","count":14},{"id":"GO:1904155","count":14},{"id":"GO:0007625","count":14}]},{"hash":"2169318371464085792","title":"Cytoskeleton dynamics and trafficking","description":"This cluster is driven by terms such as positive regulation of GTPase activity, endocytic recycling, lamellipodium morphogenesis, and protein localization to the cilium, which together point to coordinated cytoskeletal remodeling and membrane trafficking. Some outlier terms (rRNA processing and osteoblast fate commitment) may reflect sporadic annotations, but the dominant theme is cytoskeleton dynamics and vesicular transport.","confidence":"Medium","size":14,"edges":42,"triangles":60,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:1990126","count":3},{"id":"GO:0071230","count":2},{"id":"GO:0000448","count":2},{"id":"GO:0006378","count":2}]},{"hash":"1643814141654390209","title":"Retinoid metabolism and signaling","description":"Dominant terms are retinol and retinal metabolic processes, with additional signals related to retinoic acid biosynthesis regulation, indicating a core retinoid metabolism and control theme. While other terms (e.g., vitamin C biosynthesis, xenobiotic catabolism, potassium transport) appear, they are less central to the cluster\u2019s primary function, so labeling it as retinoid metabolism and signaling best captures the main biological signal.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":14},{"id":"GO:0042574","count":14},{"id":"GO:0071805","count":8},{"id":"GO:2000224","count":8},{"id":"GO:0042843","count":8}]},{"hash":"144145045326040684","title":"Chromatin Remodeling and Nucleosome Dynamics","description":"This cluster centers on chromatin state control, with GO terms highlighting histone acetylation regulation (H3-K9/K14) and nucleosome assembly/disassembly, pointing to chromatin remodeling and transcriptional regulation. Additional terms such as regulation of microtubule polymerization, protein transport, and cell division-related processes (budding growth, stem cell division) suggest a broader link between chromatin dynamics and cell-cycle progression. Overall, the core theme is chromatin remodeling and nucleosome dynamics.","confidence":"Medium","size":14,"edges":13,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2000617","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0031116","count":2},{"id":"GO:0071442","count":2},{"id":"GO:0006334","count":2}]},{"hash":"445677575341140170","title":"Developmental signaling and EMT","description":"This cluster includes terms tied to developmental processes (heart and gonad development, visual perception) and key signaling/exocytic processes (EGFR pathway, exocytosis, protein dephosphorylation) as well as epithelial to mesenchymal transition. The combination points to proteins involved in developmental signaling and cell state transitions rather than a single specialized function.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006887","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0008584","count":2}]},{"hash":"2230486640246160164","title":"Fungal sporulation and spindle assembly","description":"The top terms cluster around microtubule nucleation, mitotic spindle pole body duplication, and ascospore prospore membrane formation, which together point to fungal cell division and sporulation processes. Additional regulation of DNA binding/chromatin, plus exocytosis and dephosphorylation, align with membrane remodeling and signaling during these events. Overall, the shared theme appears to be sporulation-related cell division in fungi, with a focus on spindle assembly and spore membrane formation.","confidence":"Medium","size":14,"edges":32,"triangles":20,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043388","count":8},{"id":"GO:0007020","count":7},{"id":"GO:0032120","count":7},{"id":"GO:1903087","count":7},{"id":"GO:0035562","count":6}]},{"hash":"449332430729665386","title":"Cytoskeletal remodeling and cell migration","description":"This cluster is driven by terms related to cytoskeletal dynamics and cell movement: filopodium assembly, regulation of filopodium and substrate-adhesion dependent spreading, and Rho signaling, all pointing to cytoskeletal remodeling and cell migration. A neuronal context is hinted by the GABAergic synaptic transmission term, suggesting some proteins may function in neuronal connectivity as well. Overall, the dominant signal is cytoskeletal control of cell shape and motility, with possible secondary roles in neuronal signaling.","confidence":"High","size":14,"edges":24,"triangles":0,"max_degree":9,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":12},{"id":"GO:0051489","count":12},{"id":"GO:0051932","count":12},{"id":"GO:0046847","count":12},{"id":"GO:0045792","count":12}]},{"hash":"1477076450807686662","title":"Neural development with innate immune signaling","description":"This cluster mixes neural development processes (myelination, positive regulation of synapse assembly, axonal fasciculation) with innate immune tasks (innate immune response, chemokine and IL-1 signaling) and cytoskeletal remodeling (actin filament severing). The shared theme appears to be coordination of nervous system development and inflammatory signaling, with some sensory organ development hinted by otolith morphogenesis. This suggests a role in neural maturation influenced by immune signals, rather than a single isolated pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090197","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0042552","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0045087","count":5}]},{"hash":"1648056989128722001","title":"mRNA processing and translation initiation","description":"The Top Terms converge on mRNA maturation and handling processes\u2014polyadenylation, RNA Pol II CTD regulation, small-subunit processome assembly, mRNA stabilization/export, splicing regulation, and the formation of the translation preinitiation complex (eIF4F assembly). This suggests a cohesive cluster of proteins involved in mRNA processing, export, and the transition to translation, including ncRNA-mediated regulation and stress-responsive stability.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":10},{"id":"GO:1901407","count":10},{"id":"GO:0034462","count":9},{"id":"GO:0048255","count":9},{"id":"GO:0097010","count":9}]},{"hash":"2131959012144692440","title":"Muscle contraction and movement regulation","description":"This cluster is dominated by GO terms related to muscle function, including cardiac muscle contraction, muscle filament sliding, and regulation of sliding speed, along with backward locomotion, highlighting a core theme of muscle movement machinery. Some terms (spermatid development, brain development, ribosomal subunit export) are less directly aligned but do not override the overall muscle-focused signal.","confidence":"Medium","size":14,"edges":20,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0045668","count":2}]},{"hash":"874645224586461652","title":"Metabolic Catabolism and Cofactor Biosynthesis","description":"This cluster is dominated by diverse metabolism- and biosynthesis-related GO terms: L-kynurenine and L-alanine catabolic processes, gluconeogenesis, and organic phosphonate catabolism, plus biosynthetic/cofactor-related terms such as [2Fe-2S] cluster assembly, mitochondrial tRNA thio-modification, and pyridoxine biosynthesis. The Notch signaling term appears as a secondary thread rather than the primary theme. Together, these terms point to a metabolic/cofactor-biosynthesis oriented cluster with a supplemental signaling component.","confidence":"Medium","size":14,"edges":68,"triangles":220,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097053","count":5},{"id":"GO:0042853","count":5},{"id":"GO:0007219","count":5},{"id":"GO:0019878","count":4},{"id":"GO:0006094","count":3}]},{"hash":"121441269834302177","title":"Central carbon metabolism","description":"The top GO terms cluster around glycolysis, acetyl-CoA formation (pyruvate decarboxylation), the TCA cycle, gluconeogenesis, and related biosynthetic processes (malonyl-CoA, fatty acid biosynthesis, 2-oxoglutarate metabolism), with additional links to nucleotide precursor pathways. This points to a cohesive theme of core carbon metabolism and energy production, rather than a single specialized pathway. ","confidence":"High","size":14,"edges":32,"triangles":60,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0019878","count":5},{"id":"GO:0033512","count":4},{"id":"GO:0006103","count":3},{"id":"GO:0006213","count":3}]},{"hash":"1438522762747430518","title":"Chromatin remodeling and transcription regulation cluster","description":"The top GO terms point to chromatin dynamics and transcription control (negative regulation of transcription by RNA polymerase II; transcription initiation-coupled chromatin remodeling; DNA replication-dependent chromatin assembly; rDNA heterochromatin formation) supported by protein\u2013protein interactions (heterotetramerization). Developmental terms (cardiac atrium morphogenesis; vitellogenesis; multicellular organism growth) suggest roles in chromatin-mediated regulation during organismal development, making a cohesive theme around chromatin remodeling and transcription regulation.","confidence":"High","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0051290","count":13},{"id":"GO:0045815","count":13},{"id":"GO:0006335","count":13},{"id":"GO:0000183","count":13}]},{"hash":"274173138092169700","title":"Brain development and forebrain patterning","description":"This cluster is dominated by GO terms related to neural development and forebrain specification, including forebrain neuron fate commitment, forebrain-midbrain boundary formation, telencephalon regionalization, pituitary gland development, glial differentiation, neural crest cell migration, and brain segmentation. While a couple terms reference broader embryonic morphogenesis (e.g., fungiform papilla morphogenesis, digestive tract morphogenesis), the neural development signals are clearly the strongest theme, justifying the chosen label as representative of the cluster\u2019s core function.","confidence":"High","size":14,"edges":27,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0021882","count":7},{"id":"GO:0021983","count":7},{"id":"GO:0021905","count":6},{"id":"GO:0010001","count":6},{"id":"GO:0001755","count":6}]},{"hash":"1624014257536257527","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":27,"triangles":28,"max_degree":10,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0002181","count":4},{"id":"GO:0006407","count":2},{"id":"GO:0033119","count":2},{"id":"GO:0006378","count":2}]},{"hash":"770248897741395773","title":"Innate immune response and leukocyte adhesion","description":"The GO terms with the highest representation cluster around innate immunity and leukocyte interactions: cellular response to fungal molecules, lectin pathway complement activation, basophil activation, leukocyte tethering/rolling, and regulation of adhesion molecule production. While a couple of terms pertain to development (cartilage condensation, nephrogenesis), the dominant theme is immune activation and recruitment of leukocytes, justifying this label.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":13},{"id":"GO:2000502","count":11},{"id":"GO:0001502","count":11},{"id":"GO:0050901","count":10},{"id":"GO:0072287","count":10}]},{"hash":"255953978589634766","title":"Complement Activation and MAC Regulation","description":"The top GO terms are dominated by complement system activity: classical, alternative, and lectin pathways, along with positive regulation of membrane attack complex activation. This points to a cluster of proteins involved in innate immunity and MAC-mediated lysis. Developmental terms appear but are less cohesive, so the strongest shared function is engagement of the complement cascade.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0061551","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0030901","count":3}]},{"hash":"147390250254133253","title":"Neural and Eye Development Regulators","description":"This cluster is enriched for neural and sensory organ development terms (midbrain, cerebellum, camera-type eye development, motor neuron axon guidance) along with transcriptional regulation by RNA polymerase II. The combination suggests proteins that regulate gene expression during neural and eye development, coordinating growth and differentiation across CNS and sensory tissues, with a broader tie to developmental programs like muscle formation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":5},{"id":"GO:0021549","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0002087","count":3}]},{"hash":"6019473832959817","title":"Neural Development and Vascular-Immune Regulation","description":"These proteins show strong signals for neural development (midbrain development) and transcriptional control by RNA polymerase II (both negative and positive regulation), suggesting a neural-development core. The co-occurring terms for endothelial barrier establishment, cell-matrix adhesion, fibrinogen regulation, and complement activation imply linked vascular and immune/coagulation processes that often accompany tissue remodeling during development. Overall, the cluster appears to reflect neural development with accompanying vascular-immune regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":5},{"id":"GO:0045944","count":5},{"id":"GO:1903142","count":4},{"id":"GO:0044537","count":3}]},{"hash":"1053527608044922644","title":"Unknown","description":"The top GO terms are highly diverse, spanning collagen fibril organization (ECM structure), regulation of telomere maintenance, immune signaling, RNA stability, and cardiac electrical coupling. This spread suggests there is no single cohesive function linking these proteins as a unit.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":6},{"id":"GO:0032212","count":5},{"id":"GO:0045083","count":5},{"id":"GO:0090501","count":5},{"id":"GO:1904743","count":5}]},{"hash":"873781013821299949","title":"Neural Development and Synaptic Maturation","description":"The terms point mainly to neural development and synaptic function: vocalization/learning, neurotransmitter secretion, and synapse maturation/transmission. Some items (neural tube closure, myoblast development) are broader developmental processes but still align with early neural development, supporting a neural development/synaptic maturation theme.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042297","count":1},{"id":"GO:0048627","count":1},{"id":"GO:0007269","count":1},{"id":"GO:0090129","count":1},{"id":"GO:0042130","count":1}]},{"hash":"1019024363366350444","title":"Mitochondrial lipid biosynthesis and remodeling","description":"This cluster centers on mitochondrial energy production and extensive lipid biosynthesis/remodeling (cardiolipin, phosphatidylcholine, ether lipids, triglycerides, CDP-diacylglycerol), indicating a cohesive theme of mitochondrial lipid metabolism that supports respiration and membrane signaling.","confidence":"High","size":14,"edges":41,"triangles":50,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042775","count":7},{"id":"GO:0006663","count":7},{"id":"GO:0021587","count":7},{"id":"GO:0036151","count":7},{"id":"GO:0008611","count":7}]},{"hash":"2035254106879955225","title":"Embryonic organogenesis","description":"The top GO terms point to broad developmental processes across multiple organs and tissues\u2014lung, renal system, heart (cardioblast differentiation), somite formation, notochord, and brain regionalization\u2014indicating genes involved in early embryonic organogenesis and patterning rather than a single specialized function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":3},{"id":"GO:0072001","count":3},{"id":"GO:0060577","count":2},{"id":"GO:0042684","count":2},{"id":"GO:0001756","count":2}]},{"hash":"306247200118462597","title":"T cell activation and angiogenesis signaling","description":"This cluster shows a mix of adaptive immune responses (T cell costimulation and proliferation) and innate immune response, coupled with signaling pathways (MAPK/ERK, Rho) and processes involved in cell-matrix adhesion and vascular remodeling (angiogenesis and vasoconstriction), suggesting a theme of immune activation linked to angiogenic/vascular signaling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0002250","count":5},{"id":"GO:0031295","count":4},{"id":"GO:0042102","count":4}]},{"hash":"649884383236075499","title":"Ubiquitin-Dependent Proteolysis and Chromatin Regulation","description":"The cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes, autoubiquitination, and ERAD, indicating strong representation of protein turnover. It also includes chromatin-related terms (histone catabolic process, histone modifications, dosage compensation), suggesting a link to gene expression control via chromatin state. Some immune-related terms (V(D)J recombination, TNF signaling) appear, but the core theme seems to be ubiquitin-mediated degradation together with chromatin regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0051865","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0033151","count":4},{"id":"GO:1903265","count":4}]},{"hash":"517963639969156493","title":"Neural development and transcriptional regulation","description":"The top terms point to DNA-templated transcription and neural development (forebrain development, neural tube closure), suggesting these proteins act in transcription- or regulatory processes during neural development. Other terms reflect broad stress, signaling, and transport roles, but the dominant theme is neural development linked to transcriptional control.","confidence":"High","size":13,"edges":44,"triangles":49,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:0007275","count":11},{"id":"GO:0019233","count":10},{"id":"GO:0071276","count":9},{"id":"GO:0006349","count":9}]},{"hash":"473417293641373031","title":"Immune response and T cell development","description":"The cluster centers on immune-related processes: immune response, IL-12 production, immunological synapse formation, and DN2 thymocyte differentiation, pointing to a theme of immune signaling and T cell lineage development. Some terms like circadian rhythm or grooming behavior appear as ancillary annotations but do not define the core function. ","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":12},{"id":"GO:1902239","count":12},{"id":"GO:0006955","count":12},{"id":"GO:1904155","count":12},{"id":"GO:0007625","count":12}]},{"hash":"1498063562387886391","title":"Transmembrane metal ion transport and ion homeostasis","description":"The top GO terms cluster around transmembrane transport of metal ions (copper, zinc, monoatomic cations), maintenance of membrane electrochemical gradients, polyamine transport, and calcium ion homeostasis, suggesting a coherent function in ion transport and ionic balance across membranes. A developmental term for vestibulocochlear nerve formation is noted but does not override the main transport/homeostasis theme.","confidence":"High","size":13,"edges":40,"triangles":62,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0021650","count":10},{"id":"GO:0060003","count":10},{"id":"GO:0061092","count":10},{"id":"GO:0071577","count":10},{"id":"GO:1900082","count":10}]},{"hash":"1923918668499312173","title":"ER-Golgi Trafficking in Development","description":"The cluster centers on vesicle transport between the ER and Golgi and retrograde endosome-to-Golgi transport, with multiple development-related terms spanning limb, placenta, adipose, adrenal, gonadal development, and embryo implantation, suggesting proteins involved in the secretory/trafficking machinery that modulate developmental processes.","confidence":"Medium","size":13,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0043124","count":2},{"id":"GO:0060173","count":2},{"id":"GO:0001893","count":2},{"id":"GO:0045444","count":2}]},{"hash":"1478046589864889555","title":"Rho and RTK signaling in development","description":"The top GO terms point to core signaling mechanisms\u2014regulation of Rho GTPase signaling and receptor tyrosine kinase (RTK) activity, including peptidyl-tyrosine autophosphorylation\u2014central to coordinating cytoskeletal dynamics with cell signaling. The presence of processes like myoblast fusion, retinal ganglion cell axon guidance, axial mesoderm formation, and pericyte differentiation suggests a broader developmental morphogenesis theme where RTK and Rho pathways drive cell fate decisions, movement, and tissue formation. This makes the cluster representative of developmental signaling hubs that integrate cytoskeletal remodeling with differentiation programs.","confidence":"Medium","size":13,"edges":70,"triangles":220,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":11},{"id":"GO:0007520","count":10},{"id":"GO:0070593","count":8},{"id":"GO:0007169","count":8},{"id":"GO:0038083","count":8}]},{"hash":"939985247023069192","title":"Cell Division and Vesicle Trafficking","description":"The top GO terms point to mitotic processes (cell division, mitotic cell cycle, mitotic spindle assembly) alongside vesicle-related transport activities (COPII budding, Golgi-to-ER retrograde transport, endosome-to-melanosome transport). This suggests a cluster of proteins involved in coordinating cell cycle progression with intracellular membrane trafficking, indicating a shared theme around mitosis-linked membrane dynamics and secretory/trafficking pathways.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0090051","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0043652","count":2}]},{"hash":"1168585159177518332","title":"Epidermal differentiation and growth signaling","description":"The cluster centers on epidermal lineage processes such as keratinocyte differentiation and melanocyte interactions, and is enriched for growth-control pathways (Hippo, Wnt) along with cell-cycle aspects (DNA replication, telomere maintenance) and apoptosis. This suggests a cohesive theme of regulating skin cell proliferation and differentiation via signaling pathways.","confidence":"Medium","size":13,"edges":33,"triangles":26,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030216","count":12},{"id":"GO:0035329","count":12},{"id":"GO:0060044","count":12},{"id":"GO:0006915","count":12},{"id":"GO:0090263","count":12}]},{"hash":"393323378673880201","title":"Xenobiotic Stress Response","description":"This cluster is dominated by GO terms related to chemical stress and detoxification (response to herbicide/ethanol/xenobiotic stimulus, cellular oxidant detoxification, apoptotic process), suggesting a shared function in cellular defense against xenobiotics. The developmental terms appear less central and may reflect broad annotations. Therefore, a Xenobiotic Stress Response label is representative.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":6},{"id":"GO:0021983","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0009635","count":4}]},{"hash":"161354335610818803","title":"Unknown","description":"The GO terms span diverse processes (amino acid catabolism, carbohydrate and fatty acid biosynthesis, nucleotide synthesis, metal transport, nuclear import, signaling, and immune proliferation), with no clear, shared function tying the proteins together.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0032147","count":6},{"id":"GO:0043418","count":6},{"id":"GO:0005975","count":6},{"id":"GO:1902593","count":6},{"id":"GO:0046651","count":6}]},{"hash":"1671999528176458290","title":"Unknown","description":"The top GO terms span many unrelated biological contexts (nephron differentiation, neuron axonogenesis/guidance, T cell homeostasis, fungal cell wall biosynthesis, seed morphogenesis, cardiac muscle differentiation, exocytosis, mechanosensation) across different species. There isn\u2019t a single cohesive function linking these terms, so a robust, specific cluster label isn\u2019t identifiable. ","confidence":"","size":13,"edges":12,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:2000768","count":5},{"id":"GO:0048936","count":5},{"id":"GO:0046013","count":5},{"id":"GO:0090334","count":5},{"id":"GO:0008045","count":5}]},{"hash":"2135202642111626678","title":"Diverse Metabolic Biosynthesis Pathways","description":"The cluster\u2019s top GO terms are dominated by multiple biosynthetic processes (retinol/retinal, fructose, fatty acids, L-ascorbic acid) with accompanying catabolic processes (D-xylose, naphthalene) and a few transport/regulatory terms (potassium ion transmembrane transport; regulation of testosterone biosynthetic process), suggesting a broad grouping of metabolic and related activities rather than a single, cohesive pathway. ","confidence":"Medium","size":13,"edges":67,"triangles":220,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0046370","count":5},{"id":"GO:0006633","count":4},{"id":"GO:0071805","count":3}]},{"hash":"1258170184209265325","title":"Unknown","description":"The top GO terms cover a wide mix of processes including plant root development, renal and cardiac development, meiosis, vesicle and ribosomal transport, autophagy-related trafficking, and various signaling and apoptotic regulations. This scattered assortment provides no single cohesive function or theme tying the proteins together, suggesting the cluster does not reflect one unified biological process.","confidence":"","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":7},{"id":"GO:0003340","count":6},{"id":"GO:0048364","count":6},{"id":"GO:2001241","count":6},{"id":"GO:0072054","count":6}]},{"hash":"1458183947076733066","title":"Developmental transcriptional regulation","description":"The cluster is enriched for GO terms tied to transcription regulation by RNA polymerase II and chromatin remodeling, indicating a core role in controlling gene expression. Additional development- and morphogenesis-related terms across multiple organs (vagina, mammary gland, semicircular canal, pancreas, prostate) suggest these regulatory activities participate in organ development, supporting a label focused on transcriptional control during development.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0006351","count":3},{"id":"GO:0043044","count":3},{"id":"GO:0071222","count":2},{"id":"GO:0021930","count":2}]},{"hash":"2220660061344165637","title":"Embryonic morphogenesis and craniofacial development","description":"The cluster is enriched for neural crest\u2013driven migration and multiple organogenesis processes (odontogenesis, roof of mouth development, hypothalamus and habenula development, endocrine pancreas development, ureteric bud morphogenesis), pointing to a broad embryonic development and morphogenesis theme with craniofacial and neural tissue emphasis. A general regulation of transcription by RNA polymerase II also fits with coordinated gene expression during development.","confidence":"Medium","size":13,"edges":11,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0001755","count":8},{"id":"GO:0048557","count":8},{"id":"GO:0090190","count":8},{"id":"GO:0031018","count":8}]},{"hash":"319888498605402766","title":"GPCR-Driven Immune Signaling","description":"The top GO terms point to immune system processes (immune response, IL-12 production, immunological synapse formation, thymocyte differentiation) and GPCR-related signaling (GPCR pathway activation and regulation). While a few terms are peripheral (circadian rhythm, grooming), the dominant signal is GPCR-modulated immune signaling, justifying a label focused on this theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":13},{"id":"GO:1902239","count":13},{"id":"GO:0006955","count":13},{"id":"GO:1904155","count":13},{"id":"GO:0007625","count":13}]},{"hash":"2006556790825227236","title":"Innate and Adaptive Immune Signaling with BCR/Fc Receptors","description":"The top GO terms cluster around immune response pathways, including innate and adaptive immunity, B cell receptor signaling, and Fc receptor signaling, indicating a group of proteins involved in immune signaling. While a few terms like Kit signaling and Rho regulation may reflect pleiotropy or cross-talk, the dominant theme is immune signaling, especially BCR and Fc-mediated pathways.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:1900042","count":3},{"id":"GO:0010863","count":3},{"id":"GO:0038109","count":3},{"id":"GO:0007507","count":3}]},{"hash":"235468646845671546","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":17,"triangles":5,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006146","count":6},{"id":"GO:0007411","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0048666","count":3}]},{"hash":"657704786577775506","title":"Immune-Adhesion and Cardiac Conduction Proteins","description":"Top GO terms are dominated by heterophilic and homophilic cell-cell adhesion and immune responses (innate and adaptive), with several defense-related terms, while cardiac conduction and atrial action potential terms appear as a secondary signal. This suggests a cluster of immune adhesion proteins with some members contributing to cardiac signaling or tissue-specific functions, hence a cohesive immune-adhesion identity with ancillary cardiac connections.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0007156","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0086091","count":8},{"id":"GO:0051965","count":8}]},{"hash":"338860537763905255","title":"Mitochondrial metabolism and chromatin regulation","description":"This cluster blends mitochondrial-related function (mitochondrial respiratory chain complex IV assembly) with a variety of metabolic processes (folate, D-alanine, dopamine metabolism, tRNA wobble modification) and chromatin modification terms (histone methylation/demethylation). The mix suggests a theme of metabolism linked to epigenetic regulation, with mitochondrial assembly as a core anchor, though several terms are disparate. ","confidence":"Medium","size":13,"edges":13,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0009635","count":1},{"id":"GO:0055130","count":1},{"id":"GO:0045793","count":1},{"id":"GO:0002097","count":1}]},{"hash":"357651930501531225","title":"Regulation of Signaling and Gene Expression","description":"Top GO terms here cluster around regulation of signaling pathways (e.g., GPCR signaling and steroid hormone receptor complex assembly) and components tied to RNA processing and gene expression (snoRNP assembly). Additional terms refer to cell division and protein secretion, suggesting a broader regulatory role rather than a single enzymatic function. Some metal ion response terms and obsolete terms appear noisy, so the strongest signal is a regulatory theme spanning signaling and gene expression rather than a cohesive, narrow pathway. Confidence that this label captures the main function of the cluster is Medium.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:1903071","count":4},{"id":"GO:0010288","count":4},{"id":"GO:0016576","count":4},{"id":"GO:0000492","count":4},{"id":"GO:0050714","count":4}]},{"hash":"581884960301089407","title":"Signaling and Differentiation Pathways","description":"Top GO terms point to diverse signaling cascades (phosphatidylinositol-mediated signaling, NF-kappaB signaling, regulation of GTPase activity) and cell fate processes (G1 to G0 transition, mitotic cell cycle, angiogenesis). Some terms (memory, prospore membrane formation) are more context-specific but could reflect downstream consequences of signaling. Overall, the cluster appears enriched for signal transduction influencing differentiation and growth, so a label focusing on signaling and differentiation is most representative.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070315","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0045471","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0001525","count":2}]},{"hash":"1656676942737077094","title":"Immune System Development and Response","description":"The cluster is dominated by GO terms tied to immune functions: immune response, defense against bacteria, interleukin-12 production, and thymocyte (DN2) differentiation, suggesting a core theme around immune system development and signaling, with some ancillary developmental terms. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001662","count":12},{"id":"GO:0060427","count":12},{"id":"GO:0042742","count":12},{"id":"GO:0060658","count":12},{"id":"GO:0035625","count":11}]},{"hash":"2170857208301261895","title":"Diverse Retinoid and Steroid Biosynthesis","description":"The cluster\u2019s top GO terms center on biosynthetic processes, notably retinol, retinal, and retinoic acid biosynthesis, along with glucocorticoid and androgen biosynthesis, plus other diverse biosynthetic pathways like melanin and mycolic acid. This suggests a theme of metabolic biosynthesis of lipid- or pigment-related compounds, with developmental links (e.g., lung development), making retinoid/steroid biosynthesis the most representative unifying label.","confidence":"Medium","size":13,"edges":24,"triangles":15,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0042438","count":8},{"id":"GO:0042572","count":8},{"id":"GO:0002138","count":8},{"id":"GO:0071768","count":8}]},{"hash":"918227774916902276","title":"Translation Regulation and Ribosome Initiation","description":"The proteins cluster around multiple facets of translation control: regulation of translation, formation of the translation preinitiation complex, translation reinitiation, ribosome disassembly, IRES-dependent translational initiation, and general translation, plus maintenance of translational fidelity. This pattern points to a cohesive role in governing when and how ribosomes initiate and complete protein synthesis, rather than a single metabolic pathway. A few non-translation terms appear at low counts and likely represent annotation noise rather than an alternate function.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006417","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0032790","count":2},{"id":"GO:0002192","count":2}]},{"hash":"35727630977639024","title":"Organ and tissue development","description":"The top terms mainly point to development and differentiation of various tissues and organs (pancreatic cell development, cartilage morphogenesis, endocrine system development, trophoblast/placental differentiation). Some terms are obsolete or generic (e.g., DNA-templated transcription), but the common thread appears to be developmental processes across different tissues.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007576","count":2},{"id":"GO:0070895","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0010729","count":2},{"id":"GO:0060707","count":2}]},{"hash":"375567691634845235","title":"Immune signaling and lymphocyte development","description":"This cluster\u2019s top GO terms are heavily skewed toward immune system processes: immune response, interleukin-12 production, immunological synapse formation, and thymocyte (DN2) differentiation, indicating roles in immune cell signaling and development. Additional terms touch GPCR signaling and circadian rhythm, suggesting some breadth or cross-talk with signaling pathways and temporal regulation. The edges are unused (no interactions), so the label is based on functional annotations rather than network structure.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":13},{"id":"GO:1902239","count":13},{"id":"GO:0006955","count":13},{"id":"GO:1904155","count":13},{"id":"GO:0007625","count":13}]},{"hash":"174591624647660185","title":"Diverse Catabolic Processes","description":"This label fits because the top GO terms include multiple catabolic processes across different substrates (lipids like triglycerides and diacylglycerol, cellulose, estrogen) and related metabolic responses, implying a broad catabolic/metabolic theme rather than a single pathway. The lack of edges supports a loose clustering around general metabolism rather than a tightly connected module.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":3},{"id":"GO:0070294","count":2},{"id":"GO:0046340","count":2},{"id":"GO:0030245","count":2},{"id":"GO:0042136","count":2}]},{"hash":"405026561560644613","title":"Embryonic organogenesis and tissue morphogenesis","description":"The proteins are enriched for GO terms across multiple embryonic tissues and morphogenetic processes\u2014mesoderm development, cartilage/hair follicle morphogenesis, palate formation, placental differentiation, endocrine system development, and EMT in heart cushion formation\u2014pointing to a common theme of broad embryonic organogenesis and tissue morphogenesis rather than a single tissue-specific function.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":11},{"id":"GO:0060021","count":11},{"id":"GO:0060707","count":11},{"id":"GO:0060806","count":11},{"id":"GO:0060536","count":11}]},{"hash":"2063437588493648197","title":"Immune signaling and thymocyte differentiation","description":"The top GO terms cluster around immune system processes: immune response, immunological synapse formation, IL-12 production, and DN2 thymocyte differentiation, pointing to proteins involved in lymphocyte activation and T cell development. Although there are a couple of terms linked to neural/behavioral processes (grooming, circadian rhythm), the dominant signal is immune signaling and thymocyte development, with GPCR-related signaling cross-talk also present. ","confidence":"High","size":12,"edges":41,"triangles":68,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":12},{"id":"GO:1902239","count":12},{"id":"GO:0006955","count":12},{"id":"GO:1904155","count":12},{"id":"GO:0007625","count":12}]},{"hash":"1292452380138964904","title":"Synaptic trafficking and cytoskeleton remodeling","description":"Most of the top GO terms point to neuronal synapse biology and the cellular machinery that builds and tunes synapses: Cdc42 signaling, dendritic spine morphogenesis, regulation of synaptic structure, and Golgi-to-plasma-membrane transport. Together these suggest a cluster enriched for proteins involved in membrane trafficking to the cell surface and actin cytoskeleton remodeling relevant to synapse formation and learning. Some terms like keratinocyte development, mast cell chemotaxis, and copper homeostasis are less directly linked and likely reflect broader or overlapping annotations, hence the label is a best-fit rather than a perfect match.","confidence":"Medium","size":12,"edges":10,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0003334","count":12},{"id":"GO:0034629","count":12},{"id":"GO:0043001","count":12},{"id":"GO:0032488","count":12},{"id":"GO:0060753","count":12}]},{"hash":"1195151740097483417","title":"Hormonal and environmental stimulus responses","description":"This cluster is driven by multiple GO terms linked to responses to signals and stressors, including cellular responses to TGF-beta and glucagon, xenobiotic and herbicide responses, and amine responses, along with developmental/tissue remodeling processes like mammary gland involution and lung development. The mix suggests a general theme of responding to hormonal and environmental stimuli rather than a single specific pathway, with ancillary development/angiogenesis associations.","confidence":"Medium","size":12,"edges":17,"triangles":4,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":5},{"id":"GO:0071377","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0009635","count":3},{"id":"GO:0060056","count":3}]},{"hash":"650585898166409857","title":"T cell signaling and MAPK cascades","description":"The cluster is enriched for immune signaling terms, especially T cell receptor signaling, Th1-type immune response, and regulation of MAPK pathways (ERK1/2 and JNK cascades), suggesting a T-cell\u2013centric signaling module. Some terms also touch on broader stimulus responses (mechanical, xenobiotic) and other processes like nervous system development or hair follicle regulation, but the dominant pattern points to T cell signaling and MAPK cascade regulation. Confidence: Medium","confidence":"","size":12,"edges":64,"triangles":200,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032729","count":7},{"id":"GO:0071260","count":6},{"id":"GO:0046330","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0035690","count":5}]},{"hash":"492461670991079306","title":"MAPK and Immune Signaling Regulators","description":"The top GO terms cluster around modulation of signaling pathways\u2014especially the MAPK/ERK cascade\u2014and immune receptor signaling. Terms like negative regulation of ERK1/ERK2 cascade, negative regulation of T cell receptor signaling, regulation of IL-6 signaling, and regulation of TLR7 signaling point to proteins that dampen signaling, likely via phosphatases such as peptidyl-tyrosine dephosphorylation. While there are some cell-cycle related terms (e.g., chromosome passenger complex localization to spindle midzone) present, the prevailing theme is regulation of signaling pathways, including immune and kinase signaling. ","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":11},{"id":"GO:0050860","count":11},{"id":"GO:0000200","count":11},{"id":"GO:0007049","count":9},{"id":"GO:0035335","count":9}]},{"hash":"1398815755125790002","title":"Actin remodeling and vesicle trafficking","description":"The cluster\u2019s top terms include Arp2/3 complex-mediated actin nucleation and regulation of endocytosis, pointing to cytoskeletal rearrangements driving membrane trafficking and cell surface processes (e.g., platelet aggregation). Other items like histone modifications and inheritance appear peripheral or historical (obsolete), so the core theme centers on actin dynamics and vesicle trafficking.","confidence":"Medium","size":12,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":5},{"id":"GO:0000001","count":4},{"id":"GO:0043486","count":3},{"id":"GO:0001300","count":3},{"id":"GO:0016344","count":3}]},{"hash":"468370078897040867","title":"Unknown","description":"The listed GO terms are scattered across mitochondrial import, RNA processing, metal ion response, protein secretion, GPCR signaling regulation, cell division, and developmental processes, with no single clear function tying the proteins together. The absence of a cohesive theme or strong shared function makes an unknown label most appropriate.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045041","count":2},{"id":"GO:1903071","count":2},{"id":"GO:0010288","count":2},{"id":"GO:0016576","count":2},{"id":"GO:0000492","count":2}]},{"hash":"414473965991809658","title":"Glycosylation and glycosphingolipid biosynthesis","description":"This cluster is dominated by GO terms related to glycan processing and lipid glycosylation (glycosylceramide, ganglioside biosynthesis, sialylation, oligosaccharide metabolism, and N-linked glycosylation), plus protein targeting to the ER, which together point to secretory pathway\u2013associated glycoprotein maturation. While pollen-related terms appear, the cohesive theme is glycosylation and glycan metabolism in the ER/Golgi.","confidence":"High","size":12,"edges":15,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045047","count":1},{"id":"GO:0006465","count":1},{"id":"GO:0009846","count":1},{"id":"GO:0006677","count":1},{"id":"GO:1990743","count":1}]},{"hash":"1288949019054539187","title":"Embryonic development and tissue morphogenesis with stress response","description":"The top GO terms cluster around developmental processes (forelimb morphogenesis, vagina development, neurogenesis) and growth (cell proliferation), with accompanying metabolic activities (fatty acid transport, intestinal absorption) and cellular stress responses (apoptosis, hypoxia response, oxidant detoxification). This supports labeling the group as focused on embryonic development and tissue morphogenesis, tempered by stress-response mechanisms.","confidence":"Medium","size":12,"edges":24,"triangles":13,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035115","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0006915","count":4},{"id":"GO:0060068","count":4},{"id":"GO:0022008","count":4}]},{"hash":"426373674471254054","title":"Migration and Signaling Pathways","description":"The terms show regulation of adhesion and movement (focal adhesion assembly, chemotaxis) along with neural and immune signaling (axon extension, long-term potentiation, JNK cascade, T cell receptor signaling), all pointing to intracellular signaling networks that coordinate migration, development, and plasticity across cell types; a few outliers like telomere maintenance and mRNA processing are present but less central.","confidence":"Medium","size":12,"edges":8,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":2},{"id":"GO:0051893","count":2},{"id":"GO:0006935","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0045736","count":2}]},{"hash":"281123935056831652","title":"RTK-driven developmental morphogenesis","description":"Top terms cluster around tissue morphogenesis and receptor tyrosine kinase signaling (lung and trachea development, melanocyte adhesion, collagen-activated RTK signaling, and tyrosine phosphorylation), suggesting a cohesive RTK-driven developmental program.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032212","count":12},{"id":"GO:0010568","count":12},{"id":"GO:0097326","count":12},{"id":"GO:0060440","count":12},{"id":"GO:0071276","count":12}]},{"hash":"805283671979534236","title":"RNA processing and ribosome biogenesis","description":"The cluster is dominated by GO terms related to RNA splicing and processing (positive regulation of mRNA splicing, splicing via spliceosome, mRNA export, SSU processome assembly) and ribosome biogenesis (ribosomal large subunit biogenesis), with additional links to translation initiation and ncRNA-mediated regulation. While DNA replication is present, the strongest signal ties to RNA metabolism and ribosome assembly, justifying a label around RNA processing and ribosome biogenesis.","confidence":"Medium","size":12,"edges":6,"triangles":0,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":6},{"id":"GO:1901407","count":6}]},{"hash":"1084689200578024840","title":"Spliceosome Assembly and mRNA Processing","description":"Top GO terms indicate spliceosome assembly, mRNA splicing via spliceosome, snRNP assembly, transcription termination, P-body assembly, and mRNA decay pathways, with nuclear import. This combination suggests a cohesive role in RNA maturation and turnover, spanning nuclear RNA processing to cytoplasmic mRNA regulation.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":10},{"id":"GO:0045292","count":10},{"id":"GO:0042633","count":9},{"id":"GO:0000387","count":9},{"id":"GO:0006369","count":9}]},{"hash":"2277991727066574140","title":"Innate immune activation and leukocyte recruitment","description":"Based on the top GO terms, many entries relate to immune defense and inflammation: cellular response to fungal origin, leukocyte tethering/rolling, basophil activation, complement activation via the lectin pathway, and regulation of adhesion molecule production and arachidonic acid signaling. These point to innate immune signaling and recruitment of immune cells. A couple of terms about cartilage condensation and metanephric distal tubule morphogenesis appear as unrelated outliers, likely annotation noise, but do not override the main immune theme.","confidence":"High","size":12,"edges":58,"triangles":152,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":11},{"id":"GO:0010572","count":8},{"id":"GO:0001502","count":8},{"id":"GO:0050901","count":7},{"id":"GO:0072287","count":7}]},{"hash":"1796090358439884101","title":"Neural Development and Embryogenesis","description":"The top GO terms cluster around early developmental processes with a neural focus: neural plate development, central nervous system patterning (zona limitans intrathalamica formation), embryonic body morphogenesis, and related morphogenesis events, plus transcription regulation activities (chromatin remodeling and promoter binding). This suggests proteins involved in early development, especially neural development and broader embryogenesis, making the label a concise and representative summary.","confidence":"High","size":12,"edges":51,"triangles":112,"max_degree":11,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0048364","count":11},{"id":"GO:0022009","count":10},{"id":"GO:0003340","count":10},{"id":"GO:1904798","count":10},{"id":"GO:0022006","count":10}]},{"hash":"1808961001159942812","title":"Plant Growth Signaling and Stress Response","description":"These terms cluster around plant development and stress responses: cytokinin-activated signaling and gibberellin-related pathways indicate growth regulation; photosynthesis and cell division reflect core plant metabolism; responses to cadmium and lead ions point to metal stress adaptation; and male sex differentiation can relate to reproductive development in plants. An outlier term for interferon response does not negate the overall plant-centric theme. ","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0071276","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0009736","count":4},{"id":"GO:1903646","count":4},{"id":"GO:0009938","count":4}]},{"hash":"1877488070451401123","title":"Vascular and ECM Development","description":"The dominant terms point to development of tissues involving the extracellular matrix and vasculature (hematopoietic progenitor differentiation, blood vessel maturation, lung development, and ECM organization). These reflect ECM-guided vascular/organ development, with some ancillary regulatory signaling terms. Therefore, \u201cVascular and ECM Development\u201d is a suitable label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0002244","count":4},{"id":"GO:0019800","count":3},{"id":"GO:0001955","count":3},{"id":"GO:0048671","count":3},{"id":"GO:0030198","count":3}]},{"hash":"2061438737374631809","title":"Membrane trafficking and signaling","description":"Exocytosis is prominent, with several transport processes (glucose, nitrite, myo-inositol, pantothenate) and signaling pathways (Wnt, Rho) also represented, suggesting a focus on vesicle-mediated cargo delivery to the cell surface and membrane-associated signaling rather than a single substrate. A few terms like keratinization and acetylcholine biosynthesis appear less central. ","confidence":"Medium","size":12,"edges":13,"triangles":3,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006887","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0035023","count":3},{"id":"GO:2000009","count":3},{"id":"GO:0031424","count":2}]},{"hash":"1262963786065565768","title":"Calcium-regulated cardiac muscle contraction","description":"This cluster is dominated by GO terms tied to calcium signaling and heart muscle contraction: regulation of release of sequestered calcium, regulation of cardiac muscle contraction, positive regulation of heart contraction force, and ATPase-coupled calcium transport activity. While there are a few ancillary processes (chromatin regulation, thrombopoietin signaling, exocytosis, glycogen breakdown), the strongest signals point to calcium handling and contraction control in cardiac muscle, making this a coherent functional group.","confidence":"High","size":12,"edges":48,"triangles":87,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010881","count":11},{"id":"GO:0048741","count":11},{"id":"GO:0005513","count":11},{"id":"GO:0098735","count":11},{"id":"GO:0035562","count":10}]},{"hash":"1447742990048988998","title":"Immune signaling and T cell differentiation","description":"The cluster's top GO terms are dominated by immune-related processes\u2014immune response, IL-12 production, and immunological synapse formation\u2014as well as thymocyte differentiation, indicating a core theme of immune activation and T cell development. Additional GPCR-related terms hint at signaling pathways that may connect these processes. A couple of terms relate to circadian or grooming behaviors, which are less aligned with the main theme. Overall, the cluster best fits an immune signaling and T cell differentiation theme.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":12},{"id":"GO:1902239","count":12},{"id":"GO:0006955","count":12},{"id":"GO:1904155","count":12},{"id":"GO:0007625","count":12}]},{"hash":"1898198722553420250","title":"Embryonic organogenesis","description":"The Top Terms cluster around development of multiple organs and tissues during embryogenesis (palate, thyroid, pancreas, mesoderm, placenta, endocrine system) and include related processes like endocardial cushion EMT. Although there are some general transcription/splicing terms, the dominant pattern is organ formation and differentiation in the embryo, suggesting a cohesive cluster of embryonic organ development.","confidence":"High","size":12,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0000122","count":3},{"id":"GO:0030878","count":3},{"id":"GO:0032298","count":3},{"id":"GO:0003323","count":3}]},{"hash":"1637793474770924110","title":"Embryogenesis and EMT regulation","description":"The cluster\u2019s terms center on embryonic development, including mesoderm formation, palatal roof development, and epithelial-to-mesenchymal transition in heart/endocardial cushion formation. Additional terms reflect gene expression control (transcriptional regulation and splicing), suggesting a theme of developmental regulation of gene expression during embryogenesis. ","confidence":"High","size":12,"edges":7,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0060021","count":11},{"id":"GO:0032298","count":10},{"id":"GO:0003323","count":10},{"id":"GO:0000398","count":10}]},{"hash":"810108907123955822","title":"Neural and musculoskeletal embryonic development","description":"The cluster centers on broad embryonic development across neural, cardiac, and skeletal lineages, with GO terms for nervous system development, neurogenesis, heart development, ossification, and sarcomere organization, plus myoblast differentiation. This points to a cohesive theme of coordinated neural, cardiac, and skeletal muscle formation during embryogenesis.","confidence":"High","size":12,"edges":13,"triangles":4,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0032516","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0043931","count":6}]},{"hash":"1335907190026401667","title":"Inflammation-driven ECM remodeling and angiogenesis","description":"This cluster is dominated by GO terms related to innate immune activation and inflammatory responses (innate immune response, acute inflammatory response, positive regulation of cytokine production in inflammation, complement activation), alongside extracellular matrix remodeling (collagen fibril organization) and barrier-related processes (tricellular tight junction assembly). The presence of sprouting angiogenesis indicates concurrent vascular remodeling during inflammation. Some oxidation/deamination terms may reflect post-translational modifications linking these processes. Overall, the proteins appear to coordinate inflammation with ECM restructuring and angiogenesis.","confidence":"High","size":12,"edges":20,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1904274","count":9},{"id":"GO:0002040","count":9},{"id":"GO:2000483","count":9},{"id":"GO:0030199","count":9},{"id":"GO:0018057","count":9}]},{"hash":"1528733551042735715","title":"Transmembrane Transporters for Ions, Sugars, Xenobiotics","description":"This cluster is dominated by GO terms for transmembrane transport across diverse substrates: various ions (potassium, sodium), nitrite/nitrate, vitamins, sugars (galactose, arabinose), xenobiotics, and even vesicular neurotransmitter loading. The unifying theme is membrane transport activity across a broad range of substrates, rather than a single pathway.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0035461","count":2},{"id":"GO:0015757","count":2}]},{"hash":"1205937601761787818","title":"Actin dynamics, adhesion, and cell polarity","description":"This cluster is dominated by terms related to actin cytoskeleton remodeling and adhesion structures\u2014podosomes, focal adhesions, and lamellipodia\u2014along with Rac/Rho signaling and epithelial polarity. The common thread is actin-driven cell movement, adhesion, and the establishment of polarity, consistent with proteins that regulate cytoskeletal dynamics at protrusive and adhesive sites and contribute to tissue organization.","confidence":"High","size":12,"edges":13,"triangles":0,"max_degree":9,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0071800","count":5},{"id":"GO:0051894","count":4},{"id":"GO:0016601","count":4},{"id":"GO:0010592","count":4},{"id":"GO:2000249","count":4}]},{"hash":"313345399188380118","title":"Ribosome Biogenesis, Translation, and Cell Division","description":"This cluster is enriched for ribosome-related terms (ribosomal small subunit biogenesis, ribosome biogenesis, cytoplasmic translation, tRNA modification), indicating a core function in protein synthesis. The presence of cell cycle, cell division, and cell septum assembly terms suggests a link between ribosome production and cell division. Some stress-response terms exist but appear secondary to the core translational machinery. Overall, the cluster aligns with growth-related processes centered on ribosome assembly and translation, coordinated with cell proliferation.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0042274","count":5},{"id":"GO:0002181","count":4},{"id":"GO:0000747","count":3},{"id":"GO:0042254","count":3},{"id":"GO:1901001","count":3}]},{"hash":"1855687829781727210","title":"RNA processing and antiviral stress responses","description":"The cluster centers on RNA metabolism and regulation (primary miRNA processing, regulation of miRNA metabolic process, cytoplasmic translation) alongside immune/antiviral and stress-related responses (response to interferon-alpha, response to antibiotic, negative regulation of viral genome replication, response to toxic substance). These shared themes suggest a cohesive role in RNA-based regulation during immune and cellular stress, though a few terms (e.g., dosage compensation, courtship behavior) may reflect broader or incidental associations.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":5},{"id":"GO:0046677","count":5},{"id":"GO:0045071","count":5},{"id":"GO:0009636","count":5},{"id":"GO:0045433","count":4}]},{"hash":"1334201251911529242","title":"Thiamine biosynthesis and tRNA thio-modification","description":"The proteins are dominated by GO terms related to thiamine biosynthesis (including thiamine diphosphate and thiazole steps) and tRNA thio-modification/wobble thiolation, suggesting a coordinated role in producing the thiamine-derived cofactor and modifying tRNA. Additional terms for GMP and NAD+ biosynthesis and L-glutamine metabolism support a broader theme of nutrient/cofactor biosynthesis, though two sporulation terms seem ancillary. Overall, the cluster best fits a function group centered on thiamine production and related tRNA modification.","confidence":"Medium","size":12,"edges":22,"triangles":15,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0009229","count":5},{"id":"GO:0006541","count":5},{"id":"GO:0030436","count":5},{"id":"GO:0030435","count":5},{"id":"GO:0052837","count":5}]},{"hash":"400429156987096546","title":"Integrin signaling and actin remodeling","description":"The terms cluster around integrin activation and receptor internalization, filopodium assembly, and regulation of Rho-mediated signaling, all pointing to adhesion-related signaling that remodels the actin cytoskeleton. Additional signals related to cAMP response and PI3K pathways support a broader membrane-proximal signaling context, while proteolysis and growth regulation appear ancillary to the core theme. Overall, the cluster reflects membrane receptor signaling linked to cytoskeletal dynamics and adhesion.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0031623","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0046847","count":3}]},{"hash":"323361026522386939","title":"Unknown","description":"This cluster shows GO terms across phosphorylation (peptidyl-threonine phosphorylation, protein dephosphorylation), RNA processing (mRNA processing, poly(A) tail shortening), immune/homeostatic and developmental processes, fear response, and apoptotic signaling, with no obvious shared function. Because the terms are heterogeneous with no single unifying theme, there isn't a clear, representative label beyond Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018107","count":2},{"id":"GO:0001662","count":2},{"id":"GO:0001782","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0000289","count":2}]},{"hash":"121415387398113386","title":"Ribosome biogenesis and translation","description":"The terms are dominated by translation (GO:0006412) and box C/D snoRNP assembly (GO:0000492), with protein heterooligomerization supporting ribosomal complex assembly. Other metabolic terms appear ancillary, so the strongest signal is ribosome-related biogenesis and protein synthesis.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0000492","count":2},{"id":"GO:0097173","count":1},{"id":"GO:0070981","count":1}]},{"hash":"1329417384113426329","title":"Cardiac calcium signaling and electrophysiology","description":"The top GO terms are dominated by cardiac-specific processes: regulation of ventricular cardiac muscle cell action potential, membrane repolarization, and release of sequestered calcium from the sarcoplasmic reticulum, plus general calcium ion response. These point to heart muscle excitation-contraction coupling and calcium handling as the core theme, with other terms (temperature, pain, development, aerotaxis) likely ancillary annotations. Thus this label best captures the cluster\u2019s shared function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002024","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0098911","count":3}]},{"hash":"1095822554422860777","title":"Meiotic Chromosome Pairing and Nuclear-Cytoskeletal Dynamics","description":"The top GO terms point strongly to meiotic chromosome behavior (homologous pairing, telomere attachment to the nuclear envelope, centromere clustering) and nuclear-cytoskeletal processes (nucleokinesis, nuclear migration along microfilaments). A few terms about collagen and bone remodeling are less coherent with this core theme, but the dominant signal is meiotic chromosome dynamics and nuclear-cytoskeletal interactions, justifying the chosen label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007129","count":3},{"id":"GO:0031022","count":2},{"id":"GO:0032967","count":2},{"id":"GO:0045669","count":2},{"id":"GO:0046850","count":2}]},{"hash":"1704025716430163328","title":"Rho-GTPase Signaling in Development","description":"The dominant terms center on Rho GTPase activity regulation and Rho signaling, with multiple development-related GO terms (heart, brain, skeletal, nervous system). Calcium-dependent exocytosis regulation also appears, suggesting linked vesicle trafficking during development. The cluster likely represents a general developmental signaling module rather than a single tissue-specific function.","confidence":"High","size":11,"edges":45,"triangles":105,"max_degree":10,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001302","count":9},{"id":"GO:0043547","count":9},{"id":"GO:0045956","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0009789","count":9}]},{"hash":"1194084985653690946","title":"Cholesterol and Lipoprotein Transport Regulation","description":"The dominant GO terms center on cholesterol transport, efflux, and lipoprotein clearance (including chylomicron remnant and VLDL pathways), pointing to a lipid metabolism and lipoprotein homeostasis function for the cluster. A couple of terms (glycosylation, hair cell differentiation) appear peripheral or context-specific, but do not outweigh the lipoprotein/metabolic signal.","confidence":"Medium","size":11,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033700","count":2},{"id":"GO:0010916","count":2},{"id":"GO:0034382","count":2},{"id":"GO:0032375","count":2},{"id":"GO:0048261","count":2}]},{"hash":"1536052757402053009","title":"Detoxification and redox metabolism","description":"This cluster centers on redox chemistry and metabolism of xenobiotic and lipid-derived compounds, including oxidation-reduction processes, fatty acid omega-oxidation, and catabolism of aldehydes like formaldehyde and furaldehyde, plus retinol metabolism. It also contains stress-response terms such as nitrosative stress and lipopolysaccharide response, suggesting a broad detoxification and redox-defense role rather than a single substrate pathway.","confidence":"Medium","size":11,"edges":38,"triangles":61,"max_degree":10,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0010430","count":5},{"id":"GO:0033859","count":5},{"id":"GO:0046294","count":5},{"id":"GO:0042572","count":5}]},{"hash":"2067182129073110536","title":"Immune signaling and T cell development","description":"The top GO terms are dominated by immune-related processes (immune response, immunological synapse formation, IL-12 production, thymocyte differentiation), with GPCR signaling and desensitization terms suggesting modulation of immune signaling. Some terms like circadian rhythm and grooming behavior are less connected and may reflect pleiotropy or annotation noise, but the core theme points to immune activation and T cell development.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":11},{"id":"GO:1902239","count":11},{"id":"GO:0006955","count":11},{"id":"GO:1904155","count":11},{"id":"GO:0007625","count":11}]},{"hash":"2091930754697300247","title":"Heart and vascular development with neural crest","description":"These terms cluster around cardiovascular formation and function\u2014angiogenesis, endothelial cell migration, cardiac myofibril assembly, and regulation of heart rate\u2014suggesting a shared theme of heart and blood vessel development. The neural crest cell development term supports a developmental link to cardiac and vascular structures derived from neural crest. Some neural activity terms (memory, synaptic potentiation) appear less directly connected and may reflect broader neural signaling contexts. Overall, the cluster points to cardiovascular development with neural crest contributions.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0055003","count":3},{"id":"GO:0010595","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0002027","count":3}]},{"hash":"1707819029409932062","title":"Zinc transport and homeostasis","description":"The cluster shows strong enrichment for GO terms related to zinc import across membranes, intracellular zinc ion homeostasis, detoxification of zinc, and cellular responses to zinc ion levels, indicating a core function in zinc handling and transport. The limb development and neuron projection development terms are likely secondary annotations, but the zinc-centered terms dominate the functional theme. ","confidence":"High","size":11,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006882","count":3},{"id":"GO:0006830","count":3},{"id":"GO:0060173","count":3},{"id":"GO:0010312","count":3},{"id":"GO:1903615","count":3}]},{"hash":"652008145923757122","title":"Development, ECM adhesion, and inflammatory responses","description":"This cluster centers on developmental signaling coupled with extracellular matrix remodeling and immune/vascular interactions: terms like multicellular organism development, hyaluronan biosynthesis, cell-matrix and cell-cell adhesion, inflammatory response, LPS response, and regulation of angiogenesis point to coordinated tissue development involving ECM dynamics and immune-vascular crosstalk. Thyroid hormone generation and mechanical-stimulus response further support a theme of developmental regulation and mechanotransduction in remodeling tissues. Overall, a cohesive theme of development with ECM and inflammatory/angiogenic processes is suggested.","confidence":"Medium","size":11,"edges":35,"triangles":53,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":9},{"id":"GO:1900127","count":8},{"id":"GO:0001867","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0007160","count":7}]},{"hash":"1713733326004816819","title":"Actin Cytoskeleton in Development and Cell Division","description":"The cluster is dominated by GO terms tied to actin dynamics and division: Arp2/3-mediated actin nucleation, actomyosin contractile ring contraction, mitotic cytokinesis, and meiotic chromosome movement toward spindle poles. Developmental terms like skeletal muscle fiber development and brain region development (substantia nigra) suggest actin remodeling\u2019s role in morphogenesis. Some older/less central terms (histone modification, vacuole inheritance) appear as noise, but the core signal points to cytoskeleton-driven development and cell division.","confidence":"Medium","size":11,"edges":42,"triangles":87,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":8},{"id":"GO:0021762","count":8},{"id":"GO:0000916","count":8},{"id":"GO:0000281","count":8},{"id":"GO:0043486","count":7}]},{"hash":"2262518099697132539","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":14,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0090503","count":2},{"id":"GO:0050884","count":2},{"id":"GO:0034247","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0019243","count":2}]},{"hash":"417723137712887590","title":"Mitochondrial respiration and Fe-S biogenesis","description":"The terms cluster around mitochondrial function: electron transport from cytochrome c to oxygen, Fe-S cluster assembly and iron homeostasis, mitochondrial translation initiation, and assembly of respiratory complex II. These point to a cohesive theme of mitochondrial respiration and cofactor biogenesis, despite a few outlier terms (CNS development, apoptosis) that are less central in this context.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006123","count":2},{"id":"GO:0097428","count":1},{"id":"GO:0009399","count":1},{"id":"GO:0006879","count":1},{"id":"GO:0016226","count":1}]},{"hash":"78355818963707941","title":"RNA processing and translation initiation regulation","description":"This cluster centers on RNA metabolism, including ncRNA-mediated gene silencing, spliceosome-regulated mRNA processing, stress-related mRNA stability, and control of translation initiation/reinitiation (including IRES-driven initiation and ribosome preinitiation complex formation), indicating a cohesive theme around RNA processing and translational control.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":7},{"id":"GO:0010610","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":6}]},{"hash":"1712428814751546925","title":"Protein processing and trafficking","description":"Many top GO terms cluster around protein modification, maturation, and movement within the cell (proteolysis, deglycosylation, peptidyl-threonine dephosphorylation, and regulation of nuclear export and vacuolar fusion). Although a few terms describe amino acid catabolism that is less central to protein handling, the dominant signal points to a theme of protein processing and intracellular trafficking/regulation, justifying this label.","confidence":"Medium","size":11,"edges":31,"triangles":35,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006559","count":4},{"id":"GO:0006508","count":4},{"id":"GO:0033345","count":4},{"id":"GO:0006517","count":4},{"id":"GO:0000173","count":3}]},{"hash":"933973757050694067","title":"Growth and Developmental Regulation","description":"The GO terms cluster around broad regulatory processes: protein turnover (proteasomal degradation), translation control, phosphorylation signaling, DNA replication and telomere maintenance, and development-related activities (multicellular development, bud growth, tissue adhesion). This mix suggests general regulatory roles in cell growth, proliferation, and development rather than a single specific pathway, so a label emphasizing growth/development regulation is appropriate.","confidence":"Medium","size":11,"edges":40,"triangles":71,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032436","count":3},{"id":"GO:0045727","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0018107","count":3}]},{"hash":"1723405765007421320","title":"Neural signaling and development","description":"The GO terms show a blend of broad signaling pathways (Wnt, JNK/MAPK, PI3K, calcium-dependent exocytosis, focal adhesion) with neural-specific processes (excitatory postsynaptic potential, axon extension, hippocampus development). This suggests a cluster of proteins involved in signaling regulation with prominent roles in neural development and synaptic function, though an immune T cell receptor term hints at shared signaling components rather than a strictly neural function. ","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0051893","count":4},{"id":"GO:0060079","count":4},{"id":"GO:0000186","count":4}]},{"hash":"1493741508876523253","title":"Stress-responsive transcription and immune signaling","description":"The cluster centers on transcription by RNA polymerase II and stress-related transcriptional regulation (including ER stress), with multiple immune-related terms (cytokine and interferon production, macrophage differentiation, MHC II biosynthesis) and a couple developmental terms (ring gland development, segment identity). This suggests a coherent theme of transcriptional control under cellular stress coupled to immune signaling, with some developmental associations.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0007381","count":6},{"id":"GO:1990440","count":6},{"id":"GO:0042089","count":6},{"id":"GO:0043353","count":6}]},{"hash":"265311486175002651","title":"Sperm capacitation and vitamin metabolism","description":"This cluster is driven by GO terms for sperm capacitation and gamete generation, suggesting reproductive maturation processes. The presence of thiamine biosynthetic and tetrahydrofolate metabolic processes indicates vitamin-dependent metabolism supporting energy and one-carbon metabolism during gametogenesis. Other terms like regulation of membrane potential and corticosterone response suggest broader signaling involvement, but are less central. Overall, it points to a reproductive development cluster with metabolic support.","confidence":"Medium","size":11,"edges":8,"triangles":2,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043046","count":10},{"id":"GO:0009228","count":10},{"id":"GO:0048240","count":8},{"id":"GO:0042391","count":8},{"id":"GO:0045793","count":8}]},{"hash":"1633540234794383182","title":"Innate Immune Signaling and ER Homeostasis","description":"The cluster combines terms pointing to innate immune activation (innate immune response-activating signaling, T cell cytokine production, T cell apoptotic process) with endoplasmic reticulum\u2013related processes (protein retention in ER lumen, ER membrane organization) and lipid biosynthesis regulation (sphingolipid and ergosterol regulation). This suggests a set of proteins involved in secretory pathway\u2013driven immune signaling and ER/membrane homeostasis, with ancillary roles in protein transport and remodeling of lipid environments that support immune functions.","confidence":"Medium","size":11,"edges":11,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042730","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0002369","count":2},{"id":"GO:0070231","count":2},{"id":"GO:0006621","count":2}]},{"hash":"1644300904932693158","title":"Neuronal cell adhesion and ion transport","description":"The cluster is enriched for cell\u2013cell adhesion terms (heterophilic/homophilic adhesion, calcium-independent adhesion, tight junction assembly) and signaling (integrin-mediated), along with concepts related to nerve impulse transmission and ion transmembrane transport (sodium/potassium). This suggests membrane proteins that mediate neural cell interactions and ion channel activity, with some linkage to inner-ear development (otolith mineralization). Hence, the name reflects the central themes of neuronal adhesion and ion transport.","confidence":"Medium","size":11,"edges":52,"triangles":139,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":4},{"id":"GO:2001046","count":3},{"id":"GO:0019226","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0006958","count":3}]},{"hash":"1361867074477588660","title":"Embryonic heart and neural crest morphogenesis","description":"This cluster is dominated by GO terms about heart development (cardiac septum morphogenesis, cardiac neural crest migration in outflow tract morphogenesis), somitogenesis, and vascular development (hemangioblast differentiation), with supporting neural patterning (floor plate). While a few terms touch on signaling and immune processes, the prevailing theme is embryonic morphogenesis of heart, neural crest-derived structures, and vasculature, indicating a cardiovascular/axial development focus.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0060411","count":8},{"id":"GO:0003253","count":8},{"id":"GO:0001756","count":8},{"id":"GO:0033504","count":8},{"id":"GO:0060217","count":8}]},{"hash":"2045380269922945441","title":"Embryonic development and organogenesis","description":"The cluster features GO terms tied to formation and differentiation of multiple tissues during embryogenesis\u2014neural lineages (spinal cord motor neuron and interneuron differentiation, oligodendrocyte fate), cardiac development and neural crest\u2013driven morphogenesis, bronchiole formation, pancreas development, and somitogenesis\u2014pointing to a common theme of tissue patterning and organogenesis. Transcription by RNA polymerase II underpins these developmental programs.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0021520","count":10},{"id":"GO:0021530","count":10},{"id":"GO:0021892","count":10},{"id":"GO:0060435","count":10},{"id":"GO:0006366","count":10}]},{"hash":"18418954887384138","title":"Heart and neural crest morphogenesis","description":"The top GO terms point to embryonic development with a strong focus on heart formation (cardiac septum morphogenesis; cardiac neural crest cell migration in outflow tract morphogenesis) and neural patterning (floor plate development; somitogenesis). Hemangioblast differentiation also aligns with cardiovascular development. A few terms touch immune processes, but the dominant signal is heart and neural crest morphogenesis, making this label a good high-level summary.","confidence":"Medium","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0045668","count":10},{"id":"GO:0060766","count":10},{"id":"GO:0043433","count":10},{"id":"GO:0060411","count":9},{"id":"GO:0003253","count":9}]},{"hash":"250586034052193810","title":"Adipogenesis and lipid metabolism with inflammatory signaling","description":"The cluster centers on lipid handling and adipocyte biology: fat cell differentiation, fatty acid oxidation, and cholesterol efflux, with additional influence from macrophage foam cell differentiation and inflammatory responses (lipopolysaccharide response and mast cell cytokine production). Developmental terms like heart and mammary gland are present but secondary to the lipid/adipocyte/inflammation theme.","confidence":"Medium","size":11,"edges":12,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":4},{"id":"GO:0051091","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0060749","count":3}]},{"hash":"239047133650820205","title":"Developmental morphogenesis and epithelial/neural differentiation","description":"This cluster centers on broad developmental and differentiation processes across multiple tissues, with emphasis on epithelial and neural lineages (ectoderm formation, nephron tubule differentiation, uterine epithelium development, peripheral nervous system axonogenesis) as well as cytoskeletal and adhesion dynamics (actomyosin structure organization, cell-matrix adhesion) and signaling regulation (NFAT pathway). The mix suggests a general theme of tissue morphogenesis and lineage specification rather than a single pathway, hence a focus on developmental differentiation and morphogenesis is appropriate.","confidence":"Medium","size":11,"edges":36,"triangles":53,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0010735","count":11},{"id":"GO:2000768","count":11},{"id":"GO:0001705","count":11},{"id":"GO:0070886","count":11},{"id":"GO:0035847","count":11}]},{"hash":"1794831663889003743","title":"Diverse organic compound catabolism and oxidation","description":"Based on GO terms dominated by fatty acid omega-oxidation, aldehyde catabolism (formaldehyde, furaldehyde), retinol and sugar metabolism, this cluster seems enriched for enzymes involved in broad oxidative catabolism and detoxification of diverse organic molecules, rather than a single pathway. The inclusion of nitrosative stress response supports a role in cellular redox/detoxification processes.","confidence":"Medium","size":11,"edges":36,"triangles":54,"max_degree":9,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0010430","count":6},{"id":"GO:0033498","count":6},{"id":"GO:0033859","count":6},{"id":"GO:0046294","count":6},{"id":"GO:0042572","count":6}]},{"hash":"2195308359716097338","title":"Immune signaling and T cell differentiation","description":"The top GO terms are dominated by immune-related processes: immune response, interleukin-12 production, immunological synapse formation, and DN2 thymocyte differentiation (early T cell development). While a few terms relate to behavior or circadian rhythm, the strongest signals point to immune signaling and T cell development as the core theme of this cluster.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":11},{"id":"GO:1902239","count":11},{"id":"GO:0006955","count":11},{"id":"GO:1904155","count":11},{"id":"GO:0007625","count":11}]},{"hash":"1245975678264683115","title":"Immune cell activation and signaling","description":"The top terms cluster around adaptive and innate immune functions: T and B cell activation, T cell costimulation, B cell receptor signaling, phagocytosis, and complement activation, suggesting a common theme of immune response and signaling rather than a single pathway. An outlier term for paranodal junction assembly is present but unlikely to define the cluster's main function.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":5},{"id":"GO:0042102","count":4},{"id":"GO:0030913","count":4},{"id":"GO:0050853","count":3},{"id":"GO:0006958","count":3}]},{"hash":"436815809612086531","title":"Embryogenesis and Growth Regulation","description":"The cluster\u2019s top GO terms center on early development and body patterning (blastocyst formation, somite axis specification, placenta morphogenesis) and growth control (negative regulation of organ growth), with accompanying regulatory signaling and transcriptional control (NF-kappaB pathway activation and transcription by RNA polymerase II) and apoptosis. This combination points to proteins involved in embryonic development and regulation of growth, making the label representative of the cluster\u2019s functions.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046621","count":3},{"id":"GO:0032525","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0007250","count":2},{"id":"GO:0045869","count":2}]},{"hash":"2261860776827357887","title":"Neural and endocrine organ development","description":"The set shows strong signals for nervous system development (midbrain, dorsal spinal cord, motor neuron axon guidance, peripheral nervous system neuron development) and endocrine organogenesis (pituitary gland development, endocrine pancreas development), with embryonic patterning elements (primitive streak formation). This suggests a cluster centered on neural development with related endocrine organ formation.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0003309","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0021516","count":6},{"id":"GO:0031018","count":6}]},{"hash":"920760268173274662","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":20,"triangles":10,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0008306","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0034476","count":2},{"id":"GO:0006367","count":2}]},{"hash":"935751320438027643","title":"Developmental Signaling and Organ Morphogenesis","description":"Top terms point to developmental morphogenesis across tissues (ear otoliths, kidney glomerulus and tubules, tooth mineralization) and to major signaling modules (Wnt, RTKs). They also cover innate immune sensing (LPS detection) and interferon/chemokine signaling. Together, these proteins likely participate in coordinating tissue morphogenesis with immune signaling cues.","confidence":"Medium","size":11,"edges":19,"triangles":12,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032474","count":7},{"id":"GO:2001013","count":7},{"id":"GO:0002756","count":7},{"id":"GO:0007169","count":7},{"id":"GO:1904887","count":7}]},{"hash":"1154008239198560026","title":"RNA transcription machinery and ribosome biogenesis","description":"Based on the top GO terms, the proteins predominantly relate to transcription by multiple RNA polymerases (I, II, III), transcription elongation, RNA-templated transcription, and tRNA transcription by Pol III, along with ribosome biogenesis. This points to a shared role in producing and assembling ribosomal and transcriptional machinery rather in a specific signaling pathway. A lipopolysaccharide response term appears less represented, suggesting it is peripheral to the core function.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0042797","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0006369","count":1},{"id":"GO:0001172","count":1}]},{"hash":"1143927091431596142","title":"Ubiquitin-mediated proteolysis and cell cycle control","description":"The top GO terms cluster around ubiquitin-dependent protein degradation and cell cycle regulation, including SCF- and APC/C-mediated ubiquitination and proteasomal catabolic processes (e.g., K11-linked ubiquitination). Some vesicle trafficking and cytoskeletal remodeling terms appear as peripheral processes linked to these pathways","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0051016","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0031145","count":2}]},{"hash":"1616717285884577112","title":"Neuronal development and synaptic plasticity","description":"Based on the top GO terms, the cluster is enriched for nervous system development and synaptic function, including axonogenesis, long-term potentiation, excitatory postsynaptic potential, visual perception, and Schwann cell development. A few terms (e.g., heart development, ABA signaling, mitotic cell cycle) seem peripheral or cross-species, but the dominant signal points to neural development and synaptic signaling. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":6},{"id":"GO:0060079","count":5},{"id":"GO:0007409","count":5},{"id":"GO:0043065","count":5},{"id":"GO:0060291","count":5}]},{"hash":"1692029634843639900","title":"Epithelial differentiation and ECM remodeling","description":"Most frequent terms cluster around keratinocyte differentiation, Notch receptor processing, collagen fibril organization, and calcium-independent cell-matrix adhesion, pointing to epidermal/epithelial development and extracellular matrix remodeling. Palatal shelf morphogenesis and TNF-related terms support tissue morphogenesis and immune signaling contexts within epithelia, but the dominant signal is epithelial differentiation coupled with ECM dynamics.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030216","count":5},{"id":"GO:0034612","count":5},{"id":"GO:0007220","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0010042","count":5}]},{"hash":"636660614767066336","title":"Embryonic Development and Innate Immune Signaling","description":"The top GO terms show clear developmental processes (neural tube closure, multicellular development, skin development, cell fusion) alongside innate immune signaling (innate immune response, defense against Gram-positive bacteria, NF-kB pathway-related terms). This suggests a cluster of proteins involved in both developmental regulation and innate immune signaling, possibly sharing regulatory GTPase activities. Given the mix of developmental and immune terms (plus some obsolete annotations), the label is representative but not exclusively tied to one theme, hence Medium confidence.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0000747","count":3}]},{"hash":"962400523105781167","title":"Chromatin Regulation in Development","description":"Top GO terms point to DNA-templated transcription, chromatin organization, and histone methylation (H3K4, H3K79), suggesting proteins involved in chromatin modification and transcriptional control. The presence of development-related terms (multicellular organism development, retina development, skeletal muscle tissue regeneration, epithelial cell proliferation) indicates these factors participate in developmental programs across tissues. Some terms are obsolete, but collectively they reflect chromatin-based regulation during development.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0007568","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0050679","count":3},{"id":"GO:0060041","count":3}]},{"hash":"663552443197050961","title":"Hair Cycle and Keratinization","description":"The GO terms are dominated by hair cycle and keratinization, suggesting proteins involved in hair follicle biology and keratin production; the cluster likely groups hair-related structural proteins and keratin-associated components.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":11},{"id":"GO:0031424","count":11}]},{"hash":"1302972211927824191","title":"Membrane signaling and cell migration","description":"This cluster centers on membrane-associated processes: focal adhesion and ruffle assembly, protein localization to the plasma membrane, and fibroblast migration, all pointing to membrane remodeling and movement. Lipid signaling via phosphatidylinositol phosphate biosynthesis and PI3K signaling regulation further support a membrane signaling theme, with autophagosome assembly regulation hinting at membrane-trafficking links. Overall, the non-obsolete terms converge on membrane dynamics driving cell migration.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014066","count":2},{"id":"GO:0035855","count":2},{"id":"GO:0042070","count":2},{"id":"GO:0048041","count":2},{"id":"GO:0097178","count":2}]},{"hash":"1403017150277693517","title":"Histone modification and transcription regulation","description":"The top GO terms are dominated by histone modifications (acetylation/methylation of H3 and H4 at various residues) and DNA-templated transcription, which together point to chromatin modification as the core function driving this cluster. The presence of a DNA repair-related term (double-strand break repair via homologous recombination) aligns with chromatin remodeling roles in repair, reinforcing the theme of chromatin state influencing transcription and genome maintenance.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035948","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0061087","count":3},{"id":"GO:0043982","count":3},{"id":"GO:0043981","count":3}]},{"hash":"560200025537087051","title":"Embryonic Development and Organ Morphogenesis","description":"The proteins are linked to diverse developmental processes across multiple tissues (pancreatic, mesoderm, heart cushion/EMT, placenta, endocrine system, cartilage, hair follicle morphogenesis) and body patterning (left-right formation), indicating a broad embryogenesis/organogenesis theme rather than a single specific function.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":10},{"id":"GO:0007498","count":10},{"id":"GO:0003198","count":10},{"id":"GO:0060806","count":10},{"id":"GO:0035270","count":10}]},{"hash":"1198280136672510876","title":"Apoptosis and inflammatory signaling under cellular stress","description":"This cluster is dominated by GO terms for apoptosis (apoptotic process, positive regulation of apoptotic process) and inflammatory signaling (interleukin-1-mediated signaling). It also includes stress-responsive responses such as cellular response to hydrogen peroxide and hormone stimuli, fitting a theme of cellular stress- and inflammation-driven regulation. Additional terms point to adipogenesis and endothelial migration, suggesting a broader tissue-remodeling context where stress, inflammation, and differentiation programs intersect. Overall, the theme centers on stress-induced signaling that influences cell fate and inflammatory responses.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0070498","count":2},{"id":"GO:0071375","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0043065","count":2}]},{"hash":"739945868855836607","title":"Genome maintenance and cell division","description":"The cluster is dominated by GO terms for DNA replication, mitotic cell cycle, and DNA repair, indicating a core role in genome maintenance during cell division. Ubiquitin-dependent degradation and chaperone-mediated assembly terms point to concomitant protein quality control. A peroxisome import term and blastocyst development signal broader cellular and developmental contexts, but the strongest theme remains genome maintenance linked to cell division.","confidence":"Medium","size":10,"edges":6,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0006281","count":2},{"id":"GO:0016558","count":2},{"id":"GO:0001824","count":2}]},{"hash":"1977535617099205488","title":"SNARE-driven vesicle trafficking and Golgi function","description":"These terms cluster around vesicle transport events involving the ER\u2013Golgi axis, endosome sorting, and Golgi dynamics, plus SNARE complex assembly and exocytic delivery of neurotransmitter receptors to the postsynaptic membrane and associated synaptic plasticity. The common theme is SNARE-mediated vesicle trafficking with a focus on Golgi/endosome routes and synaptic receptor localization.","confidence":"High","size":10,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0045022","count":3},{"id":"GO:1903078","count":3},{"id":"GO:0034498","count":3},{"id":"GO:0032258","count":3}]},{"hash":"871852327032434693","title":"ER Protein Folding and Quality Control","description":"Based on strong enrichment for endoplasmic reticulum\u2013related processes (protein folding in ER, ER stress response, and ER-associated glycosylation and protein repair), the cluster appears to comprise proteins involved in ER protein processing and quality control, with oxidative stress handling as a linked facet. A few outlier terms (e.g., transcription, nonphotochemical quenching, magnesium transport) are less representative but do not override the dominant ER-centric theme.","confidence":"High","size":10,"edges":25,"triangles":24,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034975","count":9},{"id":"GO:0045454","count":8},{"id":"GO:0034599","count":7},{"id":"GO:0018279","count":7},{"id":"GO:0006351","count":7}]},{"hash":"277304394002378832","title":"Oxidative Stress Response and Detoxification","description":"This cluster centers on cellular defense against stress and toxic challenges, as shown by terms for response to lipopolysaccharide, xenobiotic stimuli, and detoxification; alongside redox-related processes (oxidation-reduction, removal of superoxide radicals) and metabolic support (glycolysis, 2-oxoglutarate metabolism) to fuel these defenses. The mix suggests a coherent theme of managing oxidative stress and detoxification rather than a single signaling pathway.","confidence":"Medium","size":10,"edges":23,"triangles":20,"max_degree":9,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0032496","count":7},{"id":"GO:0055114","count":7},{"id":"GO:0006096","count":5},{"id":"GO:0042493","count":5},{"id":"GO:2000648","count":5}]},{"hash":"2225855687254171821","title":"Redox and NO Signaling in Cardiovascular System","description":"The cluster is characterized by oxidative stress and NO-related processes (hydrogen peroxide catabolic process, cellular oxidant detoxification, response to nitrosative stress, positive regulation of nitric oxide biosynthetic process). It also includes cardiovascular-related terms (heart development, platelet aggregation) and renal transport, suggesting a vascular/hematologic context where redox state and NO signaling coordinate function.","confidence":"Medium","size":10,"edges":24,"triangles":15,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042744","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0015701","count":3},{"id":"GO:0043353","count":3},{"id":"GO:0045429","count":3}]},{"hash":"1535690023874452418","title":"ER-Golgi vesicle trafficking and mitosis","description":"This cluster is defined by strong signals for ER-to-Golgi and Golgi-to-ER vesicle transport, including COPII-coated vesicle budding, with additional linkage to mitotic spindle assembly. Although there are a few broader trafficking terms, the dominant theme is vesicle trafficking related to ER-Golgi transport, accompanied by cell division processes.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0006890","count":7},{"id":"GO:0006888","count":7},{"id":"GO:0090114","count":6},{"id":"GO:0035646","count":6}]},{"hash":"1572946087037662131","title":"Unknown","description":"The top GO terms span many unrelated areas (proteolysis, xenobiotic response, lung differentiation, glucose transport, IL-13 production, vision, Rho signaling, deglutamylation, folic acid metabolism, allantoin assimilation) with no clear common function or connectivity (no edges/triangles), so there is no cohesive cluster theme to name beyond Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0060487","count":2},{"id":"GO:0015758","count":2},{"id":"GO:2000667","count":2}]},{"hash":"168199184243918158","title":"Golgi- and SNARE-dependent synaptic vesicle trafficking","description":"The GO terms cluster around Golgi apparatus organization and transport (Golgi ribbon formation, ER-Golgi transport, intra-Golgi transport, ER-Golgi compartment organization) together with SNARE complex assembly and vesicle fusion, including exocytic insertion of receptors to the postsynaptic membrane and regulation of synaptic vesicle priming, linking secretory pathway trafficking to synaptic transmission and plasticity (LTP). This points to a cohesive role in delivering and fusing synaptic vesicles and receptors via Golgi- and SNARE-mediated routes.","confidence":"High","size":10,"edges":31,"triangles":44,"max_degree":9,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0090161","count":10},{"id":"GO:0098967","count":10},{"id":"GO:0060291","count":10},{"id":"GO:0048280","count":10},{"id":"GO:0035493","count":10}]},{"hash":"1891734098742964239","title":"Immune activation and inflammatory signaling","description":"The top GO terms cluster around immune signaling and inflammatory responses: NF-kappaB regulation, B cell receptor signaling, lipopolysaccharide response, Fc receptor signaling, and IL-2 production. Additional terms point to Kit signaling and vascular/neuronal processes (angiogenesis, axon guidance) that can intersect with immune and inflammatory contexts. Overall, the proteins seem linked by roles in immune cell activation and inflammatory signaling rather than a single metabolic process.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0071222","count":2},{"id":"GO:0060368","count":2},{"id":"GO:1900042","count":2}]},{"hash":"1794385462870886604","title":"NF-kappaB signaling and transcription regulation","description":"This cluster centers on transcriptional control with a focus on NF-kappaB signaling and innate immune response, including ubiquitin-dependent protein turnover that can regulate transcription factors and signaling components. The mix of negative regulation of RNA Pol II transcription, canonical NF-kappaB pathway modulation, and innate immunity points to coordinated control of gene expression during immune signaling, with proteolysis shaping the signaling environment.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0051290","count":2}]},{"hash":"1146085734366846179","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000747","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0000398","count":2}]},{"hash":"1177678204065282343","title":"Methionine cycle and one-carbon metabolism","description":"This cluster is dominated by terms tied to methionine and one-carbon metabolism (L-methionine cycle, methionine catabolic processes, SAM biosynthesis, and one-carbon metabolic process), with supporting links to related central carbon metabolism (oxaloacetate) and lipid biosynthesis (sphinganine, fatty acid transport). The recurring theme across proteins appears to center on methyl-group production and transfer via SAM, suggesting a cohesive metabolic module rather than disparate functions. Confidence: High","confidence":"","size":10,"edges":32,"triangles":62,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019518","count":4},{"id":"GO:0006107","count":4},{"id":"GO:0006556","count":3},{"id":"GO:0006730","count":3},{"id":"GO:0009087","count":3}]},{"hash":"534098848652293165","title":"Spinal motor neuron development","description":"Dominant neural development signals centered on spinal cord motor neurons: axon guidance, ventral/interneuron specification, and motor neuron differentiation terms. Some non-neural embryogenesis terms are present but secondary, so the cluster mainly reflects spinal motor neuron development and connectivity. ","confidence":"High","size":10,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008045","count":9},{"id":"GO:0035852","count":9},{"id":"GO:0021521","count":9},{"id":"GO:0021520","count":9},{"id":"GO:0035849","count":9}]},{"hash":"2163728590744535390","title":"Chromatin Remodeling and Transcription Initiation","description":"The proteins are linked to chromatin remodeling and transcription initiation, with themes around nucleosome mobility, histone modification, and RNAP II promoter regulation, suggesting a shared role in controlling gene expression via chromatin state, despite some legacy/obsolete terms.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":3},{"id":"GO:0045815","count":3},{"id":"GO:0051039","count":2},{"id":"GO:0060358","count":2},{"id":"GO:1900051","count":2}]},{"hash":"1027774348812382457","title":"Developmental and immune system processes","description":"The terms point to organismal development (brain development, multicellular growth, apical localization) alongside immune-related functions (marginal zone B cell differentiation, defense against Gram-positive bacteria) with accompanying regulatory processes (transcriptional regulation, Rho signaling) and barrier formation, suggesting a cluster focused on development with concurrent immune and vascular regulation rather than a single narrow function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045176","count":2},{"id":"GO:0002315","count":2},{"id":"GO:0007420","count":2},{"id":"GO:1903142","count":2},{"id":"GO:0035264","count":2}]},{"hash":"1863610971903027849","title":"Neural development and craniofacial morphogenesis","description":"The GO terms center on CNS neuron development, axon and dendrite morphogenesis, and embryonic cranial skeleton morphogenesis, with additional neural crest\u2013related processes such as melanocyte adhesion and trachea formation, suggesting these proteins collectively participate in neural development and neural crest\u2013derived craniofacial differentiation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021954","count":3},{"id":"GO:0006977","count":3},{"id":"GO:0045773","count":3},{"id":"GO:0007178","count":3},{"id":"GO:0048813","count":3}]},{"hash":"106424165582535708","title":"Membrane-Associated Signaling and Proteolysis Components","description":"The cluster\u2019s terms largely point to membrane- or extracellular-space processes: GPI-anchor attachment, regulation of signaling pathways such as EGFR, urokinase plasminogen activator signaling, and cholinergic synaptic transmission, with lipase-related regulation at the membrane. This suggests a theme of membrane-associated signaling and proteolytic/receptor-modulating activities rather than intracellular, cytosolic functions. Some terms are obsolete, but the overarching pattern supports a membrane/secreted signaling focus.","confidence":"Medium","size":10,"edges":12,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051006","count":2},{"id":"GO:2001268","count":2},{"id":"GO:0032429","count":2},{"id":"GO:0016255","count":2},{"id":"GO:0045742","count":2}]},{"hash":"1240976067035447101","title":"Immune and Sensory Signal Transduction","description":"The top GO terms point to diverse signaling processes across systems: T cell receptor signaling and IL-2 production (immune signaling), cellular responses to xenobiotic stimuli and cAMP/PKA regulation (second messenger signaling), serotonin metabolism (neurotransmission), and phototransduction (vision). Together they suggest a cluster centered on general signal transduction mechanisms spanning immune, nervous, and sensory pathways, with some noise from obsolete terms. ","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0043949","count":4},{"id":"GO:0010738","count":4},{"id":"GO:0042428","count":4}]},{"hash":"275105201981737902","title":"Cellular stress, apoptosis, and cell cycle control","description":"The cluster includes GO terms related to ubiquitination, apoptosis in myeloid and hepatocytes, cell cycle, epithelial polarity, dendrite development regulation, mechanical stimulus response, eye morphogenesis, insulin secretion regulation, and nucleotide-excision repair. This mix points to broad cellular stress responses and regulation of cell fate, proliferation, and maintenance of tissue homeostasis rather than a single specific pathway. The label captures the overarching themes of stress response, apoptosis regulation, and cell cycle control.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0033028","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0090162","count":2}]},{"hash":"336288402724356331","title":"Glycosaminoglycan biosynthesis and cell adhesion","description":"The prominent GO terms point to synthesis of glycosaminoglycans (heparan sulfate, chondroitin sulfate) and proteoglycan biosynthesis, i.e., glycosylation pathways feeding the extracellular matrix. Coupled with cell adhesion molecule production and leukocyte tethering/rolling, the cluster seems enriched for extracellular matrix components and cell\u2013cell adhesion processes. UDP-D-xylose metabolism supports glycosaminoglycan assembly, reinforcing this theme, with a few terms appearing as minor outliers (e.g., aggressive behavior, insulin response).","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":4},{"id":"GO:0006688","count":3},{"id":"GO:0050901","count":2},{"id":"GO:0050650","count":2},{"id":"GO:0060352","count":2}]},{"hash":"1306033344096230117","title":"Unknown","description":"The terms span lipid metabolism (lipid homeostasis, ubiquinone biosynthesis regulation), vitamin E/quinoid processes (tocopherol cyclase activity), neural development (Purkinje cell layer morphogenesis), and viral/host interactions; several terms are obsolete. The set lacks a coherent shared function or interaction network (edges/triangles are zero), so no single, representative label can be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902171","count":2},{"id":"GO:0021692","count":2},{"id":"GO:1901006","count":2},{"id":"GO:0010795","count":2},{"id":"GO:0055088","count":2}]},{"hash":"2301542413698860186","title":"Unknown","description":"The terms span development (BMP signaling, intestinal stem cell homeostasis, wing disc hair organization), immune regulation (T cell death, IL-12 production), muscle development, telomere maintenance, and basic cellular processes (protein dephosphorylation). There is no single dominant function or clearly connected pathway linking these terms, so a cohesive, specific label cannot be assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070236","count":1},{"id":"GO:0008101","count":1},{"id":"GO:0036335","count":1},{"id":"GO:0048642","count":1},{"id":"GO:0032212","count":1}]},{"hash":"983308709132170015","title":"Actin-driven membrane protrusions and cell adhesion","description":"The terms center on actin-based structures (filopodium, ruffle, podosome) and processes that govern cell spreading, polarity, and endocytosis, all pointing to dynamic actin cytoskeleton remodeling involved in cell migration and adhesion. Signaling terms like PI3K, insulin receptor, and T cell receptor pathways likely support these cytoskeletal rearrangements and membrane dynamics.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":5},{"id":"GO:1900026","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0071963","count":4},{"id":"GO:0006897","count":4}]},{"hash":"531025348509392864","title":"Neuronal development and synaptic plasticity","description":"This cluster shows strong signals for neural growth and synaptic function, with terms like axonogenesis, long-term synaptic potentiation, memory, excitatory postsynaptic potential, and regulation of neuronal synaptic plasticity. Schwann cell development also fits the nervous system context, though heart development and mitotic cell cycle terms suggest some broader roles. The shared theme appears to be neural development and synaptic modulation, possibly involving GTPase-driven cytoskeletal changes during neurite outgrowth and synapse remodeling.","confidence":"High","size":9,"edges":7,"triangles":3,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":5},{"id":"GO:0060291","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007613","count":4}]},{"hash":"682931374843926235","title":"Actin Cytoskeleton Remodeling and Cell Motility","description":"The cluster is characterized by GO terms focused on actin cytoskeleton remodeling, including ruffle and podosome assembly, actin polymerization, and cytoskeleton reorganization, along with signals controlling substrate adhesion, cell spreading, polarity, and small GTPase\u2013mediated signaling, indicating a cohesive module for actin-driven protrusion, adhesion, and movement.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097178","count":9},{"id":"GO:1900026","count":9},{"id":"GO:0051835","count":9},{"id":"GO:0031532","count":9},{"id":"GO:0043652","count":9}]},{"hash":"835059978546899340","title":"Muscle development and proliferation signaling","description":"This cluster is dominated by terms tied to muscle lineage progression, including myoblast proliferation and myotube development, along with positive regulation of fibroblast proliferation and calcineurin-NFAT signaling. While there are also broader growth-related terms (mitotic cell cycle, thyroid hormone metabolism), the shared theme centers on muscle cell growth and differentiation signals rather than a single distinct process. ","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070886","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0042403","count":2},{"id":"GO:0051450","count":2},{"id":"GO:0034392","count":2}]},{"hash":"1257347586556465116","title":"Developmental signaling and cytoskeletal remodeling","description":"The top GO terms emphasize actin cytoskeleton dynamics (microspike assembly, Rho signaling) and developmental morphogenesis (face, heart development; retinoic acid response), with supporting immune/vascular context (foam cell differentiation, MCP-1 regulation, luteinization). This points to a broad theme of embryonic development and cell movement driven by signaling and cytoskeletal remodeling, 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:2001275","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0030035","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0071300","count":2}]},{"hash":"1014000698642066384","title":"Unknown","description":"The GO terms are highly diverse, spanning neural development, chromatin regulation, signaling pathways, exocytosis, metabolism, and nuclear/mating processes. There isn\u2019t a clear, single functional theme tying these proteins together, so a concise, unified label isn\u2019t supported by the data.","confidence":"","size":9,"edges":14,"triangles":5,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014032","count":4},{"id":"GO:0035562","count":4},{"id":"GO:0038163","count":4},{"id":"GO:0006470","count":4},{"id":"GO:0045921","count":4}]},{"hash":"966258193245920266","title":"Cajal body\u2013focused RNA processing and telomere maintenance","description":"The cluster\u2019s GO terms cluster around Cajal bodies (scaRNA localization, protein localization to Cajal body) and telomerase-mediated telomere maintenance, suggesting a nuclear RNA-processing module centered on Cajal bodies and telomere regulation. Additional terms for pore complex assembly and related nuclear processes support a broader role in nuclear organization, while stress response terms may be incidental.","confidence":"High","size":9,"edges":11,"triangles":5,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":6},{"id":"GO:0051973","count":6},{"id":"GO:0042220","count":6},{"id":"GO:1904871","count":4},{"id":"GO:0046931","count":4}]},{"hash":"1781254457859156009","title":"DNA replication and centrosome cycle regulation","description":"The top GO terms are dominated by DNA replication, centrosome cycle, and positive regulation of the nuclear cell cycle/DNA replication, indicating a core theme of cell cycle control and genome duplication. While there are additional terms related to development, adhesion, and immune response, the strongest, most recurrent signals point to replication and centrosome dynamics as the cluster\u2019s central function.","confidence":"Medium","size":9,"edges":9,"triangles":2,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010571","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0007118","count":3},{"id":"GO:0007098","count":3},{"id":"GO:0006260","count":3}]},{"hash":"1307342576155065469","title":"Small GTPase\u2013mediated actin remodeling in immune cells","description":"This cluster centers on small GTPase signaling (Rho/Rac/Ras) and cytoskeletal dynamics (filopodium/lamellipodium assembly, membrane tubulation regulation), with immune-related hints (NK T cell differentiation, IL-4 production, IL-7 response). The shared theme appears to be GTPase-driven actin remodeling in immune signaling contexts.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1903526","count":5},{"id":"GO:0046847","count":5},{"id":"GO:0035020","count":5},{"id":"GO:0030032","count":5},{"id":"GO:0001865","count":5}]},{"hash":"294097919164123821","title":"Epithelial Transport and Secretion","description":"A majority of the terms point to transport across membranes and secretion across epithelial or neural interfaces (potassium transmembrane transport, transepithelial water transport, saliva and CSF secretion), with related intercellular communication (gap junction transport) and brain development aspects (lateral ventricle development) that fit the CSF/epithelial context. Some terms (lipid digestion, cGMP biosynthesis) are less aligned and may be incidental, but the dominant theme is epithelial transport and secretion processes.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":4},{"id":"GO:0044241","count":2},{"id":"GO:0006182","count":2},{"id":"GO:0072489","count":2},{"id":"GO:1990349","count":2}]},{"hash":"1219864432946969737","title":"Angiogenesis and inflammatory adhesion signaling","description":"The top terms cluster around vascular development (angiogenesis) and cell adhesion (adherens junction organization), with immune/endocytic activity (phagocytosis, plasma membrane to endosome transport) and inflammatory signaling (TNF pathway). Although a few terms (glycogen regulation, sodium transport) are peripheral, the strongest shared theme ties angiogenesis, adhesion, and inflammatory/endocytic signaling. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0034332","count":2},{"id":"GO:0006911","count":2},{"id":"GO:0045725","count":2},{"id":"GO:0010765","count":2}]},{"hash":"127819309895050397","title":"Transmembrane transporters for ions and metabolites","description":"All top GO terms describe transport across membranes for a wide range of substrates (ions, sugars, vitamins, xenobiotics, neurotransmitters). The cluster appears to comprise membrane transport proteins that mediate transmembrane movement rather than enzymes or receptors.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":8},{"id":"GO:0015751","count":8},{"id":"GO:0098700","count":8},{"id":"GO:0035725","count":8},{"id":"GO:0035435","count":8}]},{"hash":"1274612864189235545","title":"Ubiquitin-dependent signaling regulation","description":"This cluster shows multiple ubiquitination-related terms (monoubiquitinated protein deubiquitination, K63-linked deubiquitination, ubiquitin-dependent protein catabolic process, negative regulation of ubiquitination) indicating a common theme around ubiquitin turnover. It also includes BMP signaling pathway and GPCR signaling regulation terms, suggesting the cluster is involved in signaling processes modulated by ubiquitination. A few terms point to protein localization to the cell surface and splicing complex assembly, but the ubiquitin-centric terms predominate.","confidence":"Medium","size":9,"edges":16,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035616","count":2},{"id":"GO:0034394","count":2},{"id":"GO:0000244","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0060389","count":2}]},{"hash":"1700919595347961429","title":"Cardiac development and signaling","description":"The GO terms show a clear emphasis on heart development, secondary heart field specification, and cardiac muscle contraction, along with GPCR-mediated signaling involving acetylcholine and tachykinin receptors, pointing to a cardiogenesis and cardiac signaling theme. Some terms (bone/cartilage differentiation and visual perception) appear less central and may reflect broader or multi-function proteins, but the heart-related terms predominate. ","confidence":"Medium","size":9,"edges":12,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001957","count":4},{"id":"GO:0061181","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0031914","count":3},{"id":"GO:0045444","count":3}]},{"hash":"145724689698383105","title":"Mitochondrial tRNA charging and translation","description":"This cluster is strongly enriched for GO terms related to mitochondrial tRNA aminoacylation (asparaginyl-, aspartyl-, lysyl-, and general lysyl-tRNA charging) and translation, indicating components of the mitochondrial protein synthesis machinery. A few outlier terms (e.g., telomere maintenance, mitotic checkpoint signaling) are likely non-representative noise. Confidence: High","confidence":"","size":9,"edges":20,"triangles":18,"max_degree":8,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0070145","count":5},{"id":"GO:0071915","count":5},{"id":"GO:0070146","count":5},{"id":"GO:0070154","count":5},{"id":"GO:0072581","count":5}]},{"hash":"849448829634044284","title":"Brain development and neural plasticity","description":"The top GO terms are dominated by brain and nervous system development (forebrain development, brain development, multicellular organism development) and include positive regulation of synaptic plasticity, suggesting a coherent theme around neural development and synaptic modulation despite the lack of network edges.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0030900","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0031915","count":4},{"id":"GO:0060528","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1059205138921554126","title":"Neural Development and EGFR Signaling","description":"The top GO terms are dominated by nervous system development (nervous system development, central nervous system development, forebrain development) with supporting signaling pathways including epidermal growth factor receptor signaling and small GTPase-mediated signal transduction, pointing to a core theme of neural development and related signaling. Some terms about growth regulation and metal ion responses may reflect broader cellular roles or annotation noise but do not override the dominant neural-development signal.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0006878","count":3},{"id":"GO:0007417","count":3},{"id":"GO:0040014","count":3},{"id":"GO:0030900","count":3}]},{"hash":"507183909692892171","title":"Developmental morphogenesis and cell-cycle regulation","description":"The top GO terms cluster around developmental processes (neural tube closure, skeletal system development, multicellular organism development) and core cell-cycle/DNA repair activities (mitotic cell cycle, homologous recombination), plus related processes like proteasomal degradation and actin cytoskeleton remodeling (Arp2/3). This suggests proteins involved in growth, differentiation, and morphogenesis with concurrent cell-cycle control, though a few terms (immune/metal stress responses) appear ancillary. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0000724","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0050830","count":3}]},{"hash":"1134498139892318323","title":"Ubiquitin-Dependent Immune Signaling","description":"This cluster centers on ubiquitin-related processes (ubiquitination and ubiquitin-dependent proteolysis) together with adaptive immune functions (B and T cell signaling, defense against virus, TNF signaling). The combination suggests proteins involved in ubiquitin-regulated immune signaling and NF-kappaB\u2013linked pathways, influencing immune responses and cell survival.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0002250","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0033209","count":4}]},{"hash":"1246004358176994522","title":"Retinoic acid signaling and eye development","description":"This cluster is strongly enriched for retinol and retinal metabolic processes, retinoic acid receptor signaling, and embryonic eye development terms, with supporting neural crest development and pattern formation terms. These indicate a coherent functional theme centered on retinoid-driven eye/retina development and related neural patterning. Some terms (e.g., nucleus accumbens development, endothelial proliferation) may reflect broader neural development roles or secondary processes, but the dominant signal ties to retinoid signaling in ocular development.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":9},{"id":"GO:0042574","count":9},{"id":"GO:0014032","count":8},{"id":"GO:0060013","count":8},{"id":"GO:0048384","count":8}]},{"hash":"1565980760926406725","title":"Inflammatory angiogenesis and barrier remodeling","description":"This cluster centers on innate immune and inflammatory processes (innate immune response, acute inflammatory response, complement activation, cytokine production) together with vascular and extracellular matrix remodeling (sprouting angiogenesis, collagen fibril organization, tricellular tight junction assembly), suggesting a coordinated role in inflammation, barrier integrity, and new vessel formation.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1904274","count":3},{"id":"GO:0002040","count":3},{"id":"GO:2000483","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0006958","count":3}]},{"hash":"990405073679900410","title":"Rho/Rac GTPase\u2013driven cytoskeletal remodeling","description":"The proteins are enriched for positive regulation of GTPase activity, Rac/Rho signaling, lamellipodium assembly, and substrate adhesion-dependent cell spreading, all pointing to actin cytoskeleton remodeling and cell migration. Immune and heart development terms appear but the core theme is Rho-family GTPase\u2013mediated cytoskeletal control.","confidence":"High","size":9,"edges":9,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":6},{"id":"GO:0035020","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0030032","count":6},{"id":"GO:0007507","count":6}]},{"hash":"2058105050174251904","title":"Immune signaling and thymocyte differentiation","description":"This cluster\u2019s top GO terms cluster around immune processes (immune response, IL-12 production, immunological synapse formation) and T cell development (DN2 thymocyte differentiation). Although a couple terms touch circadian or behavioral aspects, the dominant signal is immune communication and lymphocyte differentiation, suggesting the proteins contribute to immune activation and T cell maturation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":6},{"id":"GO:1902239","count":6},{"id":"GO:0006955","count":6},{"id":"GO:1904155","count":6},{"id":"GO:0007625","count":6}]},{"hash":"1245431049744828170","title":"Metabolic Stress, Autophagy, and DNA Damage Response","description":"The cluster\u2019s terms center on energy metabolism (glycolysis and fructose metabolism), autophagy, and DNA damage signaling/repair (DNA repair, DNA damage checkpoint regulation, and NF-kappaB-related activity). This suggests a cohesive theme where metabolic status and autophagic processes interface with genome maintenance, rather than a single, narrowly defined function. The intestinal epithelial development term is less central but may reflect tissue-specific regulation in some proteins. Overall, the label captures metabolic and stress-response connectivity within the cluster.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0006914","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0006003","count":2},{"id":"GO:0007585","count":2}]},{"hash":"1026542824631082808","title":"Epigenetic Chromatin Regulation","description":"The dominant GO terms describe chromatin state control, including negative regulation of rDNA heterochromatin formation and histone H3K27/K4 methylation/demethylation, which points to epigenetic regulation of gene expression. A few terms touch on development, which can involve epigenetic control during organogenesis, aligning with the chromatin-modifying theme. The lack of edges suggests a broad, non-directly interacting set of proteins converging on chromatin processes. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061188","count":3},{"id":"GO:1901536","count":3},{"id":"GO:0098532","count":3},{"id":"GO:0080182","count":3},{"id":"GO:0032602","count":2}]},{"hash":"2047323850350412215","title":"Placental and embryonic organogenesis","description":"The terms cluster around embryonic development, especially placental differentiation, trophoblast and placenta formation, plus heart-related EMT and left-right patterning, with additional signals for cartilage morphogenesis and endocrine system development. A few terms (splicing and transcription regulation) seem more general background noise; overall, the cluster reflects developmental processes in embryogenesis with a placental emphasis.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":7},{"id":"GO:0003323","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0035270","count":6}]},{"hash":"2128916230703526775","title":"Actin Dynamics in Development and Signaling","description":"Top GO terms cluster around actin cytoskeleton remodeling (filopodium/lamellipodium assembly, actin reorganization), epithelial junction formation, developmental morphogenesis (hair follicle), and signaling (EGFR pathway), with some links to synaptic structural plasticity. This suggests a cohesive theme of actin-driven cell movement and signaling guiding development and tissue organization across epithelia and neurons.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0031069","count":3},{"id":"GO:1990967","count":3},{"id":"GO:0010592","count":3}]},{"hash":"2002271108556108581","title":"DNA replication and repair cluster","description":"The top GO annotations are centered on DNA repair, DNA replication, and recombination/telomere maintenance, suggesting a set of proteins involved in genome maintenance during replication and meiosis. A few developmental terms appear among the top terms, but they are limited in representation and do not define the cluster's primary function. Overall, the cluster seems cohesive around nuclear DNA maintenance.","confidence":"Medium","size":9,"edges":32,"triangles":60,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0007131","count":2},{"id":"GO:0000722","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0007299","count":2}]},{"hash":"618871374871996551","title":"RNA Splicing and mRNA Processing","description":"The top GO terms cluster around spliceosome recognition, processome assembly, mRNA export, stability, and splicing regulation, indicating a cohesive group of factors involved in RNA maturation and alternative splicing.","confidence":"High","size":9,"edges":14,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006376","count":5},{"id":"GO:0045843","count":4},{"id":"GO:0034462","count":1},{"id":"GO:0048255","count":1},{"id":"GO:0097010","count":1}]},{"hash":"2254818649822450844","title":"Fatty acid biosynthesis and lipid metabolism","description":"This cluster is dominated by terms tied to fatty acid production, including long-chain and methyl-branched fatty acid biosynthesis and malonyl-CoA biosynthesis, signaling a core fatty acid/lipid biosynthetic function. Additional terms related to energy metabolism (2-oxoglutarate metabolism, glycolysis) and insulin response suggest coordinated metabolic control around lipid pathways; the antibiotic biosynthetic process term may reflect secondary metabolism linked to fatty acid\u2013derived precursors in microbes. Overall, the primary theme appears to be fatty acid biosynthesis and lipid metabolism.","confidence":"High","size":9,"edges":11,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0033512","count":2},{"id":"GO:0042759","count":2},{"id":"GO:0017000","count":2},{"id":"GO:1902321","count":2},{"id":"GO:0032869","count":2}]},{"hash":"1950600064879660831","title":"Neural Behavior and Circadian Signaling","description":"The top GO terms point to behavioral and neural processes (visual learning, locomotory and grooming behavior) and circadian rhythm, often mediated by GPCR signaling. Some immune-related terms appear but likely reflect broader pleiotropy rather than core cluster function, so the dominant theme is neural behavior and circadian regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":4},{"id":"GO:0007626","count":4},{"id":"GO:0035625","count":3},{"id":"GO:1902239","count":3},{"id":"GO:0006955","count":3}]},{"hash":"439163388335223233","title":"Metal Ion Stress and Hormone Signaling","description":"The top GO terms point to metal ion responses (lead and cadmium) and signaling/hormone-related processes (cytokinin signaling, steroid hormone receptor assembly) along with a cell-cycle transition term, suggesting a cluster of proteins involved in stress-induced signaling that regulates cellular processes. While some terms are obsolete, the recurring theme is signaling pathways responding to metal stress and hormonal cues rather than a single, cohesive biochemical activity. Hence, a label centered on metal ion stress and hormone signaling captures the broad shared function.","confidence":"Low","size":9,"edges":7,"triangles":0,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:1903071","count":5},{"id":"GO:0010288","count":5},{"id":"GO:0016576","count":5},{"id":"GO:0046661","count":5},{"id":"GO:0071276","count":5}]},{"hash":"2161819574991640665","title":"Neuronal Development and Synaptic Plasticity","description":"The top terms cluster around brain development and neuronal signaling, including substantia nigra development, sensory perception of sound, and regulation of long-term neuronal synaptic plasticity. Other membrane-organization terms like tight junctions and membrane rafts may reflect shared membrane biology in neural tissues, while a few terms touch on unrelated immune signaling. Overall, the dominant theme is neuronal development and synaptic regulation.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090038","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0021762","count":3},{"id":"GO:0070830","count":3},{"id":"GO:0001766","count":3}]},{"hash":"1260701180581854920","title":"Nuclear RNA processing and genome maintenance","description":"This cluster is enriched for nuclear processes: mRNA splicing via the spliceosome and rRNA processing, coupled with chromatin organization and homologous recombination\u2013based DNA repair, plus related cell cycle and translation initiation signals. Taken together, these terms point to a set of proteins involved in core nuclear gene expression and genome stability.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0000447","count":4},{"id":"GO:0031497","count":4},{"id":"GO:0000724","count":4},{"id":"GO:0060416","count":4}]},{"hash":"1545925885580603861","title":"Cofactor and tRNA Modification Biosynthesis","description":"This cluster centers on biosynthetic processes for cofactors (menaquinone, molybdopterin, protoporphyrinogen/heme) and multiple tRNA modification pathways (methylation, queuosine biosynthesis) alongside lipoylation, suggesting a cohesive theme of cofactor assembly and RNA modification rather than a single enzyme family. Antibiotic response appears peripheral but does not define the core function.","confidence":"Medium","size":9,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0070475","count":1},{"id":"GO:0009234","count":1},{"id":"GO:0018339","count":1},{"id":"GO:0006782","count":1}]},{"hash":"1705379973826548528","title":"Developmental morphogenesis and signaling regulators","description":"The cluster is enriched for embryonic morphogenesis and development-related terms, including cranial skeleton morphogenesis, neural tube closure, and keratinocyte differentiation, along with signaling pathway components (Wnt, Hippo, MAPK) and transcriptional regulation, suggesting these proteins coordinate developmental signaling and tissue morphogenesis.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048701","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0000187","count":3},{"id":"GO:0035329","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1621846534013404299","title":"Diverse protein acetylation","description":"The top GO terms are centered on acetylation of different substrates (peptidyl-lysine N6-acetylation, N-terminal peptidyl-glutamic acid acetylation, and spermine acetylation), suggesting a core theme of diverse protein acetylation. Other terms appear more peripheral (angiogenesis, amino acid biosynthesis, glucosamine metabolism, subtelomeric heterochromatin formation, sporulation), indicating additional but less coherent associations. Overall, the cluster is best described as enriched for acetylation-related modifications with auxiliary metabolic/developmental links.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0017198","count":2},{"id":"GO:0060358","count":2},{"id":"GO:0018002","count":2}]},{"hash":"159314152911419020","title":"Unknown","description":"The top terms span immune system processes (immune response, IL-12 production, immunological synapse formation) and unrelated areas (circadian rhythm, grooming behavior, thymocyte differentiation), with no evident single function linking all proteins or any edges connecting them. This lack of a cohesive theme suggests no clear cluster function can be inferred.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":9},{"id":"GO:1902239","count":9},{"id":"GO:0006955","count":9},{"id":"GO:1904155","count":9},{"id":"GO:0007625","count":9}]},{"hash":"560063161568010247","title":"Organ and tissue development","description":"This label captures the prominent GO terms related to development of various organs and tissues (lung, nephron, ectoderm, uterine epithelium, hindbrain migration, etc.), with additional signaling and adhesion processes that support morphogenesis. The terms point to a broad developmental program rather than a single pathway, so the name is representative but not overly specific.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030324","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0010735","count":2},{"id":"GO:2000768","count":2},{"id":"GO:0001705","count":2}]},{"hash":"1360474899125640768","title":"Complement Activation and Developmental Signaling","description":"The cluster is driven by immune-related terms (complement activation and MAC regulation) but also features developmental and signaling processes (Wnt signaling, angiogenesis, embryonic development, cell-matrix adhesion, and junction assembly). This suggests proteins involved in tissue remodeling and developmental signaling with a component of innate immunity, rather than a single narrowly defined function.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006957","count":2},{"id":"GO:0007160","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0001970","count":2}]},{"hash":"254010609729630384","title":"Mitochondrial transport and energy metabolism","description":"The top terms cluster around mitochondrial functions: membrane fission and permeability regulation, various ion and substrate transports (manganese, phosphate, thiosulfate, heme, ATP), the malate-aspartate shuttle, and cellular responses linked to energy and starvation. These features point to a cohesive role in mitochondrial membrane transport and energy metabolism rather than unrelated processes. The inclusion of negative regulation of necroptotic processes also aligns with mitochondrial quality control and signaling. ","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090149","count":9},{"id":"GO:0046902","count":9},{"id":"GO:0006828","count":9},{"id":"GO:0035435","count":9},{"id":"GO:0043490","count":9}]},{"hash":"1876607980766422367","title":"Developmental signaling and morphogenesis","description":"This cluster is dominated by terms related to development and tissue morphogenesis, including mesodermal differentiation, metanephros development, and sprouting angiogenesis, along with signaling regulators like TGF-beta production and EGFR pathway modulation, plus cell-substrate junctions. The presence of an extrinsic apoptotic signaling term can fit into developmental remodeling. Overall, the common theme appears to be developmental signaling guiding differentiation and tissue organization.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051044","count":2},{"id":"GO:0097192","count":2},{"id":"GO:0048333","count":1},{"id":"GO:0071401","count":1},{"id":"GO:0001656","count":1}]},{"hash":"1865836543144849062","title":"Neuronal development and ion transport","description":"This cluster is enriched in neural-related terms: dendrite morphogenesis, sensory perception of pain, and potassium ion transport/ transmembrane transport, indicating roles in neuronal development and excitability. Additional terms like DNA-templated transcription and multicellular organism development suggest broader developmental programs that often accompany neural differentiation. While some terms are more general, the combination centers on neuronal structure and function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0006813","count":8},{"id":"GO:0043552","count":8},{"id":"GO:0006351","count":8},{"id":"GO:0007275","count":8}]},{"hash":"795728521825195954","title":"STAT-driven cytokine signaling","description":"This cluster is dominated by terms tied to cytokine signaling and activation of the STAT pathway, especially positive regulation of tyrosine phosphorylation of STAT proteins and IL-27\u2013mediated signaling with Th2 cytokine production. While there are a few terms related to development and cell interaction (kidney development, cell\u2013cell adhesion, neurite guidance), the strongest, recurring signal is STAT-activation downstream of cytokine signaling, justifying a label focused on STAT-driven signaling. ","confidence":"Medium","size":8,"edges":12,"triangles":5,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":5},{"id":"GO:0001822","count":4},{"id":"GO:0007156","count":4},{"id":"GO:0035745","count":4},{"id":"GO:0070106","count":4}]},{"hash":"918939330715543657","title":"Calcium-Dependent Cardiac and Smooth Muscle Contraction","description":"The cluster centers on calcium signaling related to muscle function: release of calcium from the sarcoplasmic reticulum, calcium ion responses, regulation of ventricular cardiomyocyte action potential and membrane repolarization, and smooth muscle contraction. Stress fiber assembly hints at cytoskeletal remodeling linked to contraction, while a few terms like responses to cold/hypoxia suggest environmental modulation of calcium signaling. Together, these terms point to a cohesive theme of calcium-dependent excitation-contraction coupling in cardiac and smooth muscle.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014808","count":4},{"id":"GO:0009409","count":4},{"id":"GO:0001666","count":4},{"id":"GO:0098911","count":3},{"id":"GO:0009454","count":3}]},{"hash":"1513144579068661996","title":"T cell development and cytokine signaling","description":"The cluster's top GO terms center on immune system processes\u2014immune response, DN2 thymocyte differentiation, IL-12 production, and immunological synapse formation\u2014pointing to T cell development and cytokine-mediated signaling. A few GPCR-related signals and neural/behavioral terms appear, but the predominant theme is adaptive immune signaling and thymocyte maturation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":6},{"id":"GO:1902239","count":6},{"id":"GO:0006955","count":6},{"id":"GO:1904155","count":6},{"id":"GO:0007625","count":6}]},{"hash":"270980830515513430","title":"Hair follicle morphogenesis and keratinocyte development","description":"The top GO terms are dominated by skin-related processes: hair follicle morphogenesis and keratinocyte development, with supporting signals for mechanical response in skin, tissue homeostasis, and epidermal protein trafficking. Together these indicate a cluster centered on epidermal differentiation and skin morphogenesis, with accompanying cell trafficking processes.","confidence":"High","size":8,"edges":10,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048873","count":4},{"id":"GO:0031069","count":4},{"id":"GO:0006897","count":4},{"id":"GO:0043497","count":4},{"id":"GO:0097284","count":4}]},{"hash":"1897419363550817748","title":"Neurovascular and ocular development","description":"This cluster centers on developmental processes spanning neural (axonogenesis, visual perception), vascular (angiogenesis, heart development) and skeletal/eye-related growth, with a note of signaling modulation via negative regulation of protein kinase activity, pointing to broad developmental regulation across tissues.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007409","count":5},{"id":"GO:0006469","count":5},{"id":"GO:0019800","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0007601","count":4}]},{"hash":"779304072470619168","title":"Calcium-Driven Innate Immune Signaling","description":"The terms cluster around calcium-mediated signaling, receptor internalization, and inflammatory responses such as TNF production and neutrophil chemotaxis, suggesting a group of proteins coordinating calcium-dependent signaling in innate immunity and recruitment of neutrophils.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0050850","count":2},{"id":"GO:0031623","count":2},{"id":"GO:0032760","count":2}]},{"hash":"1692542818825708269","title":"Cdc42-driven cytoskeletal signaling and trafficking","description":"Top GO terms indicate a theme of cytoskeletal dynamics and signaling (Cdc42), cell morphology and migration (keratinocyte development, dendritic spine morphogenesis, skeletal muscle satellite cell migration), and membrane trafficking/remodeling (COPII-coated vesicle budding, reticulophagy, protein complex localization). The convergence of these processes suggests a cluster focused on how actin/Cdc42 signaling interfaces with vesicle transport and membrane remodeling to drive cellular morphogenesis and movement.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0003334","count":8},{"id":"GO:0034629","count":8},{"id":"GO:0032488","count":8},{"id":"GO:0060753","count":8},{"id":"GO:0061001","count":8}]},{"hash":"1436182394002113911","title":"Mitotic Cell Cycle","description":"The cluster is dominated by cell division and mitotic cell cycle terms (GO:0051301, GO:0007049, GO:0000278), indicating a core focus on cell cycle progression and mitosis. While there are also terms related to vesicle trafficking and mitochondrial dynamics, these appear secondary to the primary mitotic theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0007049","count":4},{"id":"GO:1903833","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0035494","count":3}]},{"hash":"2073434021939081766","title":"Golgi Trafficking and Localization","description":"The top terms center on Golgi apparatus processes, including Golgi reassembly and establishment of Golgi localization, plus protein targeting. These strongly point to functions governing Golgi organization and cargo delivery. Other terms (proton transport, glucocorticoid signaling, keratinocyte development, cytochrome c release) suggest broader cellular context but do not override the Golgi-centric theme. Thus this cluster most likely represents Golgi trafficking and localization activities.","confidence":"Medium","size":8,"edges":21,"triangles":25,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0015991","count":3},{"id":"GO:0003334","count":3},{"id":"GO:0043154","count":3},{"id":"GO:0006605","count":3},{"id":"GO:0000079","count":3}]},{"hash":"939208345774325358","title":"ER Stress and Protein Folding","description":"This cluster is dominated by GO terms related to endoplasmic reticulum (ER) functions, including response to ER stress, ER protein folding, and protein repair, as well as oxidative stress detoxification. While there is a mention of NK cell mediated cytotoxicity, the strongest signals point to ER quality control and protein homeostasis under stress. Hence the name reflects the core theme of ER-associated folding/repair and stress response.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0030091","count":3},{"id":"GO:0033158","count":3},{"id":"GO:0034976","count":3},{"id":"GO:0034599","count":3}]},{"hash":"527952606735707751","title":"Actin cytoskeleton remodeling and cell morphogenesis","description":"The top GO terms cluster around actin dynamics\u2014actin nucleation, filament bundle assembly, and mitotic contractile ring contraction\u2014along with processes of cell shape change and tissue/muscle development (skeletal muscle fiber development, formation of a compartment boundary, membrane tubulation). Immune signaling and DNA damage response terms appear ancillary, but the dominant theme is actin-driven cytoskeleton remodeling underlying cell morphology and motility.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000402","count":2},{"id":"GO:0043517","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0002625","count":2},{"id":"GO:0048148","count":2}]},{"hash":"628584249864169252","title":"Angiogenesis and Endothelial Proliferation Signaling","description":"The cluster is dominated by GO terms for sprouting angiogenesis, endothelial cell proliferation and migration, and PI3K/AKT pathway regulation, with calcium signaling as a key regulator. Negative regulation of NO signaling and cell-matrix adhesion suggests control of vascular remodeling, while neutrophil chemotaxis and pain-related terms may reflect inflammatory contexts accompanying angiogenesis. Overall, the core theme is vascular development and endothelial growth signaling.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0002040","count":6},{"id":"GO:0051897","count":6},{"id":"GO:0048661","count":6},{"id":"GO:0001938","count":6},{"id":"GO:0051592","count":6}]},{"hash":"1423685883199801231","title":"Ribosome Biogenesis and RNA Processing","description":"Top terms center on ribosome biogenesis, rRNA maturation, and mRNA export, plus regulation of translation initiation. This defines a core function in ribosome assembly and RNA metabolism. A few terms like brain development or gene silencing are less connected and likely secondary. Thus the cluster can be labeled Ribosome Biogenesis and RNA Processing.","confidence":"Medium","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0006446","count":2},{"id":"GO:0042273","count":2}]},{"hash":"188684081201308830","title":"Synaptic signaling and neurotransmitter release","description":"Top GO terms emphasize synaptic function, including protein localization to the synapse, neurotransmitter secretion, and excitatory postsynaptic potential, with calcium import regulation supporting neurotransmission. Although some terms relate to chromatin regulation and peroxisomal import that are less directly tied to synaptic activity, the dominant theme across the cluster is neuronal synaptic signaling and transmitter release.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0030466","count":2},{"id":"GO:0033128","count":2},{"id":"GO:0016558","count":2},{"id":"GO:0035418","count":1}]},{"hash":"2133381572729707343","title":"Chloroplast sugar metabolism and photosynthesis","description":"This cluster\u2019s top GO terms cluster around photosynthesis (light reactions) and carbohydrate metabolism (sucrose and starch biosynthesis), plus transport and sugar-response processes, suggesting proteins linked to chloroplast carbohydrate production and signaling. A couple of terms involve RNA/protein methylation that may reflect general cellular maintenance, but the dominant theme is the link between photosynthetic activity and sugar metabolism.","confidence":"Medium","size":8,"edges":11,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0031167","count":2},{"id":"GO:0018027","count":2},{"id":"GO:0019684","count":2},{"id":"GO:0006810","count":2}]},{"hash":"1691933781112904415","title":"Neural and Visual System Development","description":"The top GO terms cluster around visual perception, retina development, forebrain/midbrain boundary formation, telencephalon regionalization, neural crest migration, and glial differentiation, indicating coordinated development of brain and eye structures. A few transcription regulation terms appear but align with developmental gene control. Therefore the cluster reflects neural and visual system development.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0060041","count":6},{"id":"GO:0021905","count":5}]},{"hash":"975434115780111323","title":"Immune cell migration and signaling","description":"Dominant themes are immune cell migration and immune signaling, including thymocyte migration, extravasation, immune response, cytolysis regulation, and PI3K/AKT pathway regulation. Some terms also point to hormonal and developmental tissue remodeling (progesterone response, myoblast fusion, mammary duct growth), but the central cluster centers on immune cell trafficking and associated signaling.","confidence":"Medium","size":8,"edges":20,"triangles":26,"max_degree":6,"top_function":"wound healing","top_go_terms":[{"id":"GO:1901740","count":6},{"id":"GO:0072679","count":6},{"id":"GO:0002693","count":6},{"id":"GO:0022029","count":6},{"id":"GO:0032570","count":6}]},{"hash":"543053212676032653","title":"Immune-Vascular Signaling and Adhesion","description":"The top GO terms converge on signal transduction and adhesion-related processes common to immune and vascular cells: integrin activation, platelet activation, GTPase signaling, and PI3K/ERK pathways (including macrophage-related differentiation). This suggests a cluster of proteins involved in broader cell signaling and adhesion in immune/vascular contexts rather than a single precise function. ","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010744","count":2},{"id":"GO:0033622","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0030168","count":2},{"id":"GO:0008344","count":2}]},{"hash":"2159119940161327825","title":"Leukocyte adhesion and complement activation","description":"The top GO terms cluster around leukocyte tethering/rolling, basophil activation, and complement activation via the lectin pathway, plus regulation of adhesion molecule production, all pointing to leukocyte\u2013endothelial interactions and innate immune activation. Some developmental terms (kidney and cartilage development) appear as well, but the immune-related signals are the strongest, supporting a theme of immune adhesion and activation with possible ancillary developmental roles.","confidence":"Medium","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":8},{"id":"GO:0072287","count":8},{"id":"GO:0045575","count":8},{"id":"GO:0001502","count":8},{"id":"GO:0090238","count":8}]},{"hash":"966494843916711783","title":"Chromatin Structure and Nucleosome Assembly","description":"The top terms cluster around chromatin organization, nucleosome assembly, and histone modification (including H3K27 and H3K4 methylation) with references to chromatin localization and nucleosome positioning, indicating a chromatin-packaging and nuclear-architecture module.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0098532","count":8},{"id":"GO:0070828","count":8},{"id":"GO:0006334","count":8},{"id":"GO:0097298","count":8},{"id":"GO:0071169","count":8}]},{"hash":"568645485790273690","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:0006398","count":4},{"id":"GO:0098789","count":4},{"id":"GO:0000398","count":3},{"id":"GO:0000447","count":1}]},{"hash":"566062552766347721","title":"Cytoskeletal Regulation of Cell Migration","description":"These proteins appear to share roles in cytoskeletal dynamics and cell movement. Key GO terms point to regulation of Rac and Rho GTPases, lamellipodium assembly, substrate adhesion-dependent spreading, and the extension of migratory processes in neural cells, all hallmarks of actin remodeling driving migration. Additional terms like apoptotic process, heart development, and NK T cell differentiation may reflect broader roles of the included proteins or incidental associations, but the core signal is cohesive around cytoskeleton-driven migration.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":6},{"id":"GO:0035020","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0021816","count":6},{"id":"GO:0006915","count":6}]},{"hash":"1987451383759488375","title":"RNA processing and translation initiation","description":"This cluster centers on RNA metabolism and translation readiness: multiple terms point to mRNA processing (processome assembly, splicing regulation), mRNA export and stability, and the assembly of translation initiation complexes, suggesting a cohesive role in preparing and handling RNA for translation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034462","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0010610","count":2}]},{"hash":"787061394685834669","title":"Synaptic plasticity and actin remodeling","description":"Top terms cluster around neuronal synapse organization and cytoskeletal dynamics (AMPA receptor clustering, long-term synaptic plasticity, cerebellum morphogenesis, ruffle assembly, and actin filament capping). This suggests the proteins function together in shaping synaptic connectivity and actin-driven membrane remodeling during signaling, with some peripheral terms reflecting broader signaling contexts. Confidence in this interpretation is High.","confidence":"","size":8,"edges":9,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0097113","count":6},{"id":"GO:1900042","count":5},{"id":"GO:1904694","count":5},{"id":"GO:0021587","count":5},{"id":"GO:0051016","count":5}]},{"hash":"1753497256428612335","title":"Steroid and retinoid metabolism","description":"These proteins show a clear enrichment for pathways involving metabolism and biosynthesis of steroid hormones and retinoids, including steroid catabolic processes and glucocorticoid biosynthesis, as well as retinol, retinal, and retinoic acid metabolism. While other terms (melanin, mycolic acid, tropane alkaloid biosynthesis, sporulation, and lung development) appear, the strongest and most coherent theme across the top terms is the processing and production of lipophilic signaling metabolites such as steroids and retinoids.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006706","count":6},{"id":"GO:0042438","count":6},{"id":"GO:0042572","count":6},{"id":"GO:0002138","count":6},{"id":"GO:0071768","count":6}]},{"hash":"1882699073339695055","title":"Xenobiotic Detox & Oxidative Metabolism","description":"Most terms point to detoxification and oxidative metabolism (vitamin D catabolic process, fatty acid omega-oxidation, dioxin catabolic process, ozone response), with hepatocyte differentiation and inflammatory responses suggesting ancillary liver-like or immune roles.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042369","count":7},{"id":"GO:0010430","count":7},{"id":"GO:0070365","count":7},{"id":"GO:0071615","count":7},{"id":"GO:0035902","count":7}]},{"hash":"1686664043369032261","title":"GPCR acetylcholine signaling and cardiovascular regulation","description":"This cluster\u2019s top GO terms are heavily centered on G protein-coupled acetylcholine receptor signaling and cardiovascular-related processes, including blood coagulation, platelet regulation, and cardiac septum morphogenesis, with additional notes on receptor clustering. While there are outliers related to neural (dopaminergic) signaling and embryo implantation, the core theme appears to be GPCR-mediated signaling linked to cardiovascular function and hemostasis, making this a concise, representative label. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007213","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0019800","count":3},{"id":"GO:0007566","count":3},{"id":"GO:0043113","count":3}]},{"hash":"2287637071128347623","title":"TLR4-driven innate immune signaling","description":"The Top Terms point to innate immune activation and antibacterial defense, including positive regulation of TLR4 signaling, defense against Gram-negative bacteria, opsonization, chemokine production, and cytolysis, suggesting a cohesive theme of innate immune response. While some lipid metabolism terms appear, they are likely secondary to the immune signals, so the label reflects the dominant function of the cluster.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034145","count":2},{"id":"GO:0030317","count":2},{"id":"GO:0042632","count":2},{"id":"GO:0010189","count":2},{"id":"GO:0032722","count":2}]},{"hash":"1262268950400114915","title":"Unknown","description":"The terms span rRNA processing, chromatin organization, DNA repair, translation initiation, and microtubule-based movement, plus responses to growth hormone and cadmium, with some aging-related terms. This mix does not reveal a single cohesive biological function or pathway tying all proteins together, suggesting a heterogeneous set rather than a unified cluster function.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000447","count":3},{"id":"GO:0031497","count":3},{"id":"GO:0000724","count":3},{"id":"GO:0060416","count":3},{"id":"GO:0071276","count":3}]},{"hash":"1974626750318102018","title":"Unknown","description":"The terms cover coagulation regulation, heart/adrenal signaling, flagellated sperm motility, sarcomere organization, synapse protein localization, and mitochondrial regulation. With no edges and no single dominant function linking the proteins, there is no cohesive theme to assign a specific label confidently.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030193","count":1},{"id":"GO:0030819","count":1},{"id":"GO:0030317","count":1},{"id":"GO:0060297","count":1},{"id":"GO:1902474","count":1}]},{"hash":"135714074525085258","title":"Immune signaling and T cell development","description":"Based on the most represented GO terms, the proteins cluster around immune system functions, including immune response, interleukin-12 production, and immunological synapse formation, plus thymocyte differentiation (DN2). These point to roles in immune signaling and T cell development, with some ancillary terms related to circadian and behavioral processes likely representing broader signaling contexts. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":6},{"id":"GO:1902239","count":6},{"id":"GO:0006955","count":6},{"id":"GO:1904155","count":6},{"id":"GO:0007625","count":6}]},{"hash":"1903612762591511143","title":"Mitochondrial Respiratory Chain Assembly","description":"Top terms strongly point to assembly of mitochondrial respiratory chain components, including complexes I and IV and respirasomes, indicating a role in ETC assembly and organization. The negative regulation of cytochrome c release aligns with a mitochondrial context, while other metabolic terms are present but less central, reinforcing the central theme of mitochondrial respiration assembly.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090201","count":2},{"id":"GO:0033617","count":2},{"id":"GO:0097250","count":2},{"id":"GO:0032981","count":1},{"id":"GO:0019918","count":1}]},{"hash":"1133409190483101837","title":"TLR-driven innate immune signaling","description":"The top GO terms are dominated by innate immunity\u2014defense response to Gram-positive bacteria, cytokine-mediated signaling, and MyD88-independent Toll-like receptor signaling\u2014pointing to a module related to pathogen recognition and cytokine responses. The other terms (splicing, transcription, morphogenesis) appear less connected to the main signal and may reflect background features of the protein set.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0019221","count":3},{"id":"GO:0000398","count":2},{"id":"GO:0051567","count":2}]},{"hash":"1337491845605115785","title":"Embryogenesis and organogenesis","description":"The GO terms cluster around developmental processes across tissues\u2014placental/trophoblast differentiation, cartilage morphogenesis, endocrine system development, and left-right patterning\u2014plus EMT in heart development. This suggests a shared theme of embryonic development and organ formation, with a few outliers.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0060536","count":2}]},{"hash":"99190446572195830","title":"Neural localization and development","description":"The cluster\u2019s top GO terms cluster around neural-specific localization and development processes, including protein localization to synapse, Purkinje cell layer formation, and myelin-associated localization, plus microvillus assembly. Although several terms are obsolete, the dominant pattern points to neuronal architecture and synaptic organization, with some signaling regulation (Rho, NOD2) providing contextual modulation. Overall, the proteins appear linked to neural structure and connectivity rather than non-neural functions.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035418","count":4},{"id":"GO:0006470","count":4},{"id":"GO:0090179","count":4},{"id":"GO:1903760","count":4},{"id":"GO:0030033","count":4}]},{"hash":"387384791654625333","title":"Unknown","description":"The GO terms are very diverse: metabolism (glucose response), innate sensing (dsRNA response), genome regulation (telomere maintenance, CpG methylation, chromatid cohesion), signaling (peptidyl-tyrosine autophosphorylation), and various developmental processes (bud growth, melanocyte adhesion, trachea formation). There isn\u2019t a single cohesive function linking these terms, so Unknown is the most appropriate label. If forced to name a theme, it would hint at broad signaling and genome regulation, but that\u2019s not strongly supported by the data.","confidence":"","size":7,"edges":18,"triangles":23,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071333","count":7},{"id":"GO:0043330","count":7},{"id":"GO:0032212","count":5},{"id":"GO:0010568","count":5},{"id":"GO:0097326","count":5}]},{"hash":"2249077415675780418","title":"Embryonic development and morphogenesis","description":"Top GO terms indicate a cohesive theme of developmental processes across multiple tissues (placental/trophoblast differentiation, cartilage morphogenesis, endocrine system development, EMT in heart development, left-right patterning), with actin cytoskeleton organization supporting morphogenesis, suggesting these proteins collectively drive embryonic development and tissue formation.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030866","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0060536","count":3}]},{"hash":"2277519836414456466","title":"Iron homeostasis and mitochondrial TCA regulation","description":"This cluster pools iron-related processes (iron ion transport, siderophore-iron import, iron detoxification) with mitochondrial TCA cycle enzymes (succinate dehydrogenase and aconitase) and redox activity, pointing to a cohesive theme of iron metabolism interfacing with mitochondrial energy metabolism and stress responses.","confidence":"High","size":7,"edges":12,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1904231","count":4},{"id":"GO:0048147","count":4},{"id":"GO:0006950","count":4},{"id":"GO:0097286","count":4},{"id":"GO:0006880","count":4}]},{"hash":"1348483974752531523","title":"Cell Cycle Regulation and Proteostasis","description":"The GO terms cluster around mitotic cell cycle, DNA-templated transcription, and mRNA transport, with TORC1 signaling indicating nutrient-growth coordination. Additional terms for GTPase regulation, serine dephosphorylation, SCF-ubiquitin\u2013proteasome degradation, and retrograde Golgi-ER transport point to tight control of protein turnover and signaling during cell division. A single immune-defense term appears incidental; overall the proteins seem to coordinate growth/division with proteostasis, so this label captures the core theme.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0043547","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0038202","count":2}]},{"hash":"457094948850686096","title":"Mammary gland development and epithelial cell proliferation","description":"The cluster centers on mammary gland processes, with terms like mammary gland alveolus development and positive regulation of mammary gland epithelial cell proliferation. It also includes epithelial differentiation and transcription/mitosis regulation (DNA-templated transcription; G1/S and G2/M transitions; CDK activity), suggesting a group of proteins coordinating development and proliferation through transcriptional control and cell cycle regulation. The presence of Leydig cell differentiation is less aligned with the mammary theme, so the label focuses on the strongest shared signal.","confidence":"Medium","size":7,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060749","count":4},{"id":"GO:0033327","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0030857","count":3}]},{"hash":"2198977729419675404","title":"Hematopoiesis and Myeloid Differentiation","description":"The cluster includes GO terms centered on blood cell development, such as definitive hematopoiesis, regulation of hemocyte proliferation, and myeloid cell differentiation, suggesting a shared role in hematopoietic lineage development. Other terms like ossification, heart contraction, and sarcomerogenesis may reflect broader developmental programs or pleiotropic roles, but the hematopoietic terms provide the clearest unifying theme for this cluster.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007059","count":1},{"id":"GO:0048469","count":1},{"id":"GO:0001503","count":1},{"id":"GO:0060047","count":1},{"id":"GO:0045944","count":1}]},{"hash":"223751930090560435","title":"Neuronal ion transport and signaling","description":"The proteins cluster around ion transport (K+, Na+, Ca2+, Cl\u2212) and GABA signaling, with associated neural behaviors (locomotion, startle response, conditioned taste aversion) and circadian sleep regulation, indicating a group focused on neuronal excitability and synaptic signaling via ion channels.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":7},{"id":"GO:0098703","count":6},{"id":"GO:0001964","count":6},{"id":"GO:0045188","count":6},{"id":"GO:0060079","count":6}]},{"hash":"405284347250154224","title":"Clathrin-mediated endocytosis and Ras/MAPK signaling regulation","description":"The cluster centers on clathrin-dependent endocytosis and GPCR internalization, and also includes regulators of small GTPases (Rho, Ras) and the ERK/MAPK cascade, plus related phosphorylation and apoptotic/immune regulation. This combination suggests a coherent theme of endocytosis-linked signaling control and downstream cell fate decisions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072583","count":4},{"id":"GO:0035025","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0002031","count":4},{"id":"GO:0045953","count":3}]},{"hash":"957701566393971554","title":"Immune signaling and T cell development","description":"The cluster is dominated by immune-related GO terms: immune response, interleukin-12 production, and thymocyte differentiation, plus immunological synapse formation and GPCR signaling modulation, all pointing to immune system activation and T cell development. A few terms touch circadian rhythm and grooming behavior, which may reflect broader roles or annotation overlap, but the strongest and most consistent signal is immune signaling and T cell\u2013related processes. Confidence: High","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":7},{"id":"GO:1902239","count":7},{"id":"GO:0006955","count":7},{"id":"GO:1904155","count":7},{"id":"GO:0007625","count":7}]},{"hash":"2000320383931141101","title":"Septin-Mediated Cytokinesis and Bud Neck Localization","description":"This cluster is dominated by cell cycle and division terms, especially septin ring assembly and localization to the bud neck, pointing to septin-mediated cytokinesis in budding organisms. Proteasome-dependent protein turnover and regulation of endopeptidase activity suggest tight proteolysis control during division, while ribosome biogenesis aligns with growth preceding mitosis. A few terms like neuron projection development may be incidental cross-species annotations, but the core signal centers on cytokinesis and bud neck organization.","confidence":"High","size":7,"edges":13,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0043161","count":3},{"id":"GO:0010950","count":3},{"id":"GO:0097271","count":2},{"id":"GO:0051301","count":2}]},{"hash":"2180173054812024292","title":"Neuronal development and synaptic plasticity","description":"Terms cluster around neuronal development and synaptic function: cerebellum morphogenesis, AMPA receptor clustering, long-term synaptic plasticity, and responses to neuropeptides (CCK), together with cytoskeletal remodeling (barbed-end actin capping, ruffle assembly) and adhesion-dependent spreading, suggesting a theme of neuronal maturation and synaptic remodeling.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1900042","count":2},{"id":"GO:1904694","count":2},{"id":"GO:0021587","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0097178","count":2}]},{"hash":"1352684911374851173","title":"Cellular Translation and Transcription Machinery","description":"This cluster is dominated by translation-related GO terms: cytoplasmic and mitochondrial translation, plus mitochondrial translational termination, and a broader DNA-templated transcription term, all pointing to components of the protein synthesis and gene-expression machinery. The presence of protein homotetramerization supports formation of multimeric ribosomal or transcriptional complexes. A few outliers (nerve growth factor response, tetrahydrobiopterin biosynthesis) are less central, but do not outweigh the core translation/transcription signal. Overall, the label reflects the clustered function well.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0002181","count":2},{"id":"GO:0032543","count":2},{"id":"GO:1990090","count":2},{"id":"GO:0055114","count":2}]},{"hash":"2082147353417736319","title":"Membrane protein transport and localization","description":"The top GO terms are dominated by protein transport and membrane targeting (SRP-dependent cotranslational targeting to membrane, Golgi to plasma membrane transport, protein transport, transmembrane transport), indicating a cluster of proteins involved in trafficking to and within membranes and in localization of protein complexes. Some terms such as keratinocyte development and regulation of dendritic spine morphogenesis are broader regulatory processes but do not override the membrane trafficking signal. Overall, the functions point to membrane-associated protein transport and localization.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071806","count":6},{"id":"GO:0000060","count":6},{"id":"GO:0003334","count":5},{"id":"GO:0015031","count":5},{"id":"GO:0006614","count":5}]},{"hash":"1839198447893556748","title":"Developmental Signaling Pathway Regulation","description":"This cluster\u2019s GO terms cluster around regulation and modulation of major signaling pathways tied to development and growth, including TGF-beta/BMP signaling and related pathway control (e.g., cellular response to TGF-beta, BMP signaling regulation, NF-kappaB modulation). The presence of terms like maintenance of meristem identity also hints at developmental signaling in organisms, despite some obsolete terms. Overall, the common theme is regulation of signaling cascades involved in development.","confidence":"Medium","size":7,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000173","count":4},{"id":"GO:0035970","count":4},{"id":"GO:0010991","count":4},{"id":"GO:0010074","count":4},{"id":"GO:0061191","count":4}]},{"hash":"335985847003048474","title":"Adhesion- and RTK-signaling in development","description":"Top GO terms indicate adhesion-related processes (melanocyte adhesion, focal adhesion assembly) and collagen-activated tyrosine kinase receptor signaling, tied to peptidyl-tyrosine autophosphorylation. Developmental themes are strong, including axial mesoderm formation, retinal ganglion cell axon guidance, and tricuspid valve morphogenesis, suggesting a module where cell adhesion and receptor tyrosine kinase signaling drive morphogenesis and neural/valvular development. The leukocyte chemotaxis term adds an immune/migratory dimension, while the symbiont-host interaction term hints at broader host\u2013pathway engagement. Overall, the cluster centers on adhesion-mediated signaling guiding development and tissue organization.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097326","count":7},{"id":"GO:0038083","count":7},{"id":"GO:0038063","count":7},{"id":"GO:0048638","count":7},{"id":"GO:0002688","count":7}]},{"hash":"2257813792329182888","title":"mRNA processing and translation initiation","description":"This cluster centers on nuclear mRNA maturation steps (splicing via the spliceosome, processome assembly, mRNA export, and regulation of mRNA stability) and on assembling the translation initiation machinery (preinitiation complex and eIF4F). The co-occurrence of splicing, export, stability, and initiation terms suggests a functional bridge from RNA processing to the onset of translation, with some involvement in regulatory ncRNA\u2013mediated silencing as a secondary layer. Hence a label emphasizing both processing and initiation is most representative.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":7},{"id":"GO:0034462","count":6},{"id":"GO:0048255","count":6},{"id":"GO:0097010","count":6},{"id":"GO:0031047","count":6}]},{"hash":"1749519880550228955","title":"Chemokine production regulation and immune signaling","description":"The top GO terms are dominated by positive regulation of chemokine production (CXCL1 and CCL5), pointing to a chemokine-immune signaling theme. Additional terms touch on inflammatory signaling (JNK cascade) and broader regulatory processes, which together suggest a cluster centered on chemokine regulation and immune signaling, despite no observed edges among proteins.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000340","count":4},{"id":"GO:0071651","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0046330","count":3},{"id":"GO:0032212","count":3}]},{"hash":"364002877385466950","title":"Dendritic spine and PSD-95 regulation","description":"The cluster centers on regulation of postsynaptic density clustering and dendritic spine maintenance, indicating a shared role in synaptic architecture; a few chromatin-related terms suggest broader gene-expression regulation, but the synaptic organization theme is strongest.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1900051","count":2},{"id":"GO:0034720","count":2},{"id":"GO:0043970","count":2},{"id":"GO:1902897","count":2},{"id":"GO:1902952","count":2}]},{"hash":"366645697747163159","title":"Detoxification and oxidative stress response","description":"The terms cluster around detoxification of xenobiotics and responses to oxidative stress, including mercury detoxification, response to menadione, and removal of superoxide radicals, with supporting signals from selenium-related responses; a few older or unrelated terms (development, aging, tRNA methylation, histone demethylation) likely reflect annotation noise rather than a shared function.","confidence":"Medium","size":7,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030488","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0009635","count":2},{"id":"GO:0034720","count":2},{"id":"GO:0019430","count":2}]},{"hash":"434400496030332407","title":"RNA processing and ribonucleoprotein assembly","description":"GO terms cluster around RNA maturation and RNP machinery, including spliceosome-mediated alternative splicing, snoRNPs and snoRNA-guided rRNA pseudouridylation, small-subunit processome assembly, and ribosome biogenesis, along with telomerase RNA handling and holoenzyme assembly. This suggests the proteins participate broadly in RNA processing and the assembly of RNA-protein complexes rather than a single, tightly defined pathway. Hence the label reflects the common theme of RNA processing and RNP assembly.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000380","count":2},{"id":"GO:0042254","count":1},{"id":"GO:0000493","count":1},{"id":"GO:0031120","count":1},{"id":"GO:1904874","count":1}]},{"hash":"1673042350636345475","title":"Diverse membrane transport of nutrients and ions","description":"The top GO terms are dominated by various transmembrane transport processes (nitrite, nitrate, vitamin, galactose, arabinose, potassium), with an additional note on neurotransmitter loading into synaptic vesicles, pointing to a shared theme of membrane transport and vesicle-related cargo handling. Some terms like ribosome biogenesis and protein kinase activation appear as outliers, but the prevailing signal is transport across membranes for diverse substrates.","confidence":"Medium","size":7,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0015706","count":2}]},{"hash":"1288140172981288809","title":"Multisystem Developmental Signaling","description":"The cluster includes GO terms across brain development, kidney glomerulus development, and multiple signaling pathways (acetylcholine GPCR, IL-1/IL-15, IGF) plus B cell signaling, suggesting a shared theme of developmental signaling across multiple tissues rather than a single organ-specific function.","confidence":"Medium","size":7,"edges":5,"triangles":1,"max_degree":4,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:0007213","count":6},{"id":"GO:2000560","count":6},{"id":"GO:0035723","count":6},{"id":"GO:0070498","count":6}]},{"hash":"670169773223184138","title":"Synaptic signaling and social behavior","description":"The top GO terms cluster around chemical synaptic transmission and regulation of postsynaptic potentials, indicating neuronal communication. Receptor clustering and adhesion-related terms align with synapse organization, while behavioral terms such as vocalization, social behavior, and grooming regulation point to behavioral outputs. Some polarity/adhesion terms may reflect synaptic adhesion molecules. Overall, the cluster appears to represent neuronal signaling linked to social/behavioral functions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090179","count":2},{"id":"GO:0071625","count":2},{"id":"GO:0045186","count":2},{"id":"GO:0043113","count":2},{"id":"GO:0045199","count":2}]},{"hash":"1443525352708089162","title":"Ubiquitin-Mediated Turnover and Autophagy","description":"The cluster is characterized by ubiquitin-related processes\u2014ubiquitin-dependent protein catabolic process and K63-linked ubiquitination\u2014along with autophagy (engulfment by autophagosome). These point to a core theme of protein homeostasis and turnover, with additional signals of growth control (hippo signaling, contact inhibition) and RNA processing regulation that may reflect broader regulatory roles. Overall, evidence concentrates on ubiquitin signaling and autophagy as the central unifying function.","confidence":"Medium","size":7,"edges":10,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2000146","count":3},{"id":"GO:0060242","count":3},{"id":"GO:1901016","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0032443","count":3}]},{"hash":"2106519079266230341","title":"Angiogenesis and vascular development signaling","description":"Based on the strongest GO signals, including positive regulation of angiogenesis, VEGF receptor signaling, PDGF stimulus response, and PI3K/AKT signaling, the cluster appears to collectively engage pro-angiogenic and vascular development pathways, with supporting signals in cell-matrix adhesion and calcium signaling. A few terms also point to broader developmental contexts (retinoic acid response, branching morphogenesis), but the dominant theme centers on vascular signaling and angiogenesis.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":2},{"id":"GO:0071300","count":2},{"id":"GO:0001954","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0060444","count":2}]},{"hash":"908651684888961409","title":"Collagen Biosynthesis and ECM Organization","description":"Based on the top GO terms, the cluster is dominated by collagen fibril organization and collagen biosynthetic process, pointing to extracellular matrix (ECM) assembly. Although several immune/inflammatory terms (complement activation, IL-1 response) appear among the annotations, the strongest single theme is collagen biosynthesis and ECM organization.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0032964","count":4},{"id":"GO:0007338","count":4},{"id":"GO:2000055","count":3},{"id":"GO:0006958","count":3}]},{"hash":"916733357406791827","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:0042403","count":3},{"id":"GO:0006711","count":2},{"id":"GO:0006805","count":2},{"id":"GO:0018146","count":2}]},{"hash":"1184840102670953703","title":"Translation and ribosome biogenesis","description":"The dominant GO terms describe the protein synthesis machinery\u2014general translation, cytoplasmic/mitochondrial translation, translation initiation, ribosome assembly, and rRNA maturation\u2014pointing to a cluster centered on ribosome function and biogenesis. A couple of outliers (nerve growth factor stimulus, osteoblast differentiation) appear incidental rather than defining the cluster.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0002181","count":1},{"id":"GO:0032543","count":1},{"id":"GO:1990090","count":1},{"id":"GO:0000462","count":1}]},{"hash":"487522071502079520","title":"DNA Repair and Mitosis Regulation","description":"This cluster shows strong enrichment for DNA repair pathways (nucleotide-excision repair, homologous recombination, double-strand break repair) and chromatin organization, coupled with cell cycle control around mitosis (G2/M transition, exit from mitosis, chromosome segregation). The presence of ubiquitin-related processes (SCF-dependent proteolysis and K63-linked ubiquitination) suggests coordinated protein turnover during division, forming a cohesive module for maintaining genome integrity during cell cycle progression, with some links to chromatin dynamics and meiotic-related processes.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070911","count":7},{"id":"GO:0007059","count":7},{"id":"GO:0016032","count":7},{"id":"GO:0031146","count":7},{"id":"GO:0010458","count":7}]},{"hash":"215659460734985187","title":"Drosophila oogenesis and meiosis","description":"The top GO terms point to egg chamber development (follicle cell stalk formation) and meiotic cell cycle, indicating a focus on Drosophila ovarian development and meiosis. Additional terms related to ubiquitin-mediated protein turnover support a theme of regulated cellular remodeling during development, though several annotations are from unrelated domains or cross-species. Overall, the cluster seems most representative of reproductive development and meiotic control in Drosophila.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043029","count":2},{"id":"GO:0043162","count":2},{"id":"GO:0030713","count":2},{"id":"GO:0035562","count":1},{"id":"GO:2001241","count":1}]},{"hash":"140235768507799900","title":"Developmental signaling and tissue differentiation","description":"The cluster\u2019s top GO terms point to broad developmental processes across multiple tissues\u2014Notch signaling, BMP response, epithelial integrity, angiogenesis, and differentiations of hepatocytes, mesoderm, T cells in the thymus, and myelination. This suggests a theme of developmental signaling guiding diverse tissue differentiation rather than a single, specific pathway, justifying a label around developmental signaling and tissue differentiation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035160","count":3},{"id":"GO:0007219","count":3},{"id":"GO:0070365","count":2},{"id":"GO:0002040","count":2},{"id":"GO:0035625","count":2}]},{"hash":"1983804189152668301","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051123","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0032361","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0046196","count":2}]},{"hash":"1509764130967839029","title":"Lipid metabolism and membrane processes","description":"The top GO terms are dominated by lipid-related biosynthetic pathways (unsaturated fatty acids, monounsaturated fatty acids, ergosterol/sphingolipid metabolism) and membrane-associated processes (myelin maintenance, sebaceous gland differentiation), which together point to lipid synthesis and membrane maintenance as the core theme. Some terms (nitric oxide biosynthesis, nitrate assimilation, mitochondrial inheritance) are more peripheral but do not override the dominant lipid/membrane signal, justifying a focused label around lipid metabolism and membrane biology.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006809","count":7},{"id":"GO:0001949","count":7},{"id":"GO:0032286","count":7},{"id":"GO:0000001","count":7},{"id":"GO:0032443","count":7}]},{"hash":"2296750249669800243","title":"Actin Dynamics and Developmental Signaling","description":"The cluster\u2019s terms coalesce around actin cytoskeleton remodeling (barbed-end actin filament capping, ruffle assembly, cell spreading) and developmental/neural processes (somitogenesis, cerebellum morphogenesis, long-term neuronal synaptic plasticity). This points to proteins involved in actin-driven remodeling that supports development and neural signaling, with some peripheral signaling terms. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:1900042","count":1},{"id":"GO:1904694","count":1},{"id":"GO:0021587","count":1},{"id":"GO:0051016","count":1}]},{"hash":"577340213376176099","title":"Platelet formation and megakaryocyte development","description":"The cluster\u2019s top GO terms are dominated by platelet biology and megakaryocyte development (blood coagulation, megakaryocyte development, platelet formation, integrin signaling), indicating a shared role in platelet formation and related adhesion/signaling. Peripheral terms like keratinocyte development or phagosome-lysosome fusion do not contradict this core theme.","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0035855","count":2},{"id":"GO:0030220","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0003334","count":1}]},{"hash":"1347569551246122526","title":"Unknown","description":"The terms cover nuclear import (NLS-bearing and ribosomal protein import), GTPase regulation, diverse developmental processes, lipid biosynthesis, autophagy-related vesicle assembly, and cell division, with no single functional theme linking all proteins. Hence no cohesive label can be assigned.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0006607","count":6},{"id":"GO:0003340","count":5},{"id":"GO:0006656","count":5},{"id":"GO:0048364","count":5}]},{"hash":"229118991130392146","title":"Ribosome biogenesis and translation regulation","description":"The top terms show clear enrichment for cytosolic ribosome assembly and regulation of translation, pointing to a core theme of ribosome production and control of protein synthesis. The other terms (DNA integration, proviral latency, splicing, apoptosis) are sparse and likely reflect multifunctional annotations or noise, not a cohesive alternative function. Therefore, the dominant signal is ribosome-related processes.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006417","count":2},{"id":"GO:0042256","count":2},{"id":"GO:0015074","count":1},{"id":"GO:0075713","count":1}]},{"hash":"820073357321822983","title":"miRNA and siRNA Processing","description":"The cluster is driven by RNA processing activities, including primary miRNA processing, pre-miRNA processing, miRNA regulation, and siRNA processing, plus rRNA processing, indicating involvement in RNA maturation and RNA interference pathways. Some terms such as interferon response and virus-related regulation may reflect peripheral annotations or broader stress-related roles, but the core signal points to miRNA/siRNA biogenesis.","confidence":"Medium","size":7,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045433","count":3},{"id":"GO:0090502","count":3},{"id":"GO:2000628","count":3},{"id":"GO:0009047","count":3},{"id":"GO:0031053","count":3}]},{"hash":"450541761361661858","title":"Bone Formation and Collagen Organization","description":"These proteins appear to cluster around bone development and extracellular matrix (ECM) organization: collagen fibril organization, bone trabecula formation, and osteoblast differentiation point to skeletal tissue formation and ECM assembly. Additional signals such as Hedgehog/SMO pathway regulation and morphogenesis-related terms (lung branching, axon guidance) suggest broader developmental coordination, while cell adhesion, receptor clustering, and apoptotic cell engulfment imply dynamic cell interactions during tissue remodeling. Overall, the dominant theme is skeletal development and ECM remodeling.","confidence":"High","size":7,"edges":12,"triangles":8,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0045880","count":5},{"id":"GO:0060346","count":5},{"id":"GO:0036514","count":4}]},{"hash":"1103589405808428232","title":"Glycosylation and glycosphingolipid biosynthesis","description":"The top terms are dominated by glycosylation and carbohydrate metabolism, including glycosphingolipid biosynthetic process and carbohydrate metabolic process (both with 2 hits) and cell-surface galactosylation references. This points to a common function in glycan modification and lipid glycosylation at the cell surface, with a few regulatory processes appearing at lower frequency. Obsolete terms reflect the same glycosylation theme in older annotations, reinforcing the connection.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033580","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0030259","count":2},{"id":"GO:0006688","count":2},{"id":"GO:1900121","count":1}]},{"hash":"472166547687671586","title":"Cell Cycle and Organelle Remodeling","description":"The GO terms suggest a core around cell cycle and division (cell division, cell cycle) with additional emphasis on intracellular remodeling processes such as autophagy, mitochondrial fission, and Golgi retention, plus endocytic activity (pinocytosis). This points to a coordinated set of proteins involved in proliferation-linked cellular restructuring rather than a single, narrow pathway. ","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0045053","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0016236","count":3}]},{"hash":"1491264999053983565","title":"Metal ion transport and homeostasis (Zn, Cd, Co, Fe)","description":"This cluster centers on the regulation of intracellular metal ions, with recurring GO terms for zinc ion homeostasis and zinc transport, plus related terms for cadmium, cobalt, and iron ions. The combination of zinc response, zinc detoxification, and transmembrane transport terms suggests proteins involved in maintaining metal balance and moving or sequestering excess ions across membranes. Overall, the terms point to metal ion transport and homeostasis as the core function of this cluster.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006877","count":3},{"id":"GO:0006876","count":3},{"id":"GO:0070574","count":3},{"id":"GO:0006882","count":2},{"id":"GO:0061090","count":2}]},{"hash":"1621317160617448470","title":"Dopaminergic neuron development and homeostasis","description":"The terms cluster around neuron development and dopaminergic signaling (neuron projection development, dopaminergic neuron differentiation, synaptic transmission), with a theme of neuronal homeostasis (neuron cellular homeostasis). Additional hints of cellular stress responses (unfolded protein response) and survival pathways (negative regulation of apoptosis, ubiquitination) suggest a cohesive dopaminergic neuron\u2013centric development and maintenance program.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":2},{"id":"GO:0060544","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0001963","count":2}]},{"hash":"1284348642723210856","title":"Neural crest and neural development via Rho signaling","description":"These proteins cluster around neural development (forebrain, neural tube closure, neural crest migration) and muscle differentiation (cardiac and smooth muscle), with Rho GTPase\u2013mediated signaling and cytoskeletal remodeling (actin reorganization) as a common mechanism. The combination suggests a cohesive program coordinating neural crest\u2013derived lineages with cardiovascular and vascular smooth muscle differentiation through Rho signaling.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":5},{"id":"GO:0001843","count":4},{"id":"GO:0007266","count":4},{"id":"GO:0045736","count":4},{"id":"GO:0031532","count":4}]},{"hash":"691641462053627196","title":"Immune signaling and muscle development","description":"The top GO terms show a clear emphasis on adaptive immune signaling (B cell receptor signaling, IgE isotype switching, type 2 immune response) alongside muscle development (skeletal muscle tissue and fiber development). Additional terms point to transcriptional control and protein turnover, with a peripheral hint of circadian regulation. Overall, the cluster seems to reflect a coordinated set of genes involved in immune signaling and muscle differentiation, with regulatory processes bridging them.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0071375","count":2},{"id":"GO:0006915","count":2}]},{"hash":"1858685099223023682","title":"Nuclear RNA processing and genome maintenance","description":"This cluster centers on nuclear body activity, especially Cajal body\u2013associated RNA processing (scaRNA localization to Cajal body; positive regulation of protein localization to Cajal body) and genome maintenance (telomere maintenance via telomerase; pore complex assembly; cell division). Some stress-related protein folding terms appear, reflecting general proteostasis, while a couple immune-related terms seem peripheral to the core nuclear theme. Overall, the dominant signal points to nuclear RNA processing and genome stability functions.","confidence":"Medium","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1904871","count":5},{"id":"GO:0032212","count":5},{"id":"GO:0046931","count":5},{"id":"GO:0009408","count":5},{"id":"GO:0048291","count":5}]},{"hash":"1200082201193101650","title":"Inflammation and Angiogenesis Regulation","description":"The cluster shows strong enrichment for inflammatory and innate immune responses (inflammatory response, response to LPS, fever-related prostaglandin signaling) with concomitant hints of vascular remodeling (endothelial cell proliferation in sprouting angiogenesis, hyaluronan biosynthesis) and macrophage modulation, suggesting coordinated immune-vascular signaling during inflammation. Some neural/cardiac terms appear but are less central to the main theme.","confidence":"High","size":6,"edges":7,"triangles":2,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":5},{"id":"GO:0032496","count":5},{"id":"GO:0007275","count":5},{"id":"GO:1903588","count":5},{"id":"GO:0071260","count":5}]},{"hash":"1187926396308598041","title":"Calcium-regulated cardiac and smooth muscle contraction","description":"The GO terms cluster around calcium signaling and muscle function, including SR calcium release, responses to calcium, and regulation of ventricular cardiac muscle action potentials and repolarization, plus smooth muscle contraction. This points to calcium-dependent excitation-contraction coupling in heart and smooth muscle, with supporting cytoskeletal and adhesion roles (stress fibers, cell-matrix adhesion). Although a couple of terms (sensory perception, development) are broad, the dominant theme is calcium-controlled muscle contraction.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0098911","count":4},{"id":"GO:0014808","count":4},{"id":"GO:0009454","count":4}]},{"hash":"1041273890832849322","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":4},{"id":"GO:0061668","count":4},{"id":"GO:0032543","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0022417","count":1}]},{"hash":"514058265773719809","title":"GPCR-cAMP signaling and immune functions","description":"The top GO terms cluster around G protein-coupled receptor signaling that activates adenylate cyclase and downstream cAMP pathways (GO:0010579, GO:0007190), with related physiological roles such as blood pressure regulation (GO:0045777). Immune-related terms appear (GO:0006955, GO:0072610, GO:1904155, GO:1902239), suggesting involvement in immune signaling and thymocyte development. Although there\u2019s a broad metabolic term (electron transport chain) present, the dominant theme appears to be GPCR-cAMP signaling with concurrent immune-related functions.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":6},{"id":"GO:0010579","count":6},{"id":"GO:0022900","count":6},{"id":"GO:0007190","count":6},{"id":"GO:0035625","count":5}]},{"hash":"421467974218518884","title":"TGF-beta/SMAD signaling and development","description":"The cluster\u2019s top GO terms center on TGF-beta receptor signaling and SMAD complex assembly, with supportive development-related terms such as neuron development and skeletal muscle growth, suggesting a shared role in TGF-beta\u2013mediated developmental signaling. Other terms relate to signaling regulation and protein interactions (e.g., proteasomal regulation, dephosphorylation), which can modulate these pathways. Overall, the strongest cohesive theme is TGF-beta/SMAD\u2013driven development signaling.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051262","count":4},{"id":"GO:0048666","count":4},{"id":"GO:0032435","count":4},{"id":"GO:0034141","count":4},{"id":"GO:0034145","count":3}]},{"hash":"1832587533884896230","title":"Neural development and signaling","description":"The cluster centers on neural development and axon guidance (dopaminergic neuron axon guidance; axonal fasciculation) along with GPCR-driven signaling and Rho pathway regulation, suggesting a cohesive theme of neuronal development and communication; peripheral terms related to vascular or metabolic processes may reflect broader annotation but do not dominate the signal.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045777","count":3},{"id":"GO:0010579","count":3},{"id":"GO:0035025","count":3},{"id":"GO:0022900","count":3},{"id":"GO:0001525","count":3}]},{"hash":"1866010046536006974","title":"Dopaminergic Signaling and Sensory Processing","description":"The GO terms cluster around neural signaling and sensory processes, notably visual perception/learning, dopaminergic synaptic transmission, and behavioral responses to cocaine, along with ERK signaling. This pattern points to neuronal information processing and reward pathways, with some terms (heart development, macrophage chemotaxis) appearing less directly connected.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0071380","count":5},{"id":"GO:0048148","count":5},{"id":"GO:0019233","count":5}]},{"hash":"1291903104144161534","title":"Epigenetic regulation: deacetylation and chromatin silencing","description":"The GO terms cluster around deacetylation events (Hsp90 deacetylation; peptidyl-lysine deacetylation) and chromatin-level control (chromatin silencing, regulation of telomere maintenance, aging-related silencing). This points to an epigenetic regulation theme governing protein activity, genome stability, and gene expression, with a few terms touching broader developmental or defense contexts. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070846","count":6},{"id":"GO:0048742","count":6},{"id":"GO:0034503","count":6},{"id":"GO:0010978","count":6},{"id":"GO:0009861","count":6}]},{"hash":"922238504663780458","title":"Xenobiotic Detoxification and Oxidative Metabolism","description":"This cluster centers on oxidation and xenobiotic metabolism terms (vitamin D catabolic process, fatty acid omega-oxidation, dibenzo-p-dioxin catabolic process, oxidative deethylation) and liver-related differentiation (hepatocyte differentiation), with accompanying environmental and inflammatory response terms (response to ozone, immobilization stress, cesium ion, negative regulation of chronic inflammatory response). The dominant pattern suggests detoxification and oxidative metabolism as the core function, with some contextual terms that may reflect tissue-specific expression. Therefore, a Xenobiotic Detoxification and Oxidative Metabolism label is most representative, though not perfectly cohesive.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042369","count":2},{"id":"GO:0010430","count":2},{"id":"GO:0070365","count":2},{"id":"GO:0071615","count":2},{"id":"GO:0035902","count":2}]},{"hash":"2285356899571986295","title":"Vacuolar acidification and ion transport","description":"The GO terms co-occuring here center on vacuole-related processes (protein targeting to vacuole, vacuolar acidification, vacuole organization) along with ion transport and proton transmembrane movement, including proton motive force-driven ATP synthesis. This points to a coherent theme of vacuolar pH regulation and ionic homeostasis across membranes.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":2},{"id":"GO:0006878","count":2},{"id":"GO:0015991","count":2},{"id":"GO:0042777","count":2},{"id":"GO:0006623","count":2}]},{"hash":"1254426294813923385","title":"Oxidative Stress Response and Redox Homeostasis","description":"The dominant GO terms are cellular oxidant detoxification and cellular redox homeostasis, indicating a cluster focused on managing oxidative stress; additional terms reflect related metabolism (ascorbic acid and homogentisate pathways), calcium signaling, and vascular development, suggesting broader homeostasis and signaling roles while keeping redox regulation as the core theme.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":4},{"id":"GO:0045454","count":4},{"id":"GO:0070527","count":4},{"id":"GO:0034765","count":3},{"id":"GO:0035264","count":3}]},{"hash":"1854299389417368551","title":"Immune signaling and thymocyte development","description":"The top GO terms cluster around immune-related processes: general immune response, interleukin-12 production, immunological synapse formation, and DN2 thymocyte differentiation. Together they point to immune signaling and lymphocyte development as the core theme, with other terms like GPCR signaling or grooming/circadian processes likely less central noise. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":6},{"id":"GO:1902239","count":6},{"id":"GO:0006955","count":6},{"id":"GO:1904155","count":6},{"id":"GO:0007625","count":6}]},{"hash":"1294246067913648023","title":"Ribosome biogenesis and mitochondrial assembly","description":"This cluster is anchored by translation and ribosome biogenesis terms, with supporting signals for assembly of preribosome subunits and mitochondrial respiratory chain components, implying a link between protein synthesis and mitochondrial energy production. Some development and signaling terms appear less central and may reflect broader roles or annotation noise.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0090070","count":1},{"id":"GO:1902626","count":1},{"id":"GO:0032981","count":1},{"id":"GO:0048146","count":1}]},{"hash":"1957432191776981368","title":"Developmental morphogenesis and tyrosine kinase signaling","description":"The GO terms point to tissue development and signaling\u2014lung and trachea morphogenesis, melanocyte adhesion, and collagen-activated tyrosine kinase signaling with peptidyl-tyrosine autophosphorylation\u2014suggesting proteins involved in developmental signaling and cell adhesion. Epigenetic regulation and telomere maintenance terms may reflect broader regulatory layers during development, but the core theme centers on morphogenesis and tyrosine kinase\u2013mediated signaling.","confidence":"Medium","size":6,"edges":12,"triangles":9,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032212","count":6},{"id":"GO:0010568","count":6},{"id":"GO:0097326","count":6},{"id":"GO:0060440","count":6},{"id":"GO:0071276","count":6}]},{"hash":"2257463670987457453","title":"Cell cycle and protein trafficking","description":"The top GO terms are dominated by cell cycle and cell division, with additional emphasis on protein localization and transport (ribosomal subunit export, Golgi to plasma membrane transport) and related signaling (Cdc42). This suggests a cluster centered on proliferative processes tied to protein trafficking and localization, rather than a single pathway. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007049","count":6},{"id":"GO:0000055","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0003334","count":5},{"id":"GO:0034629","count":5}]},{"hash":"1254190718738385384","title":"Mitotic spindle and microtubule dynamics in development","description":"This cluster is dominated by microtubule- and mitosis-related GO terms: lateral attachment of microtubules to kinetochores, regulation of microtubule-based processes, mitotic metaphase chromosome alignment, and maintenance of microtubule cytoskeleton polarity, plus end-directed transport along microtubules. These indicate a core theme of spindle mechanics and microtubule dynamics during cell division. The inclusion of development-related terms like root development and epidermal stem cell homeostasis suggests this microtubule machinery also functions in developmental contexts and tissue maintenance. Overall, the set points to coordinated microtubule dynamics governing mitosis with a developmental backdrop.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0099607","count":4},{"id":"GO:0032886","count":4},{"id":"GO:0007080","count":4},{"id":"GO:0048364","count":4},{"id":"GO:0036334","count":4}]},{"hash":"1179030309574202692","title":"Nuclear RNA splicing machinery","description":"The top GO terms are dominated by spliceosome- and splicing-related processes (cis splicing via spliceosome, snRNP and spliceosomal complex assembly, transcription termination) and adjacent RNA processing steps (nuclear import, P-body association, decapping/deadenylation). Together they point to a cluster of proteins that function in nuclear mRNA processing and splicing, with minor incidental terms. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":4},{"id":"GO:0042633","count":3},{"id":"GO:0000387","count":3},{"id":"GO:0006369","count":3},{"id":"GO:0033962","count":3}]},{"hash":"2191566376473539758","title":"Cardiac Development and Apoptotic Signaling","description":"The cluster shows a strong representation of apoptosis-related GO terms (execution phase of apoptosis, intrinsic apoptotic signaling in response to osmotic stress, apoptotic DNA fragmentation) along with heart development, suggesting proteins involved in programmed cell death within cardiovascular development contexts. Other terms (autophagy regulation, responses to estradiol and nicotine, platelet formation) support a broader stress and developmental signaling milieu, but apoptosis linked to heart biology is the dominant theme.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":"wound healing","top_go_terms":[{"id":"GO:0032355","count":5},{"id":"GO:0097194","count":5},{"id":"GO:0008627","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0051092","count":5}]},{"hash":"1830462572193247319","title":"Ubiquitin-Dependent Immune Signaling Regulation","description":"The top GO terms emphasize ubiquitin-dependent proteolysis and K63-linked ubiquitination, pointing to ubiquitin-mediated control of signaling. Concurrent terms involve TNF- and IL-1\u2013related pathways and V(D)J recombination, indicating immune system relevance. Some terms appear peripheral (plant brassinosteroid signaling, histone acetylation), but the core theme centers on ubiquitin-driven regulation of immune signaling.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0033151","count":3},{"id":"GO:1900458","count":3},{"id":"GO:0070534","count":3},{"id":"GO:1903265","count":3}]},{"hash":"388309953476177689","title":"Ubiquitin-driven immune signaling and T cell development","description":"The top GO terms cluster around ubiquitin-dependent protein turnover and modification (ubiquitin-dependent proteolysis, ERAD, SUMOylation, K63-linked ubiquitination) combined with immune functions (V(D)J recombination, spleen development, T cell proliferation, non-canonical NF-kappaB and TNF signaling). This suggests the proteins act in ubiquitin-mediated regulation of adaptive immunity, particularly T cell development and signaling pathways, rather than a general housekeeping process.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0016925","count":4},{"id":"GO:0033151","count":3},{"id":"GO:0070534","count":3}]},{"hash":"544874351657347059","title":"Cholesterol Biosynthesis and Synaptic Vesicle Trafficking","description":"These proteins show a combination of lipid metabolism terms (cholesterol and isoprenoid biosynthesis; mevalonate pathway) and vesicle trafficking/Golgi-related terms (synaptic vesicle priming and fusion, Golgi ribbon formation, ER-Golgi organization, exocytic receptor insertion). The shared theme appears to be a link between membrane lipid biosynthesis and the secretory/vesicular pathway in neurons, suggesting roles in membrane composition and vesicle exocytosis. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006695","count":1},{"id":"GO:0008299","count":1},{"id":"GO:0019287","count":1},{"id":"GO:0070723","count":1},{"id":"GO:0010807","count":1}]},{"hash":"1306924963478863574","title":"Unknown","description":"The top GO terms cover a highly diverse set of processes (telomere maintenance, growth regulation, dendrite self-avoidance, melanocyte adhesion, osteoclast differentiation, trachea formation, cadmium response, CpG methylation\u2013mediated gene regulation, receptor tyrosine kinase signaling, and sister chromatid cohesion) with no clear shared function. There are no apparent interactions among the proteins (Edges: 0), so there isn\u2019t a cohesive theme to bind them into a single, interpretable cluster. Therefore, Unknown with None confidence. ","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032212","count":6},{"id":"GO:0010568","count":6},{"id":"GO:0070593","count":6},{"id":"GO:0097326","count":6},{"id":"GO:0030316","count":6}]},{"hash":"442808320235975696","title":"Cytoskeletal Remodeling and Cell Division","description":"The cluster is dominated by GO terms tied to actin dynamics and mitosis (Arp2/3-mediated actin nucleation, mitotic contractile ring assembly) plus related processes like endocytosis regulation and skeletal muscle fiber remodeling, all pointing to cytoskeletal remodeling during cell division and differentiation. Some historical/obsolete terms are present, but the core theme centers on cytoskeleton-driven processes.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043486","count":4},{"id":"GO:0001300","count":4},{"id":"GO:0016344","count":4},{"id":"GO:0034314","count":4},{"id":"GO:0048741","count":4}]},{"hash":"2075102053052128723","title":"Interferon-driven antiviral immune response","description":"This cluster centers on antiviral defense mechanisms: cellular response to dsRNA, interferon-beta signaling, and regulation of type I interferon pathways, along with downstream adaptive immunity such as B and T cell activation and humoral responses. The combination suggests a coherent theme where dsRNA sensing triggers interferon responses that drive adaptive immune activation. The pregnancy term seems incidental. ","confidence":"High","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0002312","count":2},{"id":"GO:0071359","count":2},{"id":"GO:0002286","count":2},{"id":"GO:0035458","count":2},{"id":"GO:0060338","count":2}]},{"hash":"1028077075580527044","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0070534","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0051607","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0042787","count":4}]},{"hash":"545926130233779969","title":"Innate immune recognition and leukocyte activation","description":"The most frequent GO terms are immune-related\u2014phagocytosis recognition, leukocyte tethering/rolling, complement activation via the lectin pathway, basophil activation, and regulation of adhesion molecule production\u2014indicating a cluster centered on innate immune recognition and leukocyte activation. Some kidney development terms appear (metanephric morphogenesis, proximal/distal tubule development) and cartilage condensation, which may reflect annotation noise or pleiotropy, but the dominant signal is immune-related.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":4},{"id":"GO:0050901","count":3},{"id":"GO:0072287","count":3},{"id":"GO:0045575","count":3},{"id":"GO:0001502","count":3}]},{"hash":"343531235936789488","title":"Neural synaptic plasticity and social behavior","description":"This cluster is driven by GO terms related to synaptic structure and function (dendritic spine morphogenesis, regulation of excitatory postsynaptic potential, long-term synaptic depression, and positive regulation of synapse structural plasticity) and behaviors such as vocalization and social behavior, suggesting proteins involved in activity-dependent synaptic remodeling tied to social/communication functions. A couple of outliers (B cell affinity maturation and an obsolete voltage-gated potassium channel regulation term) likely reflect annotation noise rather than core biology of the cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071625","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0060292","count":3},{"id":"GO:1903760","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1341732446009594571","title":"Mitochondrial protein import and folding","description":"The GO terms center on translation, chaperone-mediated assembly and refolding, and import of proteins into the mitochondrial intermembrane space, which together suggest a theme of protein quality control and targeting to mitochondria. While there are also signals for cell division and viral assembly, these appear less central to the cluster, making the core functionality best described as mitochondrial protein processing and import. ","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0051131","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0045041","count":2},{"id":"GO:0006986","count":1}]},{"hash":"115780906404845346","title":"DNA replication and protein quality control","description":"The prominent DNA replication term dominates the annotations, with additional signals pointing to protein folding/refolding, cotranslational targeting to membranes, and stress/apoptosis regulation. Together these suggest a cluster centered on core cellular maintenance: DNA replication and general protein homeostasis. Some terms appear obsolete or noisy, but the main theme remains fundamental cellular processes rather than a single, specific pathway.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0000742","count":2},{"id":"GO:0090084","count":2},{"id":"GO:0006616","count":2}]},{"hash":"158341816383738441","title":"Protein folding and intracellular trafficking","description":"This cluster shows enrichment for protein folding, chaperone-mediated assembly, and ubiquitin-proteasome quality control, along with microtubule organization and vesicle trafficking between endosomes, ERGIC, and Golgi. The combined signals point to proteostasis coupled with intracellular transport as the core theme.","confidence":"Medium","size":6,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0044655","count":2},{"id":"GO:0006457","count":1},{"id":"GO:0051131","count":1},{"id":"GO:0007021","count":1},{"id":"GO:0071629","count":1}]},{"hash":"999917612038456362","title":"Ribosome Biogenesis and Translation","description":"Most GO terms point to the protein synthesis machinery (cytoplasmic translation, ribosome biogenesis, tRNA modification) and its coordination with cell growth/division (cell cycle, cell division, cell septum assembly). While a few terms touch on stress responses or viral latency, the dominant theme is ribosome assembly and translation, thus the label.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002181","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0042254","count":2},{"id":"GO:1901001","count":2},{"id":"GO:0090529","count":2}]},{"hash":"1225462437883354341","title":"Growth and Stress Response Regulation","description":"This cluster\u2019s terms collectively point to modulation of cellular state across growth, metabolism, and stress/immune responses (vascular growth, fibroblast and smooth muscle differentiation, glucose regulation, ER stress\u2013induced apoptosis, ethanol response, MHC II biosynthesis, and even DNA repair). The shared theme is broad regulatory control of cellular behavior under diverse cues rather than a single pathway.","confidence":"Medium","size":6,"edges":13,"triangles":12,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1905555","count":4},{"id":"GO:0048146","count":4},{"id":"GO:0000720","count":4},{"id":"GO:0042593","count":4},{"id":"GO:0007072","count":4}]},{"hash":"1990629688791138529","title":"Unknown","description":"The GO terms are highly diverse and span development (ureter development, maintenance of organ identity, non-motile cilium assembly), stress responses (cadmium, UV-A), signaling (cytokinin pathway), cell cycle (cell division), and general protein handling, with some terms labeled obsolete. There isn\u2019t a single coherent biological function that ties these proteins together, suggesting the cluster captures mixed or noisy annotations rather than a specific shared role.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051291","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0048496","count":4},{"id":"GO:0071492","count":4}]},{"hash":"1894336035127841749","title":"Energy Metabolism and Redox Balance","description":"Based on the predominance of glycolytic and TCA cycle terms, along with NADPH regeneration, this cluster appears to center on central carbon metabolism and redox generation. A couple of terms hint at oxidative stress response and glial cell regulation, but the core signal is metabolism and NADPH-related energy/redox balance.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":4},{"id":"GO:0006103","count":3},{"id":"GO:0006096","count":3},{"id":"GO:1903976","count":1},{"id":"GO:0006102","count":1}]},{"hash":"200600918479957489","title":"Unknown","description":"The GO terms span insect development (cuticle pigmentation, segmentation, vitellogenesis) and immune-related processes (cytokine production, dendritic cell differentiation, MHC II biosynthesis), plus some stress-response terms, with no clear, shared molecular function or pathway tying them together. Several terms are diverse or obsolete, suggesting the proteins do not form a cohesive functional cluster.","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0048085","count":1},{"id":"GO:0036091","count":1},{"id":"GO:0007381","count":1},{"id":"GO:1990440","count":1},{"id":"GO:0007296","count":1}]},{"hash":"199677065398030090","title":"GTPase-Regulated Cytoskeletal Remodeling and Migration","description":"These proteins cluster around small GTPase signaling (positive regulation and GTPase-mediated pathways) and cytoskeletal remodeling (podosome and actin patch assembly), together with processes like cell migration and epithelial polarity. Endocytosis and related actin dynamics support a broader cytoskeletal remodeling theme. Overall, the dominant motif is GTPase-driven cytoskeletal changes enabling cell movement and polarized behavior.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0071803","count":5},{"id":"GO:0007264","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0090162","count":5}]},{"hash":"447292585939054472","title":"Meiosis-associated DNA repair and chromatin organization","description":"The cluster is dominated by GO terms related to meiotic chromosome dynamics (chiasma assembly, meiotic telomere clustering, silent mating-type cassette heterochromatin formation) and various DNA repair pathways (homologous recombination repair, global genome NER, positive regulation of DNA repair). In addition, chromatin organization and post-translational modification processes (protein ubiquitination, neddylation) point to coordinated chromatin remodeling during meiosis and DNA repair. This cohesive set suggests a functional unit centered on meiosis, chromosome maintenance, and DNA repair via chromatin-regulating mechanisms.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0031497","count":6},{"id":"GO:0000724","count":6},{"id":"GO:0051026","count":6},{"id":"GO:0070534","count":6},{"id":"GO:0045141","count":6}]},{"hash":"325808583675787760","title":"Nuclear Transport and Mitotic Chromosome Dynamics","description":"The cluster features numerous GO terms tied to nuclear transport processes (nuclear pore complex assembly, mRNA export, ribosomal protein import, transcription factor import) and to mitotic chromosome dynamics (kinetochore localization, metaphase chromosome alignment, chromosome movement toward spindle pole, astral microtubule organization). This suggests proteins involved in coordinating nuclear transport with chromosome segregation during cell division, with phosphatidylcholine biosynthesis perhaps reflecting membrane-related aspects of nuclear envelope remodeling.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051292","count":3},{"id":"GO:0006656","count":3},{"id":"GO:0034501","count":3},{"id":"GO:0007080","count":3},{"id":"GO:0030953","count":3}]},{"hash":"571374322342582962","title":"ECM and cell adhesion in developmental guidance","description":"GO terms center on extracellular matrix organization (collagen fibril organization, tendon development, integrin biosynthetic process) and cell adhesion, with neural guidance elements (axon guidance, defasciculation) reflecting ECM-mediated developmental cues. The mix still points to a cohesive theme of ECM\u2013cell adhesion driving tissue and neural development.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":5},{"id":"GO:0045112","count":5},{"id":"GO:0035989","count":5},{"id":"GO:0035987","count":5},{"id":"GO:0007155","count":5}]},{"hash":"1719831265072086102","title":"Unknown","description":"The terms point to scattered regulatory processes across different contexts (nuclear export regulation, developmental meristem maintenance, BMP/TGF-beta and NF-kappaB signaling regulation) and even a photosystem-related term, with no single cohesive function tying the proteins together. Therefore a cohesive, specific label cannot be assigned.","confidence":"","size":6,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":2},{"id":"GO:0010991","count":2},{"id":"GO:0000173","count":2},{"id":"GO:0042006","count":2},{"id":"GO:0042347","count":2}]},{"hash":"826590917042368318","title":"Leukocyte adhesion and inflammatory signaling","description":"The top GO terms cluster around leukocyte tethering or rolling, basophil activation, complement activation (lectin pathway), and regulation of arachidonate secretion, indicating immune activation and inflammatory signaling as the core theme. Developmental terms (metanephric tubule and cartilage condensation) are present but appear auxiliary to the immune-related functions.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":6},{"id":"GO:0072287","count":6},{"id":"GO:0045575","count":6},{"id":"GO:0001502","count":6},{"id":"GO:0090238","count":6}]},{"hash":"1637842382887533123","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":7,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009408","count":3},{"id":"GO:0032781","count":3},{"id":"GO:0097428","count":3},{"id":"GO:1900035","count":3},{"id":"GO:0006458","count":3}]},{"hash":"1417069229540696260","title":"Embryonic Development and Organogenesis","description":"The top terms cluster around developmental processes\u2014palate (roof of the mouth) development, mesoderm formation, endocardial cushion EMT, placenta-related differentiation, and endocrine system development\u2014suggesting a program of tissue and organ formation. Supporting terms on transcription regulation, splicing, and DNA replication initiation may reflect general gene-expression control during development but do not alter the central developmental theme.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0046513","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0032298","count":2},{"id":"GO:0003323","count":2}]},{"hash":"2159016965611589226","title":"Unknown","description":"The GO terms span plant secondary metabolite biosynthesis (anthocyanin, quercetin glucoside, lignin), general metabolism (carbohydrate, antibiotic, biphenyl, peptidoglycan), cell division, and neuron-specific protein localization, which do not converge on a single function. This lack of a common theme leads to an unknown label.","confidence":"","size":6,"edges":7,"triangles":0,"max_degree":4,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0009718","count":5},{"id":"GO:0033303","count":4},{"id":"GO:0006711","count":4},{"id":"GO:0005975","count":4},{"id":"GO:0016999","count":4}]},{"hash":"1292615311668638775","title":"Embryonic organogenesis and neural development","description":"The terms point to broad embryonic development and organogenesis, spanning heart and craniofacial formation, thyroid development, and neural patterning (axon growth and neuron migration). This suggests the proteins contribute to coordinated developmental processes across multiple organs and neural tissues, rather than a single pathway.","confidence":"High","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048675","count":4},{"id":"GO:0048701","count":4},{"id":"GO:0003350","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0001764","count":4}]},{"hash":"937043199398366448","title":"Membrane Transport of Ions and Metabolites","description":"The cluster centers on diverse transmembrane transport terms (nitrite, nitrate, potassium, vitamins, galactose/arabinose, organic anions) and vesicle-related transport (neurotransmitter loading), with bone mineralization as a potential related process. The unifying theme is membrane transport of a variety of solutes, suggesting these proteins function as transporters or vesicle-associated components.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030282","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0035461","count":2}]},{"hash":"1150962955188458775","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0014047","count":2}]},{"hash":"1247512567124608946","title":"Mitochondrial transport and energy metabolism","description":"Top GO terms cluster around mitochondrial membrane dynamics and transport of ions/metabolites (fission, permeability), plus various mitochondrial transport (manganese, phosphate, thiosulfate, heme) and ATP translocation, with energy-related shuttles and mitochondria-associated stress/death regulation. This cohesive pattern supports a role in mitochondrial transport and energy metabolism.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090149","count":3},{"id":"GO:0046902","count":3},{"id":"GO:0006828","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0043490","count":3}]},{"hash":"1668653823010782954","title":"Neuronal ion transport and neurotransmitter loading","description":"This cluster centers on transmembrane transport activities, especially for ions (potassium and sodium), with additional transport or metabolism for nitrite/nitrate, vitamins, and sugars, alongside neural-related GO terms such as adult walking behavior and neurotransmitter loading into synaptic vesicles. The combination points to a theme of membrane ion transport supporting neuronal function and neurotransmitter handling.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0007628","count":2},{"id":"GO:0015707","count":1},{"id":"GO:0015706","count":1}]},{"hash":"1634405290006284157","title":"Neural development and actin dynamics","description":"These terms point to neural development processes (cerebellum morphogenesis, somitogenesis) and neuronal plasticity, coupled with cytoskeletal remodeling activities (barbed-end actin capping, ruffle assembly, cell spreading) and related signaling. While some GO terms relate to broader signaling or immune processes, the predominant theme is neural development intertwined with actin-driven cytoskeletal regulation. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1900042","count":1},{"id":"GO:1904694","count":1},{"id":"GO:0021587","count":1},{"id":"GO:0051016","count":1},{"id":"GO:0001756","count":1}]},{"hash":"1779414026641925613","title":"Membrane Transporters","description":"The top GO terms all describe transmembrane transport across membranes, covering ions (potassium, sodium), nitrite/nitrate, vitamins, sugars, and xenobiotics, plus a vesicular transport process for neurotransmitters. This pattern points to a cluster of membrane transporter proteins or transporter-related subunits rather than a single substrate-specific group. The diversity of substrates is still tied by the common function of moving substances across membranes.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":1},{"id":"GO:0015707","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0035461","count":1},{"id":"GO:0015757","count":1}]},{"hash":"202668826650356807","title":"RNA Processing and Translation Initiation","description":"The top GO terms converge on RNA maturation and management\u2014small-subunit processome assembly, mRNA export and stabilization, splicing regulation\u2014alongside translation initiation steps such as eIF4F complex assembly and preinitiation complex formation. This suggests the proteins participate in RNA processing from nuclear maturation to cytoplasmic translation initiation, including stress-related mRNA regulation and ncRNA-mediated control.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0034462","count":3},{"id":"GO:0048255","count":3},{"id":"GO:0097010","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0010610","count":3}]},{"hash":"1057486099025585885","title":"ER Stress and eIF2\u03b1/UPR Regulation","description":"The GO terms cluster around endoplasmic reticulum (ER) stress signaling and the unfolded protein response, notably regulation of eIF2\u03b1 phosphorylation/dephosphorylation and PERK-mediated UPR; some entries mentioning drug responses are incidental, but the core theme is ER stress response and its control.","confidence":"High","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1904310","count":1},{"id":"GO:0006983","count":1},{"id":"GO:0060734","count":1},{"id":"GO:1903917","count":1},{"id":"GO:1904314","count":1}]},{"hash":"1956604206833050324","title":"Unknown","description":"The terms cover endocrine signaling (estradiol), nutrient and stress responses, ion transporter regulation, vascular smooth muscle proliferation, xenobiotic metabolism, oxidative stress defense, aging, potassium transport, nitric oxide production, and cholinergic signaling. This wide spread implies no single coherent function characterizes the cluster, so a specific label can't be confidently assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032355","count":3},{"id":"GO:0009970","count":3},{"id":"GO:0032414","count":3},{"id":"GO:1904707","count":3},{"id":"GO:0006805","count":3}]},{"hash":"306872102694095144","title":"Calcium signaling and endosome trafficking","description":"The cluster centers on calcium-dependent signaling and membrane trafficking: endosome size regulation and receptor recycling point to trafficking, while regulation of a calcium-release channel indicates calcium signaling; the mechanical stimulus response aligns with mechanotransduction that can link signaling to trafficking and cytoskeletal dynamics. The presence of Sertoli cell proliferation terms suggests a context in specialized cells, but the shared theme appears to be calcium-driven signaling connected to endosomal trafficking and mechanotransduction. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060011","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0035249","count":1},{"id":"GO:0051036","count":1},{"id":"GO:0001881","count":1}]},{"hash":"1298577654413370495","title":"Vertebrate morphogenesis and calcium signaling","description":"The GO terms center on limb morphogenesis, palate (roof of mouth) development, and heart contraction, pointing to vertebrate organ development. Additional terms about endoplasmic reticulum membrane organization and store-operated calcium channel activation suggest involvement in calcium signaling and ER structure, which underpin muscle activity and morphogenesis. Altogether, this cluster likely represents proteins coordinating developmental processes with Ca2+ signaling.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035108","count":2},{"id":"GO:1901879","count":2},{"id":"GO:0097202","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0060047","count":2}]},{"hash":"2159028010211513788","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":4},{"id":"GO:0045542","count":4},{"id":"GO:0006696","count":4},{"id":"GO:0045880","count":4},{"id":"GO:0032310","count":4}]},{"hash":"2145064491410412287","title":"Gene Expression Regulation and Cell Cycle Control","description":"These proteins cluster around regulatory processes of gene expression and cell fate: regulation of transcription-related steps, RNA processing/splicing, translation initiation, histone modification, ubiquitination, and cell-cycle regulation. Although some annotations are obsolete, the common theme is control of gene expression and cell-cycle decisions, suggesting a cohesive regulatory cluster rather than a single enzymatic pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090043","count":2},{"id":"GO:0044154","count":2},{"id":"GO:0043970","count":2},{"id":"GO:0001731","count":2},{"id":"GO:1901407","count":2}]},{"hash":"1140736642699306644","title":"Oogenesis mRNA localization and translation regulation","description":"The cluster centers on RNA metabolism and translation, including ribosome biogenesis (small-subunit processome), mRNA processing/export/stability, and translation initiation (EIF4F complex), with a strong emphasis on oskar mRNA localization and germline axis specification in the ovary. This indicates a coordinated program of mRNA maturation, localization, and translation during oogenesis, supported by ncRNA-mediated regulation and stress-responsive mRNA stability.","confidence":"High","size":6,"edges":7,"triangles":4,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0034462","count":4},{"id":"GO:0045451","count":4},{"id":"GO:0048255","count":4},{"id":"GO:0097010","count":4},{"id":"GO:0031047","count":4}]},{"hash":"1006423115816261935","title":"Broad catabolic metabolism","description":"The cluster shows multiple GO terms for catabolic processes across diverse substrates (phosphatidylserine, triglyceride, formaldehyde, chlorophyll, prostaglandin), suggesting a general role in degradation/metabolism. A couple of regulatory terms are present but do not dominate the set, so the main theme is broad catabolic metabolism.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006660","count":3},{"id":"GO:0019433","count":3},{"id":"GO:0046580","count":2},{"id":"GO:1990577","count":2},{"id":"GO:2000124","count":2}]},{"hash":"66916952676653698","title":"Eye development and visual perception","description":"This cluster is enriched for eye-related terms, notably visual perception and retina/eye development (GO:0007601 and GO:0061298), suggesting a shared role in vision. While other terms touch on general cellular processes, the prominent eye-related terms justify naming the cluster around eye development and vision.","confidence":"Medium","size":6,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0030886","count":2},{"id":"GO:0046813","count":2},{"id":"GO:2000680","count":2}]},{"hash":"1961136165629276498","title":"Amino acid and lipid energy metabolism","description":"The strongest signals are amino acid catabolism (valine) and fatty acid metabolism (long-chain fatty acids, fatty-acyl-CoA biosynthesis, carnitine metabolism), pointing to energy production and metabolic flux. Some outliers (heart development, cold response, ascaroside biosynthesis) may reflect broader or cross-pathway annotations, but the core theme across the cluster is metabolic energy pathways centered on amino acid and lipid catabolism.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0006111","count":3},{"id":"GO:0019254","count":3},{"id":"GO:1904070","count":3}]},{"hash":"2096064274173061340","title":"Mitochondrial Respiratory Chain Assembly","description":"The top GO terms center on mitochondria, especially assembly of the respiratory chain components (notably complex IV), electron transport, and respirasome assembly, with related inner-membrane insertion and proton transport. Despite a couple of obsolete terms, the overall signature points to mitochondrial respiration machinery and its assembly.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0006626","count":1},{"id":"GO:0045039","count":1},{"id":"GO:0072321","count":1},{"id":"GO:0022900","count":1}]},{"hash":"1451096759697781868","title":"Mitochondrial respiration and PPP metabolism","description":"The cluster repeatedly lists mitochondrial-related terms (respiratory chain complex IV assembly, regulation of cytochrome-c oxidase activity) along with pentose-phosphate pathway terms (non-oxidative branch, shunt, xylulose biosynthesis), suggesting a theme of mitochondrial energy production coupled with PPP metabolism. Some development terms appear incidental and do not disrupt the main connection.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008535","count":1},{"id":"GO:1904960","count":1},{"id":"GO:0033132","count":1},{"id":"GO:0009052","count":1},{"id":"GO:0046487","count":1}]},{"hash":"1648964979226120316","title":"Cellular stress signaling and survival","description":"This cluster\u2019s terms point to stress- and signaling-related functions: nitric oxide\u2013mediated signaling, IL-3\u2013induced responses, activation of AKT, regulation of neuronal apoptosis, regulation of lysosomal membrane permeability, and metal detoxification. Taken together, they suggest a module involved in sensing stress and promoting cell survival, with links to inflammation and vesicle/lysosome dynamics. The presence of a few obsolete terms aside from these core ideas still supports this cohesive theme.","confidence":"Medium","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060547","count":4},{"id":"GO:0036091","count":4},{"id":"GO:0007263","count":4},{"id":"GO:0036016","count":4},{"id":"GO:0032095","count":4}]},{"hash":"1024544087485710335","title":"Mitochondrial Lipid Biosynthesis and Remodeling","description":"This cluster is dominated by GO terms for lipid biosynthesis and remodeling (phosphatidylcholine, ether lipids, cardiolipin, triglycerides, CDP-diacylglycerol) and mitochondrial ATP synthesis, suggesting a core theme of mitochondrial lipid metabolism supporting energy production. A few terms relate to brain development or immune signaling, but the strongest signal is mitochondrial lipid remodeling and synthesis.","confidence":"Medium","size":6,"edges":11,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042775","count":5},{"id":"GO:0006663","count":5},{"id":"GO:0021587","count":5},{"id":"GO:0036151","count":5},{"id":"GO:0008611","count":5}]},{"hash":"140198917378131407","title":"Unknown","description":"The cluster includes a mix of GO terms from immune signaling (T cell receptor signaling), neural development (neuron development, cerebellar cortex formation, Bergmann glial differentiation), and insulin signaling, with no clear shared pathway or functional module linking the proteins, and no edges connecting them. This suggests there is no cohesive theme to assign a specific label beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0048666","count":3},{"id":"GO:0060020","count":3},{"id":"GO:0008286","count":3}]},{"hash":"533947283148267230","title":"Unknown","description":"The GO terms here are highly diverse, ranging from lung development and transcription regulation to various metabolic biosynthesis pathways (retinoids, steroids, melanin, mycolic acids, tropane alkaloids). With no edges or cohesive functional theme connecting these terms, there isn\u2019t a clear shared function tying the proteins together, so a neutral Unknown label with no confidence is appropriate.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030324","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0006706","count":3},{"id":"GO:0042438","count":3},{"id":"GO:0042572","count":3}]},{"hash":"1814118149563005501","title":"Golgi-focused vesicle trafficking","description":"This cluster is dominated by GO terms describing transport of proteins and vesicles to and within the Golgi (ER-to-Golgi, endosome-to-Golgi, and general protein transport). The ceramide biosynthetic process aligns with membrane lipid biosynthesis that supports vesicle formation and trafficking. A few neural/muscular terms may reflect cellular context (Schwann cells, neuromuscular movement), but the core theme appears to be Golgi-related vesicle trafficking. ","confidence":"Medium","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042147","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006888","count":1},{"id":"GO:1905045","count":1},{"id":"GO:0050884","count":1}]},{"hash":"604517591963248092","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090503","count":2},{"id":"GO:0050884","count":2},{"id":"GO:0034247","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0019243","count":2}]},{"hash":"200816250069543090","title":"Embryonic development and organogenesis","description":"The GO terms point to multiple developmental and organ-formation processes (pancreatic cell development, cartilage morphogenesis, placenta/ trophoblast differentiation, heart EMT in cushion formation, and endocrine system development), suggesting proteins involved in embryonic tissue differentiation and organogenesis rather than a single specific pathway. Confidence: High","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":5},{"id":"GO:0010729","count":5},{"id":"GO:0046022","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060806","count":5}]},{"hash":"303570805993966186","title":"Potassium transport and membrane potential regulation","description":"The top GO terms are dominated by potassium ion transport, regulation and stabilization of membrane potential, and cardiac action potential repolarization, pointing to proteins that modulate membrane excitability and ionic gradients. While a few terms touch on saliva/gastric secretion or immune signaling, the shared theme across most terms is potassium-driven membrane potential dynamics.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060075","count":4},{"id":"GO:0046541","count":4},{"id":"GO:0098914","count":4},{"id":"GO:0071805","count":3},{"id":"GO:1903640","count":3}]},{"hash":"1940078116044286173","title":"T cell development and immune signaling","description":"The top GO terms point strongly to immune system activity, including immune response, interleukin-12 production, immunological synapse formation, and DN2 thymocyte differentiation, which together suggest a core function in T cell development and activation. A few terms related to GPCR signaling and circadian/grooming biology appear as noise or broader pleiotropic roles, but the dominant theme is immune signaling and T cell differentiation.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":5},{"id":"GO:1902239","count":5},{"id":"GO:0006955","count":5},{"id":"GO:1904155","count":5},{"id":"GO:0007625","count":5}]},{"hash":"22253559371133625","title":"Nuclear gene expression and genome maintenance","description":"Top GO terms cluster around chromatin organization, histone methylation, rRNA processing, translation initiation, and DNA repair, all core nuclear processes tied to genome expression and maintenance. A few terms relate to growth hormone signaling and metal stress, which are peripheral to the main theme; overall the proteins appear to participate in nuclear regulation and genome integrity rather than a single cytoskeletal or signaling pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":1},{"id":"GO:0031497","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0051016","count":1},{"id":"GO:0060416","count":1}]},{"hash":"55441500917190838","title":"Thermal stress and immune-neural signaling","description":"The terms cluster around temperature/stress responses (thermal stimulus, diet-induced thermogenesis, osmotic stress), with additional immune-related processes (immune response, IL-12 production) and circadian/behavioral cues (circadian sleep/wake cycle, grooming), suggesting a broad, integrated stress response involving neuroimmune and circadian regulation rather than a single specific pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0035625","count":3},{"id":"GO:1902239","count":3}]},{"hash":"1385260172825951395","title":"DNA Transcription Regulation and Genome Maintenance","description":"Top terms point to transcription regulation and DNA maintenance (regulation of DNA-templated transcription, DNA topological change, telomere maintenance via telomerase). Some terms indicate broader signaling regulation (TGF-beta receptor signaling, ethylene signaling, nitric oxide production), suggesting a regulatory cluster tied to gene expression and genome integrity rather than metabolic activity.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0045793","count":2},{"id":"GO:0010105","count":2},{"id":"GO:0018298","count":2},{"id":"GO:0043524","count":2}]},{"hash":"332220076072621340","title":"Immune response and cell adhesion","description":"The proteins in this cluster show GO terms centered on immune functions (T cell costimulation; neutrophil chemotaxis; responses to virus and to fungal origin; phagocytosis recognition) as well as adhesion-related processes (focal adhesion assembly; cell spreading; heterophilic cell-cell adhesion). This suggests a theme of immune signaling coupled with cell\u2013substrate or cell\u2013cell interactions, rather than a single, tightly defined pathway, justifying a label that captures both aspects.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":3},{"id":"GO:0071333","count":2},{"id":"GO:0098586","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0030593","count":2}]},{"hash":"983750595199990969","title":"Vesicle trafficking and membrane remodeling","description":"A cohesive theme emerges around vesicle biogenesis and membrane remodeling: synaptic vesicle budding, membrane tubulation, small GTPase\u2013mediated signaling that governs trafficking, and phosphoinositide biosynthesis\u2014all pointing to dynamic membrane handling and vesicle formation. Additional terms like acrosome assembly and very-low-density lipoprotein particle assembly further reflect vesicle and Golgi-related processes. Some other terms reflect broader signaling or tissue-specific regulation, but the central pattern is vesicle trafficking and membrane remodeling.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033601","count":3},{"id":"GO:0034379","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0061000","count":3},{"id":"GO:0070142","count":3}]},{"hash":"194081227365305656","title":"MAPK Signaling in Development and Stress Response","description":"This cluster is dominated by GO terms for ERK1/ERK2 cascade and JNK cascade, indicating MAPK pathway involvement, alongside terms tied to development (nervous system development, organ regeneration) and responses to stimuli (TNF, LPS, toxic substances). The combination suggests proteins that mediate MAPK-driven signaling coordinating developmental processes with stress and inflammatory cues.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0071356","count":2},{"id":"GO:0031100","count":2},{"id":"GO:0009636","count":2}]},{"hash":"390508753967366794","title":"RNA processing and translation initiation","description":"The terms converge on mRNA lifecycle and translation control: processing/splicing, export, stability, and assembly of translation initiation complexes, plus regulatory ncRNA effects and stress-responsive regulation. This suggests a cohesive module coordinating RNA maturation and the initiation of protein synthesis.","confidence":"High","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043525","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0097010","count":2},{"id":"GO:0031047","count":2}]},{"hash":"706057870833599665","title":"Embryonic neural crest and retinoid signaling","description":"The cluster's GO terms cluster around embryonic development with emphasis on neural crest cell development, retinoic acid receptor signaling, and retinol/retinoid metabolism, plus related organogenesis processes (eye development, cardiac development, pattern formation). This combination suggests a cohesive theme of neural crest\u2013driven, retinoid-regulated embryonic development.","confidence":"High","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0014032","count":4},{"id":"GO:0060013","count":4},{"id":"GO:0048384","count":4},{"id":"GO:0009258","count":4},{"id":"GO:0009954","count":4}]},{"hash":"1255274029751151170","title":"Vacuolar proton transport and ion homeostasis","description":"The top terms cluster around vacuolar functions (vacuolar acidification, vacuole organization, protein targeting to vacuole) and proton/ion transport (proton transmembrane transport, proton motive force-driven ATP synthesis), with copper and sodium ion homeostasis also tied to vacuolar/ion handling. This points to a cohesive theme of vacuole-centered proton gradients and metal/ion regulation. ","confidence":"High","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007035","count":2},{"id":"GO:0006626","count":1},{"id":"GO:0006878","count":1},{"id":"GO:0015991","count":1},{"id":"GO:0042777","count":1}]},{"hash":"470412750284150383","title":"Conjugation and DNA partitioning","description":"The strongest signals are pheromone-dependent signaling during conjugation and processes for genome maintenance (plasmid partitioning and chromosome segregation), indicating a theme around DNA transmission and segregation during cell contact. Other terms like tRNA modification and Fe-S cluster assembly appear peripheral but reflect general cellular maintenance; overall the conjugation/genome partitioning theme is most representative. ","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0099133","count":4},{"id":"GO:0009408","count":4},{"id":"GO:0000750","count":4},{"id":"GO:0099132","count":4}]},{"hash":"899196103787327820","title":"Adherens junctions and cytoskeleton remodeling","description":"The top GO terms cluster around adherens junction organization, establishment/maintenance of cell polarity, and cytoskeletal dynamics (filopodium and ruffle assembly, endocytosis), all of which tie into tissue homeostasis and junction integrity. Ubiquitination supports regulation of these processes, and the inclusion of T cell receptor signaling and synapse plasticity hints at immunological synapse\u2013related remodeling. Overall, the common theme is junctional maintenance coupled to actin-driven membrane remodeling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048873","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0034332","count":5},{"id":"GO:0071963","count":5},{"id":"GO:0046847","count":5}]},{"hash":"716012253520642420","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042273","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0000466","count":2}]},{"hash":"2278718745939164348","title":"Hair Cycle and Keratinization","description":"The top GO terms are hair cycle and keratinization, both pointing to hair follicle biology and keratinocyte processes; with a small set of proteins and no network edges, the cluster seems focused on hair-related structural/differentiation pathways rather than signaling. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":5},{"id":"GO:0031424","count":5}]},{"hash":"121099299964645893","title":"NF-kappaB-regulated apoptosis","description":"The GO terms show a strong focus on apoptotic processes (execution phase of apoptosis, intrinsic apoptotic signaling) and DNA fragmentation, with additional signals of NF-kappaB pathway regulation. While there are mentions of estradiol and nicotine responses, the core theme across the terms points to apoptosis signaling modulated by NF-kappaB, which best captures the cluster\u2019s function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0032355","count":3},{"id":"GO:0097194","count":3},{"id":"GO:0008627","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1891624098677743870","title":"Unknown","description":"The GO terms span diverse areas\u2014metabolism, redox processes, sperm capacitation, membrane potential regulation, histone methylation (obsolete), and erythroid differentiation\u2014without a single cohesive function tying the proteins together, so a concise, meaningful label cannot be inferred.","confidence":"","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042208","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0048240","count":4},{"id":"GO:0042391","count":4},{"id":"GO:0045793","count":4}]},{"hash":"2007347695802910346","title":"TLR-driven innate antiviral defense","description":"The top GO terms are dominated by Toll-like receptor signaling pathways (TLR2, TLR7, TLR9) and defense response to virus, pointing to innate immune recognition and antiviral response as the cluster's shared function. Additional terms such as regulation of Rho signaling and synapse organization suggest broader signaling cross-talk, but the core theme remains TLR-mediated antiviral defense.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061000","count":2},{"id":"GO:0034134","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0035023","count":2}]},{"hash":"313273454522654611","title":"Cytokine signaling and immune activation","description":"The GO terms converge on interleukin signaling (IL-2, IL-3), Th2 cytokine production, chemokine regulation, acute inflammatory responses, and STAT pathway activation, suggesting this cluster centers on cytokine-mediated immune signaling and inflammatory processes, with a potential Th2 orientation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032722","count":1},{"id":"GO:0032674","count":1},{"id":"GO:0048661","count":1},{"id":"GO:0035745","count":1},{"id":"GO:0002638","count":1}]},{"hash":"361012174958463923","title":"Embryogenesis and organ development","description":"The terms are dominated by embryonic development and organ morphogenesis across multiple tissues (eye, heart/outflow tract, hindlimb, placenta, pituitary, prostate), plus in utero development and related morphogenetic processes. This suggests a cohesive theme of embryonic growth and organogenesis rather than a single tissue function, with estrogen signaling possibly reflecting hormonal regulation during development. Confidence in this broad developmental theme is high.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048048","count":4},{"id":"GO:0021983","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0030520","count":3},{"id":"GO:0001890","count":3}]},{"hash":"1050895786727017011","title":"Innate Immune Cytokine Signaling and Inflammasome Assembly","description":"This cluster is best described by its enrichment in innate immune and inflammatory functions: defense response to protozoan, IL-18 production, and positive regulation of NLRP3 inflammasome complex assembly and cytokine production. These terms point to a coherent theme of inflammasome-mediated cytokine signaling in innate immunity. The remaining terms related to synaptic assembly at NMJ, ER membrane fusion, and microtubule dynamics appear as broader cellular processes that can intersect with immune signaling but do not define the primary function of the cluster.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071158","count":3},{"id":"GO:0042832","count":3},{"id":"GO:0008582","count":3},{"id":"GO:0016320","count":3},{"id":"GO:1900017","count":3}]},{"hash":"633373950257744294","title":"Embryonic organ morphogenesis across tissues","description":"The top GO terms point to development and morphogenesis of multiple organs and tissues during embryogenesis (heart, eye, limb, placenta, gonad, kidney, habenula, etc.), indicating a broad, multi-organ developmental theme rather than a single specific function.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001890","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0060527","count":3},{"id":"GO:2000288","count":3},{"id":"GO:0003148","count":3}]},{"hash":"1491591188796645221","title":"Neurovascular development","description":"The GO terms cluster neural development (axons, myelination, neuron fasciculation) with vascular processes (sprouting angiogenesis, endothelial proliferation, substrate adhesion-dependent spreading), suggesting a shared theme of coordinated neural and blood vessel development. A few terms (aging, LDL receptor biosynthesis, NK cell activation) appear less connected and may be noise, but the dominant pattern supports neurovascular development.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"wound healing","top_go_terms":[{"id":"GO:0048333","count":4},{"id":"GO:0031643","count":4},{"id":"GO:0002042","count":4},{"id":"GO:0048675","count":4},{"id":"GO:1900026","count":4}]},{"hash":"2189272673724263136","title":"RNA processing and translation initiation machinery","description":"Proteins here are linked to RNA maturation and gene expression control, including small-subunit processome assembly, mRNA export, splicing regulation, mRNA stability control, and the assembly of translation initiation complexes (eIF4F and preinitiation). This convergence on RNA processing and initiation of translation points to a shared role in preparing and translating mRNA transcripts.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0034462","count":4},{"id":"GO:0048255","count":4},{"id":"GO:0097010","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0010610","count":4}]},{"hash":"1357741982609067020","title":"Ubiquitin-regulated development and ciliogenesis","description":"The top GO terms show ubiquitin-related pathways (ubiquitin-dependent ERAD, ubiquitin-dependent protein catabolic process, K63-linked ubiquitination) alongside development and ciliogenesis terms (neural tube closure, multicellular organism development, cilium assembly) and cytoskeletal remodeling (Arp2/3-mediated actin nucleation). This suggests proteins in this cluster are linked to ubiquitin-mediated proteostasis that intersects with morphogenesis and ciliogenesis, with a few terms (V(D)J recombination, brassinosteroid signaling) likely representing noise. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0007275","count":2},{"id":"GO:2000601","count":2},{"id":"GO:0060271","count":2}]},{"hash":"1206179169467205928","title":"Hemostasis and Angiogenesis","description":"The GO terms center on blood coagulation, fibrinolysis, and angiogenesis, with collagen fibril organization and regulation of endothelial/platelet survival, indicating a cluster of proteins coordinating clot formation and vascular remodeling. The presence of both positive and negative regulation terms reflects balanced control of vascular processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042730","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0001525","count":2},{"id":"GO:1902042","count":2},{"id":"GO:2000352","count":2}]},{"hash":"119838981290263458","title":"B cell signaling and IgE regulation","description":"Based on GO terms, the cluster centers on B cell receptor signaling, type 2 immune response, IgE isotype regulation, and ubiquitin-mediated protein turnover; immune-related functions predominate, while a few terms (circadian rhythm, skeletal muscle development) appear as minor annotations.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0048294","count":2},{"id":"GO:0042092","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0048741","count":2}]},{"hash":"1561150994818919430","title":"Mitotic cell cycle and APC-dependent processes","description":"The top GO terms are strongly focused on mitosis and cell-cycle control (cell division, mitotic cell cycle, APC-dependent catabolic process), suggesting these proteins cluster around mitotic machinery and regulated proteolysis. While there are notes of mRNA transport and TORC1 signaling, the dominant signal is mitotic progression.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0071276","count":2},{"id":"GO:2001162","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051028","count":2}]},{"hash":"1787375822502817067","title":"Developmental tissue formation with oxidative stress responses","description":"The top GO terms point to tissue development across multiple organs (brain, eye, epidermis) indicating a role in developmental processes. Additional terms reflect cellular defenses and damage responses (apoptosis, DNA damage checkpoint signaling, hydrogen peroxide response, xenobiotic response), suggesting the proteins also participate in coping with cellular stress during development. Some metabolic terms (fructose metabolism) may reflect energy needs during growth. Overall, the cluster seems tied to development with concurrent stress response functions.","confidence":"Medium","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0001654","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0070301","count":2}]},{"hash":"406152186128970010","title":"Ubiquitin/SUMO proteostasis and aggresome dynamics","description":"The cluster is dominated by post-translational modification and protein quality control terms\u2014sumoylation, autoubiquitination, and negative regulation of proteasomal degradation, plus aggresome assembly\u2014pointing to proteostasis regulation via ubiquitin/SUMO pathways. While there are related terms (TNF signaling, mitochondrial fusion), the core theme centers on protein turnover and handling misfolded proteins.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1903265","count":4},{"id":"GO:1902283","count":4},{"id":"GO:0016925","count":4},{"id":"GO:1901799","count":4},{"id":"GO:0010636","count":4}]},{"hash":"58148057056343432","title":"Ubiquitin-mediated proteostasis and mitochondrial dynamics","description":"The cluster centers on ubiquitin-related regulation (sumoylation, autoubiquitination, ERAD) and stress responses (cellular response to toxic substance), with concurrent regulation of mitochondrial fusion (both positive and negative), plus links to TNF signaling and neurotransmitter secretion. This combination suggests a cohesive role in protein quality control and mitochondrial dynamics under stress, making the proposed label appropriate. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0097237","count":3},{"id":"GO:0030433","count":3},{"id":"GO:1904049","count":3},{"id":"GO:1903265","count":3},{"id":"GO:1902283","count":3}]},{"hash":"1092505024951452018","title":"Neuronal development and neurite morphogenesis","description":"This cluster is dominated by GO terms for central nervous system development, axon extension, dendrite self-avoidance, and regulation of dendritic spine development, indicating proteins involved in neural development and neurite morphogenesis. Some terms like otolith and glomerulus morphogenesis suggest broader morphogenetic roles or annotation overlap, and a few immune-related terms appear tangential. Overall, the shared theme is neural development and neurite formation.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007417","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0032474","count":3},{"id":"GO:0070593","count":3},{"id":"GO:0090272","count":3}]},{"hash":"1913175895316502719","title":"Actin Cytoskeleton Signaling and Remodeling","description":"TopGO terms indicate a link between actin filament regulation (barbed-end capping, centrosome localization, cytoskeleton reorganization) and signaling processes (GTPase activity regulation, tyrosine phosphorylation), with additional hints from TGF-beta response, apoptosis, synaptic plasticity, and adaptive immunity. This points to a cluster where actin dynamics are integrated with broader cellular signaling and outcomes rather than a single pathway, supporting a cohesive theme of cytoskeleton-associated signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051016","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0071560","count":2}]},{"hash":"954902041892590599","title":"Redox defenses and extracellular matrix remodeling","description":"The cluster shows strong representation of oxidative stress-related terms (hydrogen peroxide catabolic process, removal of superoxide radicals, cellular oxidant detoxification, response to alkyl hydroperoxide, peptidyl-cysteine oxidation) together with extracellular matrix organization and NF-kB signaling (I-kappaB phosphorylation). This pattern suggests proteins involved in redox regulation and antioxidant defense that may influence ECM remodeling through redox-sensitive signaling, despite a few tissue-specific terms like gonad development appearing less connected. ","confidence":"Medium","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0008584","count":4},{"id":"GO:0042744","count":3},{"id":"GO:0034101","count":3},{"id":"GO:0019430","count":3},{"id":"GO:0022417","count":3}]},{"hash":"789845185107806179","title":"Unknown","description":"The GO terms are a scattered mix, with endocytosis as the only clearly cohesive process and many diverse signaling and differentiation terms (growth hormone signaling, glucose and fatty acid responses, spermatid/keratinocyte differentiation). This lack of a single, convergent function makes it hard to assign a specific, cohesive label beyond Unknown.","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":3},{"id":"GO:0098869","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0030819","count":2},{"id":"GO:0071333","count":2}]},{"hash":"1655681524928439905","title":"Brain-region Neurodevelopment","description":"Most GO terms describe development of brain regions and neurons (hippocampus, thalamus, hypothalamus, midbrain, pons, cerebellar Purkinje cell layer, pyramidal neurons), indicating a neurodevelopment-focused cluster. Mitochondrial electron transport and aerobic respiration terms reflect neuronal metabolism during development but do not override the main theme.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":3},{"id":"GO:1902600","count":2},{"id":"GO:0009060","count":2},{"id":"GO:0006122","count":2},{"id":"GO:0021794","count":2}]},{"hash":"9644679189338012","title":"Nucleotide biosynthesis and interconversion","description":"The cluster is dominated by GO terms related to nucleotide production and interconversion (ADP/CDP biosynthesis, ITP metabolism, purine ribonucleotide interconversion, AMP salvage, and nucleotide phosphorylation), indicating a cohesive role in nucleotide metabolism. The brain and liver development terms may reflect tissue-specific expression contexts rather than core functionality, but overall the signal centers on nucleotide biosynthesis and related processes, with NAD+ biosynthesis also aligning with broader nucleotide metabolism. ","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006172","count":5},{"id":"GO:0046705","count":5},{"id":"GO:0046041","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0001889","count":5}]},{"hash":"1541502572622739279","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0034462","count":2},{"id":"GO:0010606","count":2},{"id":"GO:0048255","count":2},{"id":"GO:0097010","count":2}]},{"hash":"2113501235121349751","title":"Immune signaling and regulation","description":"Most terms center on immune system processes (IL-2 production, NK cell cytotoxicity, complement activation, regulatory T cell differentiation, and TLR signaling), with a few outliers related to cardiac electrophysiology and proteolysis. Overall, the dominant theme is immune signaling and its regulation, so this label is a good fit for the cluster.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900042","count":5},{"id":"GO:0086014","count":5},{"id":"GO:0090272","count":5},{"id":"GO:0042271","count":5},{"id":"GO:0006508","count":5}]},{"hash":"617756428406046518","title":"Neurovascular and Retinal Angiogenesis Development","description":"Top GO terms are dominated by angiogenesis and neural development: angiogenesis, positive regulation of angiogenesis, retinal vasculature development, cerebral cortex development, visual learning. This indicates a cluster of proteins involved in coordinating blood vessel formation in nervous tissue (brain and retina). Additional terms like DNA-templated transcription and response to muscle activity suggest regulatory roles common in developmental pathways. Overall, the theme is neurovascular development and retinal vascularization.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006935","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0014850","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0008542","count":5}]},{"hash":"2248577886229098567","title":"Immune Activation and Phagocytosis","description":"The cluster shows a coherent theme of immune-related functions: phagocytosis and engulfment, complement activation, B and T cell receptor signaling and costimulation, innate immune response, and positive regulation of lymphocyte activation and IL-2 production. There is one outlier term related to cardiac action potential, likely annotation noise. Overall, the proteins appear tied to immune activation and phagocytic processes.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":4},{"id":"GO:0050853","count":3},{"id":"GO:0031295","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0045087","count":3}]},{"hash":"878414250482439095","title":"Immune Cell Migration and Signaling Regulation","description":"The top GO terms point to immune processes (immune response) and multiple cell migration events (negative regulation of NK cell chemotaxis, thymocyte migration, telencephalon cell migration, positive regulation of cellular extravasation), along with modulation of signaling pathways (PI3K/AKT) and cytolysis. This suggests a cohesive theme of immune-cell trafficking combined with regulation of signaling and cytotoxic activity.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"wound healing","top_go_terms":[{"id":"GO:2000502","count":5},{"id":"GO:1901740","count":4},{"id":"GO:0072679","count":4},{"id":"GO:0002693","count":4},{"id":"GO:0022029","count":4}]},{"hash":"1345901564519669789","title":"Hematopoietic and immune cell differentiation","description":"The top GO terms center on differentiation of blood/immune lineages (megakaryocytes, macrophages, dendritic cells, hemangioblasts), with additional developmental differentiation cues (heart valve formation, epithelial differentiation) and regulatory control (negative regulation of megakaryocyte differentiation). This pattern suggests a cluster of proteins involved in lineage specification and development, especially hematopoietic/immune lineages, making the label appropriate though some terms point to broader development. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035855","count":5},{"id":"GO:0003199","count":5},{"id":"GO:0060644","count":5},{"id":"GO:0007296","count":5},{"id":"GO:0043011","count":5}]},{"hash":"946771392973455975","title":"Chromatin modification and transcription regulation","description":"Top GO terms point to histone modification (acetylation/methylation), ubiquitination, and transcriptional control (negative regulation of RNA Pol II), suggesting a cluster focused on epigenetic regulation of gene expression. Although some terms relate to development or hormone responses, the shared theme is chromatin state impacting transcription. Confidence reflects partial coherence amid some outlier terms and obsolete annotations.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000620","count":2},{"id":"GO:0070512","count":2},{"id":"GO:0085020","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0016049","count":2}]},{"hash":"767591635360700876","title":"Neural development and gonadal organogenesis","description":"This cluster is driven by neural development terms such as forebrain-midbrain boundary formation, glial cell differentiation, and neural crest cell migration, indicating a neural developmental theme. It also includes terms related to reproductive organ development (male gonad development and epithelial maturation in prostate gland development) and gene expression signaling regulation, suggesting a broader embryonic development focus across neural and gonadal tissues. Confidence: High","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0023019","count":2},{"id":"GO:0060743","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0043569","count":2}]},{"hash":"1862472550899660537","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":1},{"id":"GO:0032781","count":1},{"id":"GO:0097428","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0006458","count":1}]},{"hash":"1300529983976172345","title":"Membrane transporters for diverse substrates","description":"This cluster is dominated by GO terms for transmembrane transport across membranes, including ions (potassium, sodium), nitrite/nitrate, vitamins, and sugars (galactose, arabinose), as well as xenobiotic transport and an associated neurotransmitter loading process. The common thread is transporter activity across membranes for a variety of substrates, suggesting these proteins function as diverse solute transporters rather than a single, specific pathway.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":1},{"id":"GO:0015707","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0035461","count":1},{"id":"GO:0015757","count":1}]},{"hash":"2291958526741728324","title":"Post-transcriptional RNA processing and splicing regulation","description":"The cluster shows strong signals for splicing regulation (spliceosome), mRNA processing, export, stability, and even translation initiation components, indicating a cohesive role in post-transcriptional RNA maturation and regulation.","confidence":"High","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:1901407","count":3},{"id":"GO:0034462","count":2},{"id":"GO:0048255","count":2}]},{"hash":"2045144758771946921","title":"RNA splicing regulation and mRNA processing","description":"The top GO terms cluster around spliceosome-mediated splicing and regulation (including alternative splicing), plus mRNA export, stabilization, and regulation of translation initiation, pointing to a coherent module of post-transcriptional RNA processing and splicing control, with a note on circadian rhythm regulation as a downstream effect.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048026","count":4},{"id":"GO:0048255","count":3},{"id":"GO:0000381","count":3},{"id":"GO:0031047","count":2},{"id":"GO:0006406","count":2}]},{"hash":"1383320408722732350","title":"Multilineage development and differentiation","description":"The GO terms span diverse developmental and differentiation processes across multiple lineages (skeletal, neural, hematopoietic) and include transcription regulation, with no single shared pathway, making a broad label for multilineage development appropriate.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080182","count":2},{"id":"GO:0051225","count":2},{"id":"GO:0021957","count":2},{"id":"GO:0045652","count":2},{"id":"GO:0043249","count":2}]},{"hash":"2084461556402659425","title":"Ribosome biogenesis and translation","description":"The dominant GO terms are directly related to ribosome production and protein synthesis (translation, cytosolic and large subunit ribosome biogenesis/assembly). While a few minor terms reference transcription regulation or DNA damage response, the core signal centers on ribosome assembly and translation, justifying this label.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0042273","count":1},{"id":"GO:1902164","count":1}]},{"hash":"1827109871571279689","title":"Inflammation and oxidative stress response","description":"The top GO terms cluster around acute inflammatory processes (acute inflammatory response, response to cytokine, response to lipopolysaccharide, leukotriene production) and related lipid/oxidative stress handling (cellular oxidant detoxification, cellular response to lipid hydroperoxide). This suggests a shared theme of innate immune signaling and inflammatory mediator production, with involvement of lipid mediators like leukotrienes and oxidative stress responses, even though one term (cornification) is more skin-barrier oriented. The lack of connectivity in the network data does not negate the functional coherence, which aligns well with an inflammatory/immune response theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002526","count":1},{"id":"GO:0070268","count":1},{"id":"GO:2001300","count":1},{"id":"GO:0034097","count":1},{"id":"GO:0002540","count":1}]},{"hash":"1687063215893142575","title":"Ubiquitin-mediated signaling and apoptosis","description":"This cluster is best described by multiple ubiquitin-related GO terms (ubiquitin-dependent protein catabolic process, ubiquitin-dependent ERAD pathway, histone ubiquitination) and terms related to regulating apoptotic and TNF signaling. Together these suggest a theme of ubiquitin-mediated control of signaling and cell death. Some terms (retinoic acid response, V(D)J recombination, peroxisome import) are less cohesive with this theme, but do not override the main ubiquitin-focused pattern.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":2},{"id":"GO:1903721","count":1},{"id":"GO:0042787","count":1},{"id":"GO:0090073","count":1},{"id":"GO:0033151","count":1}]},{"hash":"1601209042832703774","title":"Spliceosome-Driven mRNA Splicing and Processing","description":"The top terms cluster around mRNA splicing and processing via the spliceosome (splicing, regulation of splicing by the spliceosome, alternative splicing regulation, and mRNA stabilization), with a hint of small-subunit processome involvement. While a couple of terms touch on broader signaling or development, the dominant theme is RNA processing by the spliceosome.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048255","count":3},{"id":"GO:0008380","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0000381","count":3},{"id":"GO:0006378","count":3}]},{"hash":"939061617118853929","title":"Signaling Regulation and Receptor Turnover","description":"The proteins are annotated with GO terms indicating multiple signaling pathways (insulin receptor signaling, ERK cascade) and negative regulation of signaling (IL-6, IL-2) as well as receptor/endosomal turnover (ubiquitin-dependent degradation via multivesicular body, receptor catabolic processes). This points to a cluster of factors that modulate cellular signaling levels through both pathway regulation and receptor trafficking.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0061000","count":5},{"id":"GO:0043162","count":5},{"id":"GO:0008286","count":5},{"id":"GO:0070373","count":5},{"id":"GO:2001275","count":5}]},{"hash":"1320711044137467760","title":"Immune Signaling and Developmental Morphogenesis","description":"These proteins are enriched for immune-related GO terms (innate immune response, phagocytosis, complement activation, B cell receptor signaling), suggesting a core immune functional cluster. However, several terms point to developmental and morphogenesis processes (multicellular organism development, ossification, otolith morphogenesis, muscle contraction), implying a possible coordination between immune signaling and development. Because the immune theme is strongest but not exclusively, the label reflects both aspects without overclaiming a single unified function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006936","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0050853","count":3}]},{"hash":"1450677425359300288","title":"Brain Development and Dopamine Regulation","description":"This cluster centers on in utero embryonic development and cerebral cortex development, indicating a brain development theme. It also features dopamine metabolic process and corticosterone response terms, suggesting neurochemical and hormonal regulation in the developing brain. A few histone modification terms (obsolete) hint at epigenetic regulation, and some environmental-response terms (herbicide, aluminum ion) reflect broader stress responses. Overall, the strongest shared signal is Brain Development with dopaminergic regulation.","confidence":"High","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":3},{"id":"GO:0021987","count":3},{"id":"GO:0009635","count":2},{"id":"GO:0045793","count":2},{"id":"GO:0034720","count":2}]},{"hash":"1327670269995656482","title":"Mitotic cell cycle control and apoptosis","description":"Based on the enriched GO terms, the cluster is dominated by mitotic cell cycle regulation (G1/S transition, mitotic cell cycle, G2/M transition) and apoptosis/dna damage signaling, indicating a theme of cell division control coupled with cell fate decisions. Additional terms such as translation regulation, morphogenesis, synapse assembly, viral process, and immune signaling seem peripheral or broader annotations, but do not override the main signal of mitotic control and apoptosis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000902","count":3},{"id":"GO:0017148","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0031571","count":2}]},{"hash":"795115533073477370","title":"Diverse small-molecule catabolism","description":"This cluster is dominated by GO terms describing catabolic processes for a range of diverse substrates (hydroxyproline, aldonic acids, glucarate, neuraminate), suggesting a unifying theme of metabolite breakdown. A couple of additional terms about tricellular tight junctions and liver development appear incidental, possibly annotation noise or broader tissue-context signals. Overall, the strongest signal is diverse compound catabolism.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019470","count":1},{"id":"GO:0046176","count":1},{"id":"GO:0019877","count":1},{"id":"GO:0042838","count":1},{"id":"GO:0019262","count":1}]},{"hash":"1483733077978777624","title":"Cytoskeleton remodeling and signaling regulation","description":"This cluster centers on proteins involved in actin cytoskeleton organization and regulation of small GTPase activity, coupled with processes like ubiquitin-dependent protein turnover and various signaling pathways (e.g., B cell receptor signaling). The converging theme is regulation of signaling and cytoskeletal dynamics, rather than a single precise function, suggesting a broader regulatory module.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000312","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0050853","count":2}]},{"hash":"737525197157728383","title":"Ubiquitin-Proteasome Control of Chromatin and TNF Signaling","description":"The top GO terms point to ubiquitin-dependent protein degradation and ubiquitination events alongside histone modification and chromatin-related processes, suggesting a regulatory module where protein turnover and chromatin state govern gene expression. The presence of TNF signaling terms and V(D)J recombination hints at involvement in immune-related transcriptional regulation at the chromatin level, rather than a single metabolic pathway. Overall, it reflects a ubiquitin- and chromatin-centered regulatory cluster with ties to inflammatory signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0033151","count":4},{"id":"GO:1903265","count":4},{"id":"GO:2000620","count":4},{"id":"GO:0033209","count":4}]},{"hash":"287554817427523287","title":"Mitochondrial import and membrane regulation","description":"The top GO terms include protein import into the mitochondrial matrix and regulation of mitochondrial membrane permeability, which point to mitochondrial function as a central motif of this cluster. Other terms in the list are more disparate (cell cycle, vacuolar targeting, gastric secretion, apoptosis), suggesting some annotation noise or broader functional associations, but the clearest signal is mitochondrial import/membrane regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070940","count":2},{"id":"GO:0046902","count":2},{"id":"GO:2000134","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0010867","count":2}]},{"hash":"22221973970549922","title":"Golgi-ER Vesicle Trafficking","description":"These proteins are implicated in COPII-mediated vesicle formation, ER-to-Golgi and Golgi-to-plasma membrane transport, and Golgi localization, pointing to a unified role in Golgi-ER trafficking and protein localization. Some terms touch on cell cycle and polarity, but the dominant signal is trafficking-related functions.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0003400","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0034629","count":4},{"id":"GO:0043001","count":4},{"id":"GO:1902953","count":4}]},{"hash":"1015599427161484973","title":"COPII/Golgi Vesicle Trafficking Regulation","description":"The top GO terms cluster around COPII vesicle coating regulation, ER-to-Golgi and Golgi-to-plasma membrane transport, and general protein localization, all pointing to the early secretory pathway and vesicle trafficking. Additional terms about GTPase activity regulation support involvement of Rab/ARF-type regulators in this trafficking. Some terms related to GPCR signaling and light perception may reflect membrane-related signaling contexts, but the core theme is regulated vesicle transport through the Golgi and secretory pathway.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0003400","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0034629","count":4},{"id":"GO:0007213","count":4},{"id":"GO:0001302","count":4}]},{"hash":"790054810607381782","title":"Immune signaling and thymocyte development","description":"The top GO terms point strongly to immune system functions: immune response, IL-12 production, immunological synapse formation, and DN2 thymocyte differentiation (early T cell development). While a couple of terms touch on circadian rhythm or behavior, the dominant themes are immune signaling and T cell differentiation, suggesting the proteins function together in immune coordination and thymic development.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":4},{"id":"GO:1902239","count":4},{"id":"GO:0006955","count":4},{"id":"GO:1904155","count":4},{"id":"GO:0007625","count":4}]},{"hash":"653219458522489972","title":"Unknown","description":"The GO terms are diverse, including organ development (thymus, placenta, trachea), stress response to cadmium, telomere maintenance, and epigenetic regulation. There isn\u2019t a single cohesive function linking all four proteins, making a meaningful label ambiguous.","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071276","count":4},{"id":"GO:0048538","count":4},{"id":"GO:0000187","count":4},{"id":"GO:0001890","count":4},{"id":"GO:0032212","count":3}]},{"hash":"497050206077170449","title":"Unknown","description":"The Top Terms are highly diverse, including defense response, skin development, rRNA processing, chromatin organization, DNA repair, cytoskeletal regulation, hormone response, metal stress, aging, and cell division. With no connecting functions or interactions (edges 0) among the proteins, there isn\u2019t a single coherent theme to name the cluster. Therefore, Unknown with no confidence. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0000447","count":2},{"id":"GO:0031497","count":2},{"id":"GO:0000724","count":2}]},{"hash":"1543759732712728520","title":"Neuronal axon guidance and synaptic plasticity signaling","description":"The cluster\u2019s GO terms cluster around neuronal connectivity and signaling, including dendrite self-avoidance, axon fasciculation, chemorepulsion in interneuron migration, RTK signaling with peptidyl-tyrosine autophosphorylation, and positive regulation of long-term synaptic plasticity. This points to a module involved in axon pathfinding and activity-dependent synaptic modulation, with a few terms like photoreceptor differentiation being less central. Overall, the core theme is neuronal connectivity and signaling.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070593","count":3},{"id":"GO:0048170","count":3},{"id":"GO:0097155","count":3},{"id":"GO:0036060","count":3},{"id":"GO:1902948","count":3}]},{"hash":"783411809484871819","title":"Growth signaling and cytoskeletal remodeling","description":"The top GO terms cluster around signaling regulation (positive regulation of GTPase activity, ERK cascade, TORC1 signaling) and cytoskeletal processes (stress fiber assembly), plus cell-cycle control and ubiquitination/phosphorylation. Together these suggest a module coordinating growth signaling with cytoskeletal dynamics and division, despite a few sensory-related terms that are less central to the core theme. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0016567","count":2},{"id":"GO:0043149","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0070374","count":2}]},{"hash":"370941395042471074","title":"Neuronal development and axon guidance","description":"The top GO terms point to neuronal growth and connectivity processes: dendrite self-avoidance, axon fasciculation and chemorepulsion of migrating neurons, Slit-related guidance, and differentiation of photoreceptor cells, along with receptor tyrosine kinase signaling and autophosphorylation. Together these indicate a function focused on establishing neural circuits and modulating neuronal signaling during development. ","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070593","count":3},{"id":"GO:0048170","count":3},{"id":"GO:0097155","count":3},{"id":"GO:0036060","count":3},{"id":"GO:1902948","count":3}]},{"hash":"2252224685358534455","title":"Unknown","description":"The GO terms span very diverse processes (hormone responses, skin/testis/embryo development, vascular remodeling, digestion) with no clear, shared function linking these four proteins. A cohesive, specific label cannot be confidently assigned.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045987","count":1},{"id":"GO:0001696","count":1},{"id":"GO:0009648","count":1},{"id":"GO:0032355","count":1},{"id":"GO:0060009","count":1}]},{"hash":"829604165043545777","title":"Immune activation and cytokine signaling","description":"Most terms in this cluster map to immune system functions: regulation and production of cytokines (interleukin-2, chemokines), NK cell cytotoxicity, complement activation, lipoteichoic acid detection, and negative regulation of TLR signaling via MyD88. These suggest a theme of immune activation and inflammatory signaling. A couple of terms relate to cardiac electrophysiology, which could reflect incidental annotations or pleiotropy and do not define the cluster's core function.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900042","count":1},{"id":"GO:0086014","count":1},{"id":"GO:0042271","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0006958","count":1}]},{"hash":"1986861781129907517","title":"Membrane transport and ion homeostasis","description":"The top GO terms collectively point to membrane-associated transport and ion regulation (zinc and monoatomic cation transmembrane transport, maintenance of electrochemical gradients, phospholipid translocation, and calcium ion homeostasis) with endocytosis also highlighted. A few outliers (folic acid biosynthesis and some development terms) exist, but the common thread is membrane transport and ion homeostasis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046656","count":2},{"id":"GO:0002329","count":1},{"id":"GO:0021650","count":1},{"id":"GO:0061092","count":1},{"id":"GO:0071577","count":1}]},{"hash":"1554349321688779549","title":"Meiosis-Related Chromatin and DNA Repair","description":"The top GO terms cluster around meiotic cell cycle, transcription regulation in meiosis, and chromosome/chromatin regulation (e.g., meiotic cell cycle, negative regulation of chromatin binding, negative regulation of mitotic chromosome condensation) along with positive regulation of double-strand break repair via nonhomologous end joining, suggesting a shared theme of meiosis-associated chromatin remodeling and genome maintenance. Some terms (lipid A biosynthesis, brassinosteroid signaling, dendrite morphogenesis) appear unrelated and likely reflect broader or mixed annotations, but the core signals point to meiotic regulation and chromatin/DNA repair processes.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035562","count":4},{"id":"GO:2001241","count":4},{"id":"GO:0051321","count":4},{"id":"GO:0051037","count":4},{"id":"GO:0009245","count":4}]},{"hash":"572250667770090319","title":"Synaptic signaling and axon growth","description":"This cluster is dominated by GO terms tied to neuronal communication (excitatory postsynaptic potentials, calcium-dependent exocytosis) and structural/neural development processes (regulation of focal adhesion, axon extension), with a note of ER-related quality control (reticulophagy). Together these suggest a theme around synaptic function and neurite outgrowth, with supporting cytoskeletal and signaling regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061709","count":3},{"id":"GO:0051893","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0034260","count":3},{"id":"GO:0000186","count":3}]},{"hash":"1813601557483704607","title":"Developmental Trafficking and Morphogenesis","description":"This cluster centers on intracellular transport and organelle assembly processes (ER-Golgi trafficking, nuclear pore assembly) that support broader developmental and morphogenetic events, including wing imaginal disc development, neuron remodeling, and synaptic target recognition. The broad mix suggests a theme of cellular logistics enabling development and neural connectivity, rather than a single narrow function.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0051292","count":2},{"id":"GO:0019886","count":2},{"id":"GO:0035220","count":2},{"id":"GO:1904801","count":2}]},{"hash":"1394402306547336690","title":"Calcium signaling and membrane ion transport","description":"These proteins appear linked to ion transport across membranes and calcium homeostasis, with GO terms covering calcium ion homeostasis, transmembrane cation transport (including zinc and other ions), maintenance of electrochemical gradients, membrane repolarization, and even regulation of fast-twitch muscle contraction. The combination suggests a cluster focused on ionic balance and calcium-dependent muscle function.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071577","count":3},{"id":"GO:1900082","count":3},{"id":"GO:0010248","count":3},{"id":"GO:0097755","count":3},{"id":"GO:0006874","count":3}]},{"hash":"1805872744530638678","title":"Developmental and stress response processes","description":"Top GO terms indicate broad developmental roles (multicellular organism development, forebrain development, neural tube closure, skeletal system development) plus tissue-specific growth and immune-related responses (defense response to Gram-positive bacterium) and stress-related cellular processes (cellular response to cadmium ion, mitotic cell cycle, DNA damage checkpoint signaling). This pattern suggests a cluster tied to development with accompanying cell cycle regulation and stress response signaling, rather than a single narrow function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071276","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0001843","count":4}]},{"hash":"1881633204163674261","title":"Ubiquitin-Proteostasis and NF-kappaB Signaling","description":"The cluster shows strong signals for ubiquitin-dependent ERAD and protein polyubiquitination, along with positive regulation of canonical NF-kappaB signaling, suggesting a theme around ubiquitin-mediated protein quality control and NF-kB\u2013related signaling. Other terms (chromatin organization, DNA repair, growth hormone response, etc.) are less central to the cluster\u2019s core theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0097039","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0000447","count":1},{"id":"GO:0031497","count":1}]},{"hash":"1429100665439064879","title":"Cdc42-Driven Cytoskeleton and Mitosis Trafficking","description":"Top GO terms indicate a cluster centered on Cdc42 signaling affecting actin dynamics, mitotic spindle and cell cycle progression, and vesicle trafficking pathways (COPII and Golgi-ER transport). This suggests a coherent function in coordinating cytoskeletal remodeling with cell division and membrane trafficking, with some auxiliary growth-regulation signals. ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032488","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0010592","count":2},{"id":"GO:0090307","count":2}]},{"hash":"2187640290372560689","title":"Circadian-Regulated Innate Antiviral Immunity","description":"The top GO terms cluster around circadian rhythm regulation and innate antiviral defense (innate immune response, defense against virus, MyD88-independent TLR signaling) and include ubiquitin-dependent proteolysis, suggesting a function in how circadian timing modulates antiviral innate immunity; a few terms (otolith morphogenesis, grooming) are likely peripheral annotations.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042752","count":2},{"id":"GO:1903215","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0042787","count":2}]},{"hash":"908112987228295889","title":"Unknown","description":"The assigned GO terms span metabolism (glucose stimulus, lipid catabolic regulation), immune signaling (T cell activation, T cell costimulation, cytokine regulation), and plant/other processes (root hair development, neuronal projection, glycosylation), with no clear shared function tying the four proteins together. There are no edges or interactions to support a cohesive cluster, so there isn\u2019t a reliable, specific function to name beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071333","count":3},{"id":"GO:0050994","count":3},{"id":"GO:2001190","count":3},{"id":"GO:0031295","count":3},{"id":"GO:0080147","count":3}]},{"hash":"1569920343206749834","title":"Neural development and signaling","description":"The top GO terms are dominated by nervous system and brain development, plus signaling processes (positive regulation of GTPase activity and peptidyl-tyrosine phosphorylation), indicating involvement in neural development and related signaling pathways, despite some general developmental/transport terms.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0050731","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0051301","count":2}]},{"hash":"207222952116666405","title":"Multi-tissue differentiation programs","description":"The GO terms show differentiation and development across multiple tissues (heart, fat cells, pneumocytes, enamel, keratinocytes) with related signaling pathways, indicating a general role in tissue differentiation rather than a single specific pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0032765","count":1},{"id":"GO:0030520","count":1},{"id":"GO:0060509","count":1}]},{"hash":"1190397516740183283","title":"Lipid biosynthesis and membrane maintenance","description":"The cluster\u2019s GO terms cluster around lipid metabolism and membrane components: unsaturated fatty acid biosynthesis, ergosterol (membrane sterol) biosynthesis, and glycosphingolipid (MIPC) metabolism, complemented by tissue-context terms like sebaceous gland differentiation and CNS myelin maintenance that are rich in lipid membranes. The presence of these lipid-related terms suggests a cohesive theme around lipid biosynthesis and membrane integrity, even though a few terms are more peripheral. Confidence: Medium","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006809","count":3},{"id":"GO:0001949","count":3},{"id":"GO:0032286","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0032443","count":3}]},{"hash":"221690479127241929","title":"Unknown","description":"The GO terms are highly heterogeneous, covering signaling cascades (MAPK, Wnt), phosphorylation/dephosphorylation, nuclear export, development (meristem), stress response (paraquat), cell cycle regulation, vacuole fusion, and germ-line masculinization. There is no single cohesive function or pathway tying these proteins together, so a specific, representative label cannot be assigned.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000173","count":1},{"id":"GO:0030177","count":1},{"id":"GO:0035970","count":1},{"id":"GO:0010991","count":1},{"id":"GO:0010074","count":1}]},{"hash":"1681274148876572719","title":"Cardiac development and cytoskeletal adhesion signaling","description":"Based on GO terms, the cluster is enriched for heart-related processes (heart development, adrenergic signaling in heart) and cytoskeleton/adhesion dynamics (focal adhesion, stress fiber assembly, substrate adhesion-dependent spreading), suggesting proteins linked to cardiac development and cell-adhesion\u2013mediated signaling. Some terms (apoptosis, B cell homeostasis, sensory perception of sound) are less consistent, likely annotation noise or broader shared modules.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097194","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0001782","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0051894","count":2}]},{"hash":"1580782655948917976","title":"Embryonic Organ Morphogenesis","description":"The top GO terms cluster around morphogenesis and development across multiple embryonic organs (inner ear, metanephros/kidney, lung, digestive tract, salivary gland) and neuronal fate, with supportive signaling regulation terms. This points to a broad theme of organogenesis rather than a single pathway, justifying a label focused on embryonic organ morphogenesis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":3},{"id":"GO:0060113","count":2},{"id":"GO:0045542","count":2},{"id":"GO:0001656","count":2},{"id":"GO:0048557","count":2}]},{"hash":"179216517264011215","title":"Arp2/3-driven actin nucleation and remodeling","description":"The top GO terms highlight Arp2/3-mediated actin nucleation and related cytoskeletal processes such as mitotic contractile ring assembly, endocytosis regulation, and skeletal muscle fiber dynamics. Despite a couple of obsolete terms, the recurring theme is actin cytoskeleton remodeling, which ties the proteins together.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043486","count":4},{"id":"GO:0001300","count":4},{"id":"GO:0016344","count":4},{"id":"GO:0034314","count":4},{"id":"GO:0048741","count":4}]},{"hash":"227318920204933048","title":"Dendritic cell activation and apoptosis regulation","description":"These proteins show strong ties to dendritic cell\u2013mediated immune activation (dendritic cell activation, T cell differentiation/proliferation, macropinocytosis) and concurrent control of apoptosis (execution phase, regulation of cytochrome c release, non-canonical NF-\u03baB signaling). The combination suggests a cohesive theme of antigen uptake/processing and T cell priming with mechanisms to modulate cell survival during immune responses.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0097194","count":3},{"id":"GO:0002277","count":3},{"id":"GO:0090201","count":3},{"id":"GO:1901224","count":3},{"id":"GO:0007568","count":3}]},{"hash":"807428686465711645","title":"Unknown","description":"The top GO terms span several unrelated developmental contexts (gland, trachea cartilage, male gonad, pneumocyte differentiation) and broad transcriptional regulation, plus scattered immune signaling terms. With no functional cohesion and no edges connecting proteins, there\u2019s no single, representative theme to name the cluster beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070384","count":3},{"id":"GO:0060534","count":3},{"id":"GO:0017055","count":3},{"id":"GO:2000020","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1709698065182785913","title":"Unknown","description":"The GO terms span detox-related responses (xenobiotic and herbicide), various metabolic processes (D-alanine catabolism, tetrahydrofolate metabolism, dopamine metabolism), tRNA modification, and histone methylation regulation, with no single dominant function. The small cluster size and presence of obsolete terms make it hard to infer a cohesive biological role, so a confident, specific label isn\u2019t supported.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0009635","count":1},{"id":"GO:0055130","count":1},{"id":"GO:0045793","count":1},{"id":"GO:0002097","count":1}]},{"hash":"1329670417648063099","title":"Bacterial Fatty Acid and Acyl-CoA Metabolism","description":"The top GO terms cluster around fatty acid biosynthesis and acyl-CoA metabolism (medium/long-chain fatty acids, palmitic acid biosynthesis, acyl-CoA and fatty-acyl-CoA processes) with regulation of fatty acid biosynthesis and related catabolic steps, pointing to a cohesive theme of lipid metabolism in bacteria. The enterobactin biosynthetic term is an outlier among mostly lipid-related terms, but the central theme remains fatty acid and CoA metabolism. ","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009239","count":1},{"id":"GO:0051792","count":1},{"id":"GO:0006637","count":1},{"id":"GO:0035338","count":1},{"id":"GO:0045717","count":1}]},{"hash":"1157881970811276826","title":"Ubiquitin-dependent ERAD and Endocytosis Regulation","description":"The top terms center on ubiquitin-dependent ER-associated degradation (ERAD) and related protein catabolism, along with negative regulation of clathrin-dependent endocytosis and GPCR internalization, plus signaling and neurotransmitter-related processes. While a spindle pole body duplication term seems out of place, the cluster largely points to regulation of protein quality control and membrane trafficking that influence signaling and neurotransmission.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":4},{"id":"GO:0030474","count":4},{"id":"GO:0097237","count":4},{"id":"GO:1900186","count":4},{"id":"GO:0030433","count":4}]},{"hash":"1884184469234686825","title":"Unknown","description":"The GO terms span diverse processes (translation initiation regulation, DNA replication, karyogamy, protein targeting to membranes, ER stress and apoptotic signaling, morphogenesis), with no single unifying function linking the proteins. This suggests the cluster does not reflect a coherent, shared biological role and may reflect mixed or noisy annotations. ","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:0006260","count":1},{"id":"GO:0000742","count":1},{"id":"GO:0090084","count":1},{"id":"GO:0006616","count":1}]},{"hash":"2047466542261281367","title":"Neurocardiovascular development signaling","description":"The GO terms cluster around neural development (axonogenesis, dendrite morphogenesis regulation, neurotransmitter secretion) and cardiovascular development (angiogenesis, heart development, cardiac muscle contraction), with signaling pathways involving cAMP and calcineurin-NFAT and dephosphorylation. This suggests proteins that coordinate neural and cardiovascular development and related signaling rather than a single narrow process.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":2},{"id":"GO:0051591","count":2},{"id":"GO:0050774","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1242153189784498657","title":"Neuronal development and synaptic signaling","description":"This cluster centers on Cdc42-mediated signaling and cytoskeletal dynamics linked to neurite outgrowth (axonogenesis) and focal adhesion regulation, combined with synaptic signaling processes (excitatory postsynaptic potential, long-term potentiation, calcium-dependent exocytosis). The shared themes indicate neuronal development and synaptic maturation/plasticity; a peripheral angiogenesis term may reflect broader signaling cross-talk.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032488","count":2},{"id":"GO:0051893","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0043065","count":2}]},{"hash":"215124434697368826","title":"Neural and Craniofacial Development","description":"The cluster's GO terms center on neural development and craniofacial morphogenesis: inner ear development, dorsal spinal cord development, olfactory placode formation, neural crest cell migration, forebrain-midbrain boundary formation, telencephalon regionalization, and glial cell differentiation, suggesting a cohesive role in neural patterning and head/face structure formation. A negative regulation of transcription by RNA polymerase II appears as an ancillary process tied to gene expression during differentiation rather than a core function.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0021516","count":3},{"id":"GO:0030910","count":3},{"id":"GO:0060021","count":3}]},{"hash":"2282616849290731990","title":"One-Carbon Metabolism and Nucleotide Biosynthesis","description":"This cluster centers on folate-dependent one-carbon metabolism\u2014supported by terms like folic acid metabolic process, tetrahydrofolate interconversion, dTMP and purine biosynthetic processes, and serine/glycine-related pathways\u2014linking folate cofactor chemistry to nucleotide production and DNA synthesis, with additional related regulatory signals.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051289","count":1},{"id":"GO:0046655","count":1},{"id":"GO:0006231","count":1},{"id":"GO:0009113","count":1},{"id":"GO:1904482","count":1}]},{"hash":"524217225581064153","title":"Muscle regeneration and angiogenesis (PI3K/AKT)","description":"The cluster emphasizes skeletal muscle growth (myoblast proliferation, muscle fiber development, muscle regeneration) and vascular remodeling (endothelial development, vessel migration), linked by positive PI3K/AKT signaling; oxidative stress and protein oxidation terms point to redox adjustments during regeneration, with a minor signal of adipocyte differentiation that may reflect cross-tissue plasticity.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051450","count":1},{"id":"GO:0045444","count":1},{"id":"GO:1902176","count":1},{"id":"GO:0051897","count":1},{"id":"GO:0048741","count":1}]},{"hash":"1655895305153172100","title":"Actin Dynamics and Cell Motility","description":"The cluster\u2019s GO terms are dominated by actin filament regulation (capping, bundling, crosslinking, polymerization/depolymerization) and processes tied to cell movement and development (cell motility, neuron migration, heart development, TGF-beta signaling), pointing to actin cytoskeleton remodeling as the unifying function.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051016","count":2},{"id":"GO:0070358","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0097477","count":2},{"id":"GO:0007258","count":2}]},{"hash":"1192833299831007654","title":"Meiotic Chromatin Remodeling and DNA Repair","description":"The GO terms cluster around chromatin organization and meiotic DNA repair activities, including homologous recombination repair, chiasma assembly, meiotic telomere clustering, and heterochromatin formation at mating-type loci, with ubiquitination and neddylation linked to DNA damage signaling and repair. These points together to a coherent role in meiotic chromatin dynamics coordinating DNA repair and chromosome segregation.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0031497","count":4},{"id":"GO:0000724","count":4},{"id":"GO:0051026","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0045141","count":4}]},{"hash":"1317128846469147374","title":"Neural development and brain regionalization","description":"This cluster's top GO terms center on brain development and regionalization (pituitary development, forebrain-midbrain boundary formation, telencephalon regionalization, glial differentiation, and peripheral nervous system axonogenesis), with neural crest migration supporting neural lineage differentiation. A few terms touch broader developmental processes (nephron differentiation, mesenchymal apoptosis), but the strongest signal is neural development, justifying the name.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":3},{"id":"GO:2000768","count":2},{"id":"GO:0021905","count":2},{"id":"GO:0010001","count":2},{"id":"GO:0048936","count":2}]},{"hash":"1127546627016389517","title":"Neuronal Development and Synapse Assembly","description":"The top GO terms cluster around nervous system development, cell\u2013cell adhesion, and synapse assembly (including dopaminergic neuron guidance and integrin signaling), pointing to a common function in neuronal connectivity and synapse formation. Some non-neuronal terms appear, likely reflecting broader pleiotropy or annotation noise, but the dominant pattern supports neural development and synaptic organization.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0007157","count":4}]},{"hash":"2045800857761129989","title":"Neurodevelopment and axon guidance","description":"This cluster focuses on neural development and patterning, with terms like peripheral nervous system neuron development, motor neuron axon guidance, and glial cell differentiation, plus related transcriptional regulation during development (e.g., primitive streak formation and RNA Pol II activity). The common thread is involvement in nervous system formation and neuronal wiring, especially motor neurons, rather than metabolism or signaling pathways. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090009","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0048935","count":4},{"id":"GO:0008045","count":3},{"id":"GO:0007517","count":3}]},{"hash":"385288887137197593","title":"Ubiquitin-mediated immune signaling","description":"The top terms cluster around ubiquitination processes (ubiquitin-dependent protein catabolic process, protein polyubiquitination, K63-linked ubiquitination) and immune signaling (adaptive immune response, RIG-I signaling regulation, NF-kappaB/TNF pathways), suggesting proteins that function together to regulate immune responses via ubiquitin modification. The presence of V(D)J recombination and chiasma assembly hints at broader immune-related roles, though the strongest common theme is ubiquitin-dependent regulation of immune pathways. Given the shared functional signals without evident direct interactions in the edges, a label centered on ubiquitin-mediated immune signaling best represents the group.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0039536","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0070407","count":2}]},{"hash":"1439376469646861293","title":"Nuclear/chromatin dynamics in development","description":"This cluster is most represented by terms tied to nucleus organization and chromatin modification (histone exchange, histone methylation regulation) along with developmental processes (cardiac morphogenesis, vitellogenesis, multicellular growth). While a couple terms mention host/pathogen interactions, the dominant signal points to nuclear/chromatin regulation in development, supporting a cohesive label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003209","count":1},{"id":"GO:0007338","count":1},{"id":"GO:0043486","count":1},{"id":"GO:0039648","count":1},{"id":"GO:1904815","count":1}]},{"hash":"33503207611787438","title":"Neuronal differentiation and axon guidance","description":"The Top Terms include cellular response to retinoic acid, dendrite self-avoidance, axon fasciculation, photoreceptor differentiation, and long-term neuronal synaptic plasticity, which together point to neural development and guidance of neuronal processes. A few terms touch on cytoskeletal organization or non-neuronal contexts (stress fiber assembly, angiogenesis, slit diaphragm), but the dominant theme is neuronal differentiation and axon pathfinding.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":2},{"id":"GO:0070593","count":1},{"id":"GO:0051496","count":1},{"id":"GO:0030316","count":1},{"id":"GO:0002042","count":1}]},{"hash":"935647105113937445","title":"Immune recognition and phagocytosis with antigen presentation","description":"The GO terms point to innate immune processes (phagocytosis, complement activation, innate immune response) and adaptive features (B cell receptor signaling, B cell activation, MHC class II\u2013related antigen processing/presentation), indicating a cohesive cluster of proteins involved in immune recognition, uptake, and antigen presentation to T cells.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":4},{"id":"GO:0050853","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0006911","count":3}]},{"hash":"1990232377418083794","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000389","count":2},{"id":"GO:0000380","count":2},{"id":"GO:0048915","count":1},{"id":"GO:1900194","count":1},{"id":"GO:0071805","count":1}]},{"hash":"675698072338082011","title":"RNA Pol II Transcription Initiation and Promoter Clearance","description":"Based on the top GO terms, the proteins in this cluster are centered on RNA polymerase II promoter initiation and promoter clearance, with related DNA topology changes. The embryonic development term suggests a role in regulatory processes during development, while immune and signaling terms are present but less central, possibly reflecting broader regulatory connections.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006367","count":2},{"id":"GO:0048568","count":2},{"id":"GO:0001111","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0009863","count":1}]},{"hash":"1961853203495392604","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045010","count":3},{"id":"GO:0090140","count":3},{"id":"GO:0030041","count":2},{"id":"GO:0051639","count":2},{"id":"GO:0035320","count":2}]},{"hash":"841278417825999969","title":"Unknown","description":"The GO terms span immune functions (B cell differentiation, B cell receptor signaling, IL-18 response), neural development and function (myelination, neural precursor proliferation, synaptic plasticity), and epithelial-to-mesenchymal transition, with no single cohesive process tying all four proteins together. There isn\u2019t a clear, common theme to assign a precise label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010717","count":1},{"id":"GO:0042795","count":1},{"id":"GO:0002337","count":1},{"id":"GO:0042552","count":1},{"id":"GO:0048172","count":1}]},{"hash":"1581242324952609684","title":"Ribosome biogenesis and RNA processing","description":"The top GO terms are dominated by ribosome biogenesis (GO:0042254) and rRNA processing (GO:0006364), with supporting terms for nuclear pore complex assembly (GO:0051292) and related RNA metabolism. Although there are a few neural morphogenesis terms, they are single entries and do not form a cohesive theme, so the cluster most coherently centers on ribosome-related and RNA-processing processes. This makes the ribosome biogenesis/RNA processing label the best fit for the overall functional theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0006364","count":1},{"id":"GO:2000172","count":1},{"id":"GO:0051292","count":1}]},{"hash":"1734341685735414707","title":"Actin-Dependent Vesicle Transport","description":"This cluster is dominated by GO terms emphasizing actin-cytoskeleton\u2013driven processes: vesicle transport along actin filaments, positive regulation of actin nucleation, membrane addition at cytokinesis, and secretory granule localization. While some terms touch on development or immune signaling, the common theme is actin-mediated vesicle trafficking and secretion.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030050","count":3},{"id":"GO:0007107","count":3},{"id":"GO:0051127","count":3},{"id":"GO:0038096","count":3},{"id":"GO:0046663","count":3}]},{"hash":"1016172512313353787","title":"DNA Damage Response and Cell Cycle Control","description":"The top GO terms cluster around genome integrity maintenance: double-strand break repair via homologous recombination, DNA-templated transcription, G1 DNA damage checkpoint signaling, and mitotic spindle assembly, all pointing to coordination of DNA repair with cell cycle progression. While some terms touch on apoptosis or immune defense, the shared theme is DNA damage response and cell cycle control, supporting a label focused on DDR and cell cycle regulation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000724","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0051402","count":2},{"id":"GO:1902510","count":2}]},{"hash":"52879463870096755","title":"Centrosome and microtubule dynamics","description":"This cluster is highlighted by terms related to centriole elongation and microtubule severing, pointing to centrosome and cytoskeleton regulation. DNA replication and transcription terms align with cell-cycle\u2013related processes, and protein homooligomerization suggests assembly of multiprotein complexes that could operate at centrosomes. A few terms touch on ER-associated degradation and oxidative proteolysis, but the strongest signal centers on centrosome and microtubule remodeling and related cell-cycle functions.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0006351","count":2},{"id":"GO:1903724","count":2},{"id":"GO:0070407","count":2}]},{"hash":"1652411143316418889","title":"Mitochondrial RNA methylation and transcription","description":"The top GO terms point strongly to RNA modification (rRNA and tRNA methylation) and mitochondrial transcription (initiation at mitochondrial promoter and regulation), plus maturation of mitochondrial rRNA\u2014together aligning on mitochondrial RNA processing and gene expression. Some terms about cytoskeletal remodeling or osteoblast fate appear incidental and do not define the primary theme. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":1},{"id":"GO:0006479","count":1},{"id":"GO:0006391","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0030488","count":1}]},{"hash":"220374726259515189","title":"Oocyte Maturation and Ovulation","description":"The cluster is driven by GO terms centered on oocyte biology, notably ovulation and oocyte maturation, indicating a reproductive/gametogenesis theme. Other terms point to broad developmental or epigenetic processes that are less cohesive with the core reproductive signal, and the lack of molecular interactions (no edges) suggests only a modest overall functional cohesion. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030728","count":2},{"id":"GO:0044030","count":1},{"id":"GO:0043984","count":1},{"id":"GO:1902459","count":1},{"id":"GO:0035622","count":1}]},{"hash":"706357041327239163","title":"Membrane transport and ion regulation","description":"This cluster shows a common theme of membrane transport and ion homeostasis, with GO terms for chloride, bicarbonate, fructose, and oxalate transport, as well as regulation of membrane potential and intracellular pH. Some terms (like gastric acid secretion or sensory perception) are more divergent and may reflect annotation noise, but the prevailing signal points to transport processes across membranes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":1},{"id":"GO:0007605","count":1},{"id":"GO:0042391","count":1},{"id":"GO:1902476","count":1},{"id":"GO:0015755","count":1}]},{"hash":"1177935729520975782","title":"Ubiquitin-dependent proteolysis (ERAD)","description":"This cluster\u2019s most frequent GO terms point to ubiquitin-mediated protein degradation, including the ubiquitin-dependent protein catabolic process and the ER-associated degradation (ERAD) pathway, suggesting a proteostasis-focused group. A few outliers (lead ion response, snoRNP assembly, histone dephosphorylation) and obsolete terms are present, but the dominant signal is ubiquitin-dependent proteolysis and ERAD.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:2000324","count":3},{"id":"GO:0030579","count":2},{"id":"GO:1903071","count":2},{"id":"GO:0010288","count":2}]},{"hash":"1924005112496175188","title":"Developmental differentiation and morphogenesis","description":"The top GO terms point to multiple differentiation processes (stem cell, TH1, placental, and cortical layer formation) and morphogenetic events, plus regulation of signaling and protein turnover, indicating a broad developmental/differentiation program rather than a single function.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032436","count":3},{"id":"GO:0048863","count":2},{"id":"GO:0042518","count":2},{"id":"GO:0045627","count":2},{"id":"GO:0060708","count":2}]},{"hash":"129688830018739522","title":"Protein quality control and trafficking","description":"Based on the top GO terms, the cluster centers on handling and transporting proteins across cellular compartments\u2014misfolded protein response, ER/Golgi retention, vesicle formation, and even mitochondrial inner membrane insertion and ribosome assembly\u2014suggesting a theme of protein quality control and intracellular trafficking. The connection is plausible but not uniformly cohesive across all terms, so confidence is Medium.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070407","count":4},{"id":"GO:0032979","count":4},{"id":"GO:0000027","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0070676","count":4}]},{"hash":"1699424853697457787","title":"Ubiquitination and Autophagy Regulation","description":"The GO terms show a clear focus on protein ubiquitination (including autoubiquitination) and regulation of proteasomal degradation, alongside autophagy-related processes (autophagosome maturation, mitophagy). This suggests a theme centered on cellular proteostasis and degradation pathways. Some plant- and development-associated terms appear as outliers, but the core signal supports ubiquitin-mediated turnover and autophagy control.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0016567","count":2},{"id":"GO:1903415","count":1},{"id":"GO:1901098","count":1}]},{"hash":"1595994691610114375","title":"Sulfur metabolism and redox/cofactor biosynthesis","description":"The top terms cluster around transsulfuration, cysteine-related pathways, redox homeostasis, and cofactor biosynthesis (molybdopterin) as well as sulfur-related tRNA modification and protein urmylation. While there are a few divergent terms, the core theme is sulfur metabolism and redox regulation, suggesting a cohesive functional group.","confidence":"Medium","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019346","count":4},{"id":"GO:0035335","count":3},{"id":"GO:2000220","count":3},{"id":"GO:0030855","count":3},{"id":"GO:0021510","count":3}]},{"hash":"1893594433134190176","title":"Developmental gene regulation and RNA processing","description":"GO terms indicate embryonic development across multiple tissues (roof of mouth, mesoderm, endocardial cushion, pancreas, placenta, endocrine system) along with core gene expression processes (RNA polymerase II transcription and mRNA splicing), suggesting these proteins regulate development through transcription and RNA processing.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0006366","count":3},{"id":"GO:0032298","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0000398","count":3}]},{"hash":"2138333816724261604","title":"Mitochondrial outer membrane translocase assembly","description":"This cluster is anchored by GO terms related to the mitochondrial outer membrane and its protein import machinery, notably outer mitochondrial membrane organization and translocase complex assembly, suggesting involvement in TOM complex assembly and outer-membrane import processes. The presence of several unrelated catabolic and phosphorylation terms appears ancillary, but the mitochondrial assembly terms provide the core theme.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":2},{"id":"GO:0006626","count":1},{"id":"GO:0007008","count":1},{"id":"GO:0070096","count":1},{"id":"GO:0016310","count":1}]},{"hash":"1821827184079054614","title":"Unknown","description":"The top terms cover both neural processes (dopaminergic synaptic transmission, learning) and cardiovascular development and function (cardiac septum/ventricle morphogenesis, aorta morphogenesis, blood coagulation, fibrinolysis, PDGF production) plus signaling and junction components. There isn't a single cohesive function linking these diverse processes, so a unified label is not confidently defined.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032227","count":4},{"id":"GO:0060411","count":4},{"id":"GO:0007213","count":4},{"id":"GO:0051919","count":4},{"id":"GO:1903849","count":4}]},{"hash":"594576979040679045","title":"Mast cell activation and inflammatory chemokine signaling","description":"The terms point to mast cell degranulation, chemokine production, and monocyte chemotaxis, indicating inflammatory signaling; accompanying GO terms for plasma membrane localization and positive regulation of focal adhesion and stress fiber assembly suggest concurrent cytoskeletal remodeling and focal adhesion dynamics involved in immune cell migration.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903999","count":1},{"id":"GO:0090361","count":1},{"id":"GO:0032602","count":1},{"id":"GO:0043303","count":1},{"id":"GO:0090026","count":1}]},{"hash":"106129106545401408","title":"Unknown","description":"The proteins span diverse processes\u2014from cell-cycle and chromosomal regulation (CDK activity, cohesion, kinetochore localization, CpG island methylation) to telomere maintenance and various developmental/adaptation terms (trachea formation, budding growth, melanocyte adhesion). There isn\u2019t a clear, shared function linking these terms, so a precise, cohesive label isn\u2019t supported.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045736","count":4},{"id":"GO:0034501","count":4},{"id":"GO:0032212","count":3},{"id":"GO:0010568","count":3},{"id":"GO:0097326","count":3}]},{"hash":"325389735864237149","title":"Unknown","description":"The top GO terms cover muscle development, immune signaling, telomere maintenance, plant bud growth, melanocyte adhesion, trachea formation, cadmium response, and CpG island methylation\u2014diverse functions with no single unifying theme. Because there is no coherent shared process linking the proteins, a meaningful specific label cannot be assigned.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":3},{"id":"GO:0032092","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0032212","count":2}]},{"hash":"773759270488701995","title":"Hair cycle and keratinization proteins","description":"Two GO terms dominate: hair cycle and keratinization, suggesting these four proteins function together in hair follicle biology and epidermal keratin formation (keratinocyte differentiation and hair shaft formation).","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":4},{"id":"GO:0031424","count":4}]},{"hash":"491931897923866163","title":"Cardiorenal development and ion homeostasis","description":"The terms show a bias toward organ development (kidney and heart) and physiological processes like bicarbonate transport and chloride homeostasis, with hormonal signaling (angiotensin, estrogen) and secretion as well. A few terms are less related (osteoclast differentiation), but the dominant theme fits cardiorenal development and homeostasis.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0032849","count":1},{"id":"GO:0015701","count":1},{"id":"GO:0055064","count":1}]},{"hash":"518290728961497368","title":"Glial cell migration and proliferation","description":"Although each term is single-count, the presence of GO:0008347 glial cell migration and GO:0060252 positive regulation of glial cell proliferation strongly points to a glial cell\u2013driven function. The other terms are diverse and could reflect ancillary signaling or stress responses but do not redefine the primary theme. Therefore the cluster is best labeled as Glial cell migration and proliferation.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060242","count":1},{"id":"GO:0032570","count":1},{"id":"GO:1903147","count":1},{"id":"GO:0008347","count":1},{"id":"GO:0010266","count":1}]},{"hash":"1651307937096858870","title":"Unknown","description":"The GO terms span mitochondria-related processes (assembly of respiratory chain complex IV and mitochondrial translation) alongside innate immune signaling (TLR4 pathway, defense against Gram-negative bacteria, chemokine production) and other diverse processes (sperm motility, vitamin E biosynthesis, triglyceride homeostasis). There isn\u2019t a single coherent function uniting all four proteins, so there isn\u2019t a clear label beyond Unknown.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0070131","count":1},{"id":"GO:0034145","count":1},{"id":"GO:0030317","count":1},{"id":"GO:0010189","count":1}]},{"hash":"726246747069705636","title":"Immune signaling and circadian regulation","description":"Rationale: The top GO terms are dominated by immune-related processes (immune response, interleukin-12 production, immunological synapse formation, thymocyte differentiation), suggesting a cluster of proteins involved in immune signaling and lymphocyte development. A subset of terms also touches on GPCR signaling modulation and circadian sleep/wake regulation, hinting at a broader context where immune function intersects with circadian biology. Overall, the cluster appears to reflect immune system activity with an ancillary circadian component rather than a single tightly focused pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035625","count":2},{"id":"GO:1902239","count":2},{"id":"GO:0006955","count":2},{"id":"GO:1904155","count":2},{"id":"GO:0007625","count":2}]},{"hash":"1156785089833918633","title":"Ubiquitin-Proteasome-Mediated Degradation","description":"The GO terms highlight ubiquitin-dependent protein catabolic processes, including SCF-dependent and K11-linked ubiquitination, implying proteasome-driven turnover. The presence of mitotic cell cycle and proliferation terms suggests this degradation controls cell-cycle progression; DNA repair terms reflect regulation of genome maintenance via degradation. Together, these proteins most likely function in the ubiquitin-proteasome system coordinating cell cycle and genome stability.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0031915","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0070979","count":3}]},{"hash":"256164055613450499","title":"Unknown","description":"The top GO terms show disparate processes (chromatin regulation and meiosis, apoptotic signaling, lipid A biosynthesis, brassinosteroid signaling, dendrite morphogenesis, glycogen catabolism). With only three proteins and no clear shared function, I can't infer a coherent label.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035562","count":3},{"id":"GO:2001241","count":3},{"id":"GO:0051321","count":3},{"id":"GO:0051037","count":3},{"id":"GO:0009245","count":3}]},{"hash":"1626917828674254710","title":"Neuronal axon guidance and synaptic signaling","description":"The terms cluster around neuronal development and connectivity, including axon fasciculation, dendrite self-avoidance, photoreceptor differentiation, Slit-mediated guidance, and RTK signaling with autophosphorylation, plus regulation of synaptic plasticity. This suggests proteins involved in wiring neural circuits and modulating synaptic activity.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070593","count":1},{"id":"GO:0048170","count":1},{"id":"GO:0097155","count":1},{"id":"GO:0036060","count":1},{"id":"GO:1902948","count":1}]},{"hash":"125884270272924480","title":"Histone deacetylation and chromatin silencing","description":"The GO terms cluster around deacetylation and chromatin-related processes (histone modification, chromatin silencing, telomere maintenance, and replicative aging), suggesting a shared role in epigenetic regulation and genome stability rather than signaling pathways.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070846","count":3},{"id":"GO:0048742","count":3},{"id":"GO:0034503","count":3},{"id":"GO:0010978","count":3},{"id":"GO:0009861","count":3}]},{"hash":"1815984617793364962","title":"Embryonic and Organ Development","description":"The terms are dominated by development and morphogenesis across multiple tissues (placenta, heart, eye, hindlimb, habenula, prostate), pointing to a broad developmental/morphogenetic program rather than a single pathway. Some terms touch on metabolism or immune regulation, but the shared theme is tissue formation and organogenesis, justifying a general developmental label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001890","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0060527","count":2},{"id":"GO:2000288","count":2},{"id":"GO:0046321","count":2}]},{"hash":"429219814960638878","title":"Unknown","description":"The top GO terms span diverse, seemingly unrelated processes (flagellum assembly, ATP synthesis, proteasome granule assembly, mitochondrial targeting, amino acid homeostasis, differentiation, transcription termination, endothelial migration), and there are no shared functions or interactions tying them together. Hence, a coherent, specific label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044780","count":2},{"id":"GO:0042777","count":2},{"id":"GO:1902906","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0090465","count":2}]},{"hash":"1574547870040539367","title":"Retinal Visual Signaling and Opsin Regulation","description":"Dominant GO terms are visual perception and regulation of opsin signaling, pointing to retinal photoreceptor signaling; additional terms reflect calcium signaling and phosphorylation/GTPase activity that can accompany signaling in retina, while the heart-related terms may reflect broader annotation or pleiotropy.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0022400","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0051281","count":2}]},{"hash":"315115847455695736","title":"Membrane Ion Transport and Endocytosis","description":"The proteins in this cluster show a recurring theme of membrane-associated transport and trafficking: transmembrane transport of metal ions (copper, zinc, monoatomic cations) and polyamines, along with endocytosis and maintenance of electrochemical gradients. While a couple of GO terms refer to development (pre-B cell differentiation, vestibulocochlear nerve formation) which may be noisy annotations, the dominant signals point to membrane transport processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002329","count":2},{"id":"GO:0021650","count":2},{"id":"GO:0060003","count":2},{"id":"GO:0061092","count":2},{"id":"GO:0071577","count":2}]},{"hash":"2177835283325642289","title":"Meiosis and Mitotic Cycle Regulation","description":"This cluster centers on cell division and its control, with multiple GO terms about meiosis I, mitotic cell cycle transitions, and overall cell cycle and division. Several terms point to regulation and activation of protein kinases (including CDK activity), underscoring tight control of meiotic and mitotic progression. The histoblast morphogenesis term appears peripheral. Overall, the functions cohere around coordinated regulation of meiosis and mitosis.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0060303","count":1},{"id":"GO:0044772","count":1},{"id":"GO:0007127","count":1},{"id":"GO:0045737","count":1}]},{"hash":"1641600200758520212","title":"Ubiquitin-Dependent Proteolysis and Neuronal Stress Response","description":"The top GO terms point strongly to ubiquitin-mediated protein degradation (ubiquitin-dependent proteolysis, ERAD, regulation of ubiquitination, polyubiquitination) and neuronal stress/differentiation contexts (synapse assembly, neuronal apoptotic signaling under oxidative stress, responses to metals). While some developmental terms appear, the central theme is ubiquitin-regulated proteolysis linked to neuronal stress responses, justifying a focused label that captures the core function of the cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0001556","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0021678","count":2},{"id":"GO:0071276","count":2}]},{"hash":"600619394171498179","title":"Developmental transcription regulators","description":"This cluster is characterized by GO terms tied to development (neural tube closure, forebrain development, skeletal system development, multicellular organism development) and DNA-templated transcription, suggesting the proteins primarily function in regulating gene expression during development. Although some stress-related terms appear, the dominant theme seems to be developmental transcriptional control, possibly with links to cell cycle aspects.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071276","count":3},{"id":"GO:0006349","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0001843","count":3}]},{"hash":"2155428957201203778","title":"Nucleotide Biosynthesis and Salvage","description":"The top GO terms are strongly centered on nucleotide production and interconversion (ADP, CDP, ITP biosynthesis; AMP salvage; GTP metabolism; purine ribonucleotide interconversion; nucleoside monophosphate phosphorylation), pointing to a core role in supplying and remodeling nucleotides for processes like DNA replication. A couple of developmental terms appear but do not define the cluster\u2019s main function. Overall, the cluster seems best characterized by nucleotide metabolism and salvage.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006172","count":3},{"id":"GO:0046705","count":3},{"id":"GO:0046041","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0001889","count":3}]},{"hash":"2066197583504519138","title":"Fe-S cluster assembly and cell cycle regulation","description":"This cluster centers on iron-sulfur cluster assembly (GO:0016226, GO:0097428) and related maturation, with supporting signals from translation (GO:0006412) and cell-cycle regulation terms (GO:0071158, GO:0071157), plus proteostasis/regulation of ubiquitin pathways. The combination suggests a theme around Fe-S biogenesis intertwined with cell cycle control and protein stability mechanisms. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0097428","count":1},{"id":"GO:0016226","count":1},{"id":"GO:0071158","count":1},{"id":"GO:0032986","count":1}]},{"hash":"550498341640016325","title":"Cytoskeletal remodeling and cell migration","description":"The GO terms cluster around actin dynamics and movement-related processes, including ruffle assembly, stress fiber formation, cell spreading and adhesion, and morphogenesis activities like sprouting angiogenesis and trabecula morphogenesis. While there are also terms tied to development and vesicle trafficking, the dominant pattern points to cytoskeletal remodeling driving cell migration and shape changes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003334","count":1},{"id":"GO:0007107","count":1},{"id":"GO:0021831","count":1},{"id":"GO:0090385","count":1},{"id":"GO:0051496","count":1}]},{"hash":"1437737004978753622","title":"Mitochondrial Protein Import and Quality Control","description":"This cluster centers on mitochondrial protein handling, with clear terms for importing proteins into the intermembrane space and inserting them into the inner membrane, plus oxidation-dependent catabolic processes and misfolded protein responses. There are also related trafficking terms (Golgi retention, intralumenal vesicle formation) and a cell division mention, suggesting a broader but still mitochondria-focused module that includes quality control and protein processing during cellular activities.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070407","count":3},{"id":"GO:0032979","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0070676","count":3},{"id":"GO:0045053","count":3}]},{"hash":"965211038273685237","title":"Nuclear RNA Processing and mRNA Decay","description":"This cluster centers on RNA metabolism, including splicing machinery (snRNP/spliceosomal assembly), transcription termination, nuclear import, and mRNA turnover via P-body assembly and deadenylation-dependent decapping, suggesting a coordinated role in RNA processing and decay. Some terms reflect broader stress or cell-cycle signaling, but the dominant theme is RNA processing-related complexes.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":3},{"id":"GO:0000387","count":3},{"id":"GO:0006369","count":3},{"id":"GO:0033962","count":3},{"id":"GO:0051170","count":3}]},{"hash":"2230939358512637518","title":"RNA processing, transport, and translation regulation","description":"The cluster centers on post-transcriptional RNA regulation, including miRNA transport, mRNA localization and stabilization, ncRNA-mediated silencing, and assembly of translation initiation components, with related RNA processing activities. This suggests a cohesive theme of RNA maturation, localization, and control of translation, despite some related terms touching broader cellular contexts.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1990428","count":3},{"id":"GO:0034462","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0045451","count":3},{"id":"GO:0048255","count":3}]},{"hash":"34312864850746872","title":"Unknown","description":"The terms are too diverse to define a single cohesive function for this tiny cluster: immune signaling (interleukin-12 pathway, B cell differentiation), lipid biosynthesis and membrane organization (ergosterol and sphingolipid pathways, ER membrane), and various membrane signaling routes (GPCR and acetylcholine receptor signaling) with some generic regulation terms. Because there is no clear unifying theme, a confident, representative label cannot be assigned.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035722","count":3},{"id":"GO:0034351","count":3},{"id":"GO:0032443","count":3},{"id":"GO:0090158","count":3},{"id":"GO:0090153","count":3}]},{"hash":"825299992508361794","title":"Unknown","description":"The GO terms span neural development and synaptic functions (sensory perception of sound, substantia nigra development, regulation of neuronal plasticity) but also include membrane organization and immune-related processes (tight junction assembly, membrane raft polarization, B cell signaling, eisosome assembly). This mix does not reveal a single coherent function or pathway for the cluster, so a concise, specific label cannot be confidently assigned.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090038","count":1},{"id":"GO:0007605","count":1},{"id":"GO:0021762","count":1},{"id":"GO:0070830","count":1},{"id":"GO:0001766","count":1}]},{"hash":"382651497416562897","title":"Neuronal dendritic spine remodeling and synaptic plasticity","description":"The terms cluster around dendritic spine modification, long-term synaptic plasticity, cerebellum morphogenesis, and actin cytoskeleton dynamics (ruffle assembly, barbed-end capping), suggesting a common theme of neuronal synapse formation and remodeling. Some immune-related terms are present but do not dominate the set.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900144","count":3},{"id":"GO:1900042","count":3},{"id":"GO:0006970","count":3},{"id":"GO:1904694","count":3},{"id":"GO:0021587","count":3}]},{"hash":"627417188124512375","title":"Plant RNA splicing and mRNA decay under stress","description":"The top GO terms cluster around spliceosome components (snRNP assembly, spliceosomal complex assembly), transcription termination, and nuclear import, plus P-body assembly and deadenylation-dependent mRNA decay, indicating a module of RNA processing and mRNA turnover. The ABA and water-deprivation responses further point to a plant stress-regulated regulation of RNA maturation and decay. The mix of nuclear RNA-processing and cytoplasmic mRNA decay terms supports a cohesive function in RNA maturation and turnover, even as one term (hair cycle) may be unrelated noise.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":2},{"id":"GO:0000387","count":2},{"id":"GO:0006369","count":2},{"id":"GO:0033962","count":2},{"id":"GO:0051170","count":2}]},{"hash":"305808813048461732","title":"Chromatin remodeling and histone modification","description":"This cluster\u2019s terms are dominated by histone acetylation regulation (H3-K9 and H3-K14) and nucleosome assembly/disassembly, plus related chromatin dynamics (e.g., sperm DNA decondensation). Although a few terms touch on cell division, their common thread is chromatin structure and modification, pointing to chromatin remodeling as the core theme of the cluster.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000617","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0031116","count":1},{"id":"GO:0071442","count":1},{"id":"GO:0006334","count":1}]},{"hash":"1402719088696198298","title":"ERAD and Proteostasis","description":"The top GO terms strongly point to ER-associated degradation and ubiquitin-dependent protein catabolism (even though some are labeled obsolete, they reference ERAD processes). Supporting terms such as cellular response to toxic substance and regulation of calcium transporter activity align with ER stress and calcium homeostasis, suggesting a proteostasis-focused cluster, despite a few outliers related to cell cycle or development. Overall, a proteostasis/ERAD-oriented label fits best.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":3},{"id":"GO:0030474","count":3},{"id":"GO:0097237","count":3},{"id":"GO:1900186","count":3},{"id":"GO:0030578","count":3}]},{"hash":"1070287004192748297","title":"Immune and stress signaling components","description":"The terms cluster around immune signaling pathways (non-canonical NF-kappaB, TNF signaling, T cell receptor signaling) plus proteasome assembly and stress/defense responses (salt and cadmium stress, plant hypersensitive response), suggesting a broad theme of signaling and regulation of immune/stress responses rather than a single focused function.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0038061","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0080129","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0043488","count":2}]},{"hash":"208317545833800490","title":"Unknown","description":"The top GO terms are diverse and include ER-associated ubiquitin-dependent degradation, endocytosis regulation, spindle pole body duplication, and nuclear body organization, without a single, clear shared function linking the proteins. The mix of processes and the presence of obsolete terms suggest no coherent cluster function.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903071","count":3},{"id":"GO:0030474","count":3},{"id":"GO:0097237","count":3},{"id":"GO:1900186","count":3},{"id":"GO:0030578","count":3}]},{"hash":"1419748072846053771","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042769","count":1},{"id":"GO:1904355","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0098506","count":1},{"id":"GO:0000105","count":1}]},{"hash":"677958710228957619","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042797","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0001172","count":1},{"id":"GO:0006385","count":1},{"id":"GO:0006360","count":1}]},{"hash":"894981123845337582","title":"Embryonic organ morphogenesis","description":"The GO terms point to embryonic development and morphogenesis across multiple organs (inner ear, kidney, digestive tract, salivary gland, lung, neurocranium) and neuronal differentiation, suggesting these proteins are involved in broad embryonic morphogenesis programs rather than a single pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060113","count":1},{"id":"GO:0045542","count":1},{"id":"GO:0001656","count":1},{"id":"GO:0048557","count":1},{"id":"GO:0048566","count":1}]},{"hash":"1687073256189105627","title":"Ubiquitination and Immune Signaling Regulation","description":"The cluster centers on ubiquitin-dependent protein modification and degradation (ubiquitination, ERAD) with several immune-related processes (adaptive immune response, TNF signaling, regulation of apoptosis) and lymphocyte-specific events (V(D)J recombination). This suggests a cohesive theme where ubiquitin-mediated turnover intersects with immune signaling and regulation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0030433","count":3},{"id":"GO:1903721","count":2},{"id":"GO:0090073","count":2},{"id":"GO:0033151","count":2}]},{"hash":"900088162434657336","title":"Unknown","description":"The GO terms are heterogeneous, spanning DNA repair, chromatin regulation, meiosis, apoptosis, plant brassinosteroid signaling, lipid A biosynthesis, and neuronal morphogenesis, with no clear shared pathway or function. The lack of cohesive theme and absence of network connections suggest no single representative label can be assigned confidently.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035562","count":2},{"id":"GO:0000727","count":2},{"id":"GO:2001241","count":2},{"id":"GO:0051321","count":2},{"id":"GO:0051037","count":2}]},{"hash":"1977982423079339593","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071211","count":2},{"id":"GO:1905869","count":2},{"id":"GO:1901016","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0032443","count":2}]},{"hash":"353499059236304265","title":"Lipid and small-molecule catabolism","description":"The GO terms cluster around catabolic processes for lipids and related small molecules (e.g., triglycerides, prostaglandins, phospholipids, glucuronosides) and include regulation of endocannabinoid signaling and detoxification, suggesting the proteins are involved in lipid/small-molecule breakdown rather than a single signaling pathway.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019380","count":2},{"id":"GO:2000124","count":1},{"id":"GO:0019433","count":1},{"id":"GO:1905344","count":1},{"id":"GO:0097755","count":1}]},{"hash":"1164038218033801294","title":"RNA Splicing and Ubiquitin Regulation","description":"The top GO terms are dominated by RNA processing (RNA splicing and spliceosome-associated regulation) and ubiquitin-related processes (protein ubiquitination and deubiquitination), pointing to a function centered on post-transcriptional control and protein turnover. Additional terms touching on cell cycle and circadian clock regulation support a broader theme of coordinated gene expression control, while a couple terms (chloroplast mRNA modification, otic vesicle morphogenesis) are less directly connected but may reflect broader regulatory roles. Overall, this cluster likely reflects RNA processing linked with ubiquitin-mediated regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0043066","count":2},{"id":"GO:1900871","count":2},{"id":"GO:0045023","count":2}]},{"hash":"1038855381324492619","title":"Diverse Metabolite Biosynthesis","description":"The top GO terms point to various biosynthetic and catabolic processes for small molecules and metabolites (retinol/retinoid pathways, melanin, mycolic acid, steroids, alkaloids, acetoin) across different organisms, with no shared direct interaction among the proteins. This suggests a broad theme of metabolite biosynthesis rather than a single cohesive pathway, hence a label capturing diversity in biosynthetic capacities. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":2},{"id":"GO:0042438","count":2},{"id":"GO:0002138","count":2},{"id":"GO:0071768","count":2},{"id":"GO:0042574","count":2}]},{"hash":"894015929825797326","title":"Forebrain patterning and neural differentiation","description":"This cluster is dominated by GO terms related to brain development and regionalization, including forebrain boundary formation, telencephalon regionalization, brain segmentation, neural crest cell migration, glial and neuronal differentiation, and axonogenesis, indicating a coherent theme of neural development and brain patterning.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000768","count":2},{"id":"GO:0021905","count":2},{"id":"GO:0010001","count":2},{"id":"GO:0048936","count":2},{"id":"GO:0046013","count":2}]},{"hash":"1559691278297497832","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0055114","count":2},{"id":"GO:1902600","count":1},{"id":"GO:0006740","count":1}]},{"hash":"1390705592602964495","title":"Morphogenesis and neural connectivity","description":"The top GO terms span diverse developmental morphogenesis (valve formation, lung morphogenesis, corticospinal tract formation) and neural guidance/synaptic functions (axon guidance, synapse protein localization), with supporting themes of cell adhesion and integrin signaling, suggesting a broad but coherent focus on developmental morphogenesis with neural connectivity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003192","count":3},{"id":"GO:0033626","count":3},{"id":"GO:0036514","count":3},{"id":"GO:0032533","count":3},{"id":"GO:0060243","count":3}]},{"hash":"226762999262902203","title":"NF-kB Regulation and Ubiquitination in Immunity","description":"The GO terms point to a theme around NF-kB signaling (I-kappaB phosphorylation, TNF-mediated signaling), ubiquitin-dependent processes (ubiquitination and ubiquitin-dependent catabolic process), and immune functions (adaptive immune response, V(D)J recombination, regulation of apoptosis). Together these suggest a cluster of proteins coordinating immune signaling via ubiquitin-mediated regulation of NF-kB and related pathways, with involvement in adaptive immunity and cell fate decisions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903721","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0090073","count":3},{"id":"GO:0033151","count":3},{"id":"GO:0016567","count":3}]},{"hash":"595151275359899300","title":"Unknown","description":"The GO terms are highly diverse, spanning plant secondary metabolism, bacterial cell wall biosynthesis, various catabolic and biosynthetic pathways, and a few unrelated processes, with no clear shared function tying the proteins together.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033303","count":2},{"id":"GO:0006711","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0016999","count":2},{"id":"GO:0051301","count":2}]},{"hash":"225278589296615254","title":"Unknown","description":"The top GO terms cover antibiotic biosynthesis/metabolism, plant secondary metabolism (quercetin glucoside, lignin), carbohydrate metabolism, estrogen catabolic process, peptidoglycan biosynthesis, cell division, and even axon paranode localization, with no clear unifying function or interactions among the proteins. This lack of a cohesive theme makes a specific, informative label unreliable, so Unknown is appropriate.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0033303","count":2},{"id":"GO:0006711","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0016999","count":2}]},{"hash":"1091984728035961900","title":"Unknown","description":"The GO terms are broad and disjointed, including angiogenesis (sprouting and lymphangiogenesis), differentiation and proliferation, axis specification, xenobiotic response, and even plant-specific glucosinolate metabolism. With only three proteins and no edges, there isn\u2019t a single unifying function to label the cluster; thus Unknown is most appropriate.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032466","count":1},{"id":"GO:0048146","count":1},{"id":"GO:0070365","count":1},{"id":"GO:0048255","count":1},{"id":"GO:0071466","count":1}]},{"hash":"142505350215907631","title":"Spliceosome Assembly and RNA Splicing","description":"The highlighted GO terms all center on RNA splicing and assembly of spliceosomal complexes (snRNP/tri-snRNP) and mRNA processing, indicating the cluster represents spliceosome components or splicing factors. Despite the small cluster size, the uniform function suggests a cohesive spliceosome-related role.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008380","count":1},{"id":"GO:0000244","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0000387","count":1}]},{"hash":"1728170064492509205","title":"Neural development and synaptic maturation","description":"The top GO terms cluster around nervous system development and synaptic activity\u2014neural tube closure, synapse maturation, neurotransmitter secretion, and glutamatergic signaling, along with vocalization-related terms. A few outliers (myoblast development, T cell proliferation) exist, but the dominant pattern is neural development and synaptic function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042297","count":2},{"id":"GO:0048627","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0090129","count":2},{"id":"GO:0042130","count":2}]},{"hash":"901732648728731160","title":"Vascular and neural development","description":"This cluster centers on developmental processes that shape blood vessels and the nervous system: angiogenesis and endothelial proliferation, mesodermal differentiation, cell migration in sprouting angiogenesis, axon extension and fasciculation, and related skin development context. While a few outliers exist (e.g., NK cell activation), the dominant GO terms point to coordinated vascular and neural development.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0048333","count":1},{"id":"GO:0002042","count":1},{"id":"GO:0048675","count":1}]},{"hash":"653014432469835469","title":"Mitochondrial dynamics and inheritance","description":"This cluster is named for the strongest, consistent signals pointing to mitochondrial processes: stress-induced mitochondrial fusion, mitochondrion inheritance, and (even though labeled obsolete) mitochondrion morphogenesis. While other terms such as SREBP signaling, IL-2 production, and dopaminergic synaptic transmission appear in the set, the recurring mitochondrial terms suggest a core function centered on mitochondrial morphology and inheritance rather than a single non-mitochondrial pathway.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032933","count":3},{"id":"GO:1903905","count":3},{"id":"GO:0070584","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0032623","count":3}]},{"hash":"2223585809970454628","title":"DNA replication and cell cycle functions","description":"The dominant GO terms point to DNA replication and replication initiation, together with cell division, indicating a core role in genome duplication and cell cycle progression. Supporting terms like recombinational repair and plasmid maintenance suggest genome integrity during replication, while a couple of circadian terms seem ancillary. Overall, the cluster is best described by DNA replication and cell cycle activity.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006270","count":2},{"id":"GO:0006468","count":1},{"id":"GO:0000725","count":1}]},{"hash":"1033680797560287436","title":"Actin dynamics and ER-Golgi trafficking","description":"These proteins show strong enrichment for actin-related processes (barbed-end capping; actin nucleation) and vesicle transport between the ER and Golgi (COPII regulation, intracellular transport), suggesting a role in coordinating cytoskeletal remodeling with the secretory pathway. Some cell-division terms may reflect broader cytoskeletal involvement during mitosis. Overall, the cluster seems to link actin dynamics with vesicular trafficking. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051016","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1193453907209909467","title":"Ribosome and translation machinery with mRNA decay","description":"This cluster is dominated by GO terms tied to ribosome function and protein synthesis, including translation (overall), elongation, and termination, plus more specific items like mitochondrial translation, selenocysteine incorporation, and ribosome disassembly. The presence of a deadenylation-dependent decay term suggests concurrent mRNA turnover linked to translation. A secondary term for response to antibiotic may reflect translation-targeting stress. Overall, the group appears to capture proteins involved in the translation apparatus and its regulation, with associated mRNA decay processes.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0014009","count":1},{"id":"GO:0045901","count":1},{"id":"GO:0070125","count":1}]},{"hash":"2199338496325314372","title":"Organelle Biogenesis and Metabolism","description":"The top GO terms cluster around centrosome/centriole dynamics (centriole elongation, microtubule severing) and organelle maintenance pathways (ER polarization, ubiquitin-dependent ERAD, mitochondrial inner-membrane protein insertion) alongside fundamental metabolic biosynthesis (NAD+, CoA) and ATP production. This points to a shared theme of organizing/maintaining organelles while supporting cellular energy metabolism.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903724","count":2},{"id":"GO:0070407","count":2},{"id":"GO:0061166","count":2},{"id":"GO:1903007","count":2},{"id":"GO:2001171","count":2}]},{"hash":"115788505889384964","title":"T cell and hematopoietic differentiation","description":"This cluster\u2019s top GO terms center on immune cell development and differentiation, especially alpha-beta T cell differentiation, T cell differentiation in thymus, and hematopoietic stem cell proliferation, with related signaling and immunomodulatory responses such as p38 MAPK cascade and glucocorticoid response. These together point to a coherent theme of immune cell lineage commitment and maturation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903955","count":2},{"id":"GO:0046638","count":2},{"id":"GO:0033077","count":2},{"id":"GO:0071425","count":2},{"id":"GO:0030851","count":2}]},{"hash":"298841674566676007","title":"Alternative Splicing Regulation via Spliceosome","description":"These proteins are annotated mainly with splicing-related GO terms (snRNP assembly, RNA processing, regulation of alternative splicing via spliceosome), suggesting the cluster corresponds to RNA splicing regulation by the spliceosome. Minor terms about sensory perception and nervous system development appear incidental.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":2},{"id":"GO:0040022","count":1},{"id":"GO:0007605","count":1},{"id":"GO:0006396","count":1},{"id":"GO:0007399","count":1}]},{"hash":"1572846230568894840","title":"Diverse Substrate Transmembrane Transport","description":"The top GO terms indicate transmembrane transport of a broad range of substrates, including ions (potassium, sodium), inorganic species (nitrite/nitrate), vitamins, sugars, xenobiotics, and even neurotransmitter loading into synaptic vesicles. This suggests a cluster of membrane transport proteins with diverse substrate specificity rather than a single substrate class.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0035461","count":2},{"id":"GO:0015757","count":2}]},{"hash":"1494131591125255820","title":"Regulation of gene expression and RNA processing","description":"The top GO terms point to control of transcription, RNA splicing/processing, and related regulatory layers (including ubiquitination and cell cycle transitions), suggesting a cohesive theme of gene expression regulation at multiple levels. While a few terms are divergent (e.g., chloroplast mRNA modification), the dominant signal is regulatory processes governing how genes are expressed and processed, so a label centered on gene expression regulation is appropriate.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0016567","count":1},{"id":"GO:0000381","count":1},{"id":"GO:0043066","count":1}]},{"hash":"1215563488358615860","title":"Bacterial glycan biosynthesis and cell wall assembly","description":"The top GO terms cluster tightly around biosynthesis and modification of bacterial surface glycans\u2014GDP-mannose, UDP-GlcNAc, LPS/O-antigen biosynthesis, glycogen biosynthesis\u2014as well as cell wall organization. This suggests the proteins participate in glycan production and cell wall assembly processes, with related sugar metabolism supporting those pathways.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009298","count":3},{"id":"GO:0009103","count":3},{"id":"GO:0046115","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0009243","count":3}]},{"hash":"2193849296248529539","title":"Neural signaling and ion transport","description":"The top GO terms are dominated by ion transmembrane transport (potassium, sodium, chloride) and neural communication (synaptic transmission, excitatory postsynaptic potential, transmission of nerve impulse, micturition reflex, optic nerve morphogenesis). This points to a cohesive theme of neuronal signaling and ion channel activity, with one outlier related to hematopoietic differentiation that does not change the overall interpretation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002244","count":1},{"id":"GO:0071805","count":1},{"id":"GO:2001226","count":1},{"id":"GO:0060084","count":1},{"id":"GO:0060013","count":1}]},{"hash":"5416569505970954","title":"Oocyte Polarity and Pole Plasm Localization","description":"The GO terms cluster around oocyte development and localized mRNA, notably oskar and pole plasm localization, and oocyte microtubule polarization, suggesting a role in establishing posterior polarity via pole plasm/mRNA localization. Additional terms about mRNA processing and ribosome biogenesis reinforce a broader RNA- and ribosome-centric cellular context common in oocytes, supporting a cohesive theme of oocyte polarity through localized RNA machinery.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000184","count":1},{"id":"GO:0045451","count":1},{"id":"GO:0008103","count":1},{"id":"GO:0007318","count":1},{"id":"GO:0006397","count":1}]},{"hash":"1841677846707919657","title":"Mitotic spindle and chromosome passenger regulation","description":"The top GO terms cluster around mitosis-related processes: chromosome passenger complex localization to the spindle midzone and mitotic cytokinesis checkpoint signaling, plus dephosphorylation of phospho-tyrosine/threonine residues, which together point to regulation of mitotic progression by phosphatases. Some terms (habituation, postsynaptic density assembly) appear unrelated, likely reflecting multi-function proteins or annotation breadth, but the dominant signal is spindle/cytokinesis control during cell division.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":3},{"id":"GO:0034501","count":2},{"id":"GO:0039563","count":2},{"id":"GO:0044878","count":2},{"id":"GO:0035853","count":2}]},{"hash":"524098160328775779","title":"Glycosylation and glycan biosynthesis","description":"The top GO terms converge on glycosylation and glycan biosynthesis, including glycosphingolipid biosynthetic and poly-N-acetyllactosamine/glycan biosynthetic processes (and related epitopes). While some terms reference plant- or insect-specific contexts, the shared theme is the assembly and modification of glycans on proteins or lipids, suggesting the cluster centers on glycosylation pathways and glycan production. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033580","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0030259","count":2},{"id":"GO:0006688","count":2},{"id":"GO:0048354","count":1}]},{"hash":"709299276658574683","title":"Hair Keratinization","description":"The two top GO terms are hair cycle and keratinization, both related to hair follicle biology and keratin protein production. The proteins in this cluster are likely involved in keratin filament assembly and hair shaft formation, so \"Hair Keratinization\" succinctly captures the shared function.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042633","count":3},{"id":"GO:0031424","count":3}]},{"hash":"1837781971208219297","title":"Neuronal synapse assembly and AMPA receptor clustering","description":"This cluster centers on neuronal synaptic formation and plasticity, highlighted by AMPA receptor clustering and positive regulation of long-term neuronal synaptic plasticity, along with cerebellum morphogenesis and actin cytoskeleton remodeling (ruffle assembly, barbed-end capping). While a couple of GO terms are less directly related, the strongest and most frequent signals point to synaptic assembly, receptor organization, and structural remodeling in neurons.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900042","count":2},{"id":"GO:1904694","count":2},{"id":"GO:0021587","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0097178","count":2}]},{"hash":"1624351475099480937","title":"B cell signaling and IgE regulation","description":"Based on the terms, the cluster is enriched for immune-related processes: negative regulation of isotype switching to IgE, B cell receptor signaling, type 2 immune response, and regulation of mast cell cytokine production. These collectively point to B cell\u2013mediated immune signaling and allergic-type regulation. Some non-immune terms (skeletal muscle development, circadian sleep/wake cycle) appear but with less support, so the dominant theme is immune signaling related to B cells and IgE. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048294","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0042092","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0048741","count":2}]},{"hash":"1681880726318019988","title":"Unknown","description":"The listed GO terms are highly diverse, covering lysosome organization, fertilization, rhodopsin biosynthesis, astrocyte migration, courtship behavior, calcium homeostasis, proteoglycan catabolism, myelination, skeletal development, and zona pellucida penetration. There is no clear shared function or theme linking these terms to a single biological process or molecular function for the three proteins, so a cohesive label cannot be assigned.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007040","count":2},{"id":"GO:0007338","count":1},{"id":"GO:0016063","count":1},{"id":"GO:0043615","count":1},{"id":"GO:0008049","count":1}]},{"hash":"542907819631891459","title":"Cytokine signaling and granulocyte degranulation","description":"The top GO terms center on cytokine production and signaling (IL-6/IL-12/IL-2 related) and on regulated degranulation in mast cells and neutrophils, pointing to inflammatory communication and granule release. Some terms about dephosphorylation, metalloendopeptidase activity, and cytoskeletal processes (lamellipodium) may reflect broader signaling and mobility aspects, but the core theme appears to be immune signaling coupled with granule release in granulocytes. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045409","count":2},{"id":"GO:0035722","count":2},{"id":"GO:0043306","count":2},{"id":"GO:1900042","count":2},{"id":"GO:0006470","count":2}]},{"hash":"1143705641709937297","title":"Immunomodulation and Inflammatory Regulation","description":"The top GO terms show recurrent negative regulation of cytokine production (IL-13, IL-5, type II interferon) and negative regulation of T cell proliferation, plus a general \u201cregulation of inflammatory response.\u201d This points to proteins that dampen immune signaling and control inflammation. Some terms reference xenobiotic/oxidative stress responses, suggesting additional roles in stress-related gene regulation, but the core signal is immunomodulatory and inflammatory control.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032696","count":1},{"id":"GO:0032689","count":1},{"id":"GO:0009410","count":1},{"id":"GO:0032714","count":1},{"id":"GO:0050727","count":1}]}]