[{"hash":"443247652547869017","title":"Mitochondrial translation and cristae maintenance","description":"The cluster is dominated by GO terms linked to mitochondria, including mitochondrial translation and its regulation, protein insertion into the mitochondrial membrane, and cristae formation, along with apoptotic processes and membrane organization, which together suggest a cohesive module centered on mitochondrial gene expression and inner-mmembrane biogenesis. Some biosynthetic terms may reflect broader mitochondrial metabolism, but the core signal is mitochondrial translation and cristae maintenance.","confidence":"High","size":29,"edges":294,"triangles":1534,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0070131","count":4},{"id":"GO:0006412","count":3},{"id":"GO:0000002","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0030007","count":3}]},{"hash":"1458174709851328470","title":"Multisystem Development and Differentiation","description":"Top terms indicate broad development across multiple tissues (skin, skeletal system, forebrain, prostate gland), plus regulatory processes like hypoxia response, GTPase signaling, synaptic plasticity, and ubiquitin-dependent proteolysis. This suggests a cluster tied to general development and tissue differentiation rather than a single pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":9},{"id":"GO:0007568","count":7},{"id":"GO:0071456","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0043588","count":7}]},{"hash":"1910750624787384850","title":"Gene Expression and Cell Cycle Regulation","description":"The terms cluster around controlling gene expression and cell growth: mitotic cell cycle, cell proliferation, transcription and translation initiation, plus proteasomal degradation and epigenetic marks. Developmental terms (forebrain and skeletal) and growth responses (invasive growth under nutrient stress) suggest a broad theme of gene-expression\u2013driven regulation of cell proliferation and development. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":9},{"id":"GO:0008283","count":8},{"id":"GO:0006349","count":8},{"id":"GO:0031146","count":7},{"id":"GO:0051568","count":7}]},{"hash":"2027182264174571228","title":"Embryonic neural plate morphogenesis with Wnt regulation","description":"The top GO terms cluster around embryogenesis and neural plate development (embryonic body morphogenesis, neural plate development, endodermal fate commitment, anisotropic cell growth) along with regulatory processes (negative regulation of Wnt signaling, positive/negative regulation of apoptosis and cell proliferation), suggesting proteins involved in early development and neural tissue patterning.","confidence":"High","size":29,"edges":368,"triangles":2766,"max_degree":28,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":16},{"id":"GO:0016477","count":16},{"id":"GO:0090090","count":16},{"id":"GO:0043065","count":16},{"id":"GO:0008285","count":16}]},{"hash":"1835648048329094853","title":"Mitochondrial and Chloroplast Energy Metabolism","description":"This cluster centers on energy production in mitochondria and chloroplasts, with terms for electron transport (NADH to ubiquinone, Complex III assembly), proton transport, and photosynthesis/light reactions, plus mitochondrial transcription/translation. The combined signals suggest a cohesive role in organelle energy production and gene expression.","confidence":"High","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":3},{"id":"GO:0006123","count":3},{"id":"GO:0006810","count":3},{"id":"GO:0019684","count":3},{"id":"GO:0006351","count":2}]},{"hash":"640713175879620034","title":"Retina Development and Visual Signaling","description":"The cluster is dominated by terms tied to retina development, phototransduction, and visual perception (retina development in camera-type eye; phototransduction; visual perception), with supportive signaling pathway terms (dopamine and adrenergic receptor signaling leading to cAMP and PI biosynthesis). While a heart development term appears, the strongest cohesive theme is visual system development and signaling, suggesting proteins involved in retinal formation and light-induced signaling cascades.","confidence":"High","size":29,"edges":192,"triangles":510,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":27},{"id":"GO:0007507","count":26},{"id":"GO:0060158","count":25},{"id":"GO:0043950","count":25},{"id":"GO:0007191","count":25}]},{"hash":"726020644564540036","title":"Chromatin Remodeling and Transcription Regulation","description":"The top terms cluster around chromatin organization and dynamics (chromatin remodeling, heterochromatin formation, chromatin assembly during DNA replication, protein localization to chromatin) and transcription control (negative regulation of transcription by RNA Pol II). A few peripheral terms (plasmid partitioning, Rho signaling) seem related to broader nuclear processes but do not override the dominant chromatin/transcription theme. ","confidence":"High","size":29,"edges":376,"triangles":2965,"max_degree":28,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000122","count":21},{"id":"GO:0051290","count":20},{"id":"GO:0045815","count":18},{"id":"GO:0000183","count":18},{"id":"GO:0006335","count":18}]},{"hash":"728153393362313441","title":"Development and cell proliferation","description":"The cluster centers on broad developmental processes (forebrain and skeletal system development, multicellular organism development) and core cellular functions like DNA-templated transcription and mitotic cell cycle, suggesting proteins involved in development-linked growth and proliferation. There is also a hint of ER-stress\u2013induced apoptotic signaling, indicating a stress-response aspect within developmental contexts. Overall, the dominant theme is development coupled with cell division.","confidence":"Medium","size":29,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":9},{"id":"GO:0051301","count":9},{"id":"GO:0001501","count":9},{"id":"GO:0030900","count":9},{"id":"GO:0043547","count":8}]},{"hash":"872299664561235408","title":"Neural development and synaptic signaling","description":"The proteins in this cluster are enriched for neuronal differentiation terms (neuron development, axonogenesis, Schwann cell development) and synaptic function (long-term potentiation, excitatory postsynaptic potential, visual perception), suggesting a primary theme of neural development and synaptic signaling. Additional terms like heart development and mitotic cell cycle may reflect shared developmental or proliferative roles in certain contexts, and proteasomal protein catabolism regulation can influence synaptic protein turnover. Overall, the dominant signal is neural development with emphasis on synaptic activity.","confidence":"High","size":29,"edges":65,"triangles":25,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032435","count":11},{"id":"GO:0048666","count":11},{"id":"GO:0007601","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0014044","count":10}]},{"hash":"1572287900687823941","title":"Ribosome biogenesis and mRNA processing","description":"This cluster shows strong enrichment for translation, ribosomal small subunit biogenesis, and mRNA processing/splicing terms, pointing to a core function in ribosome assembly and RNA maturation, with additional signals from ubiquitination and stress-related processes.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0045071","count":5},{"id":"GO:0042274","count":5},{"id":"GO:0016567","count":4},{"id":"GO:0006397","count":4}]},{"hash":"567905817496652866","title":"Innate immunity and tissue remodeling","description":"The cluster is enriched for innate immune terms (defense response to Gram-positive bacteria, complement activation via lectin and classical pathways) and coagulation, along with ECM-related processes (collagen catabolic process, biomineral tissue development) and growth. While there are also transcription regulation and development terms present, the immune/coagulation and extracellular matrix remodeling signals are the strongest common theme, suggesting proteins functioning in innate defense linked to tissue remodeling. Confidence: Medium.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0050830","count":8},{"id":"GO:0030901","count":8},{"id":"GO:0044130","count":7},{"id":"GO:0030574","count":7}]},{"hash":"1170408405623930017","title":"Neural development and transcriptional regulation","description":"Proteins in this cluster show strong links to neural development (forebrain, brain, multicellular organism development) and transcriptional control (DNA-templated transcription, NF-kappaB transcription factor activity). The combination suggests a module coordinating gene expression during brain development, potentially integrating signaling pathways that regulate transcription and cytoskeletal dynamics. ","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0007275","count":4}]},{"hash":"1167223937585395598","title":"Embryonic organ morphogenesis","description":"Proteins cluster around developmental morphogenesis across multiple organs (heart, kidney, ear) with processes like endocardial cushion formation, ventricle morphogenesis, loop of Henle development, and epithelial differentiation, underpinned by adhesion and Wnt signaling. This points to a shared theme of embryonic organogenesis and tissue patterning.","confidence":"High","size":29,"edges":11,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":27},{"id":"GO:1990134","count":26},{"id":"GO:0044332","count":25},{"id":"GO:0003273","count":25},{"id":"GO:0003208","count":24}]},{"hash":"338100524696621528","title":"Neuronal cytoskeletal remodeling and signaling","description":"The cluster shows strong signals for actin/cytoskeleton dynamics (stress fiber and filopodium regulation), coupled with signaling pathways (ERK cascade, small GTPases) and post-translational modification (ubiquitination). The presence of neural-related GO terms (sensory perception of touch and GABAergic synaptic transmission) suggests a neuronal module, while vesicle trafficking and polarity maintenance fit with coordinated signaling and trafficking in neurons. Altogether, the proteins appear to form a module of cytoskeletal remodeling linked to neuronal signaling and vesicle trafficking.","confidence":"High","size":29,"edges":82,"triangles":9,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043149","count":14},{"id":"GO:0070374","count":14},{"id":"GO:0033138","count":14},{"id":"GO:0016567","count":14},{"id":"GO:0050975","count":13}]},{"hash":"589242953624158250","title":"Innate antiviral signaling and antigen presentation","description":"The top GO terms strongly indicate antiviral innate immunity and signaling (defense response to virus, innate immune response, toll-like receptor 9 signaling) along with processes involved in antigen processing and presentation by dendritic cells (positive regulation of dendritic cell antigen processing and presentation, IL-1\u03b2 and IL-18 production). A ubiquitin-proteasome\u2013dependent protein catabolic process supports antigen processing, while cytoskeletal-related terms (actin filament network formation, mitotic spindle assembly) may reflect cellular remodeling in immune contexts. Overall, this cluster appears centered on innate antiviral defense and dendritic cell\u2013mediated antigen presentation, with some ancillary cellular remodeling terms.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031146","count":12},{"id":"GO:0090307","count":12},{"id":"GO:0051639","count":11},{"id":"GO:0051607","count":11},{"id":"GO:0045087","count":11}]},{"hash":"1387750042764143862","title":"Immune cell differentiation and actin remodeling","description":"The cluster\u2019s top GO terms strongly point to immune development processes such as NK T cell differentiation, B cell affinity maturation, and hemopoiesis, plus IL-4 production. Concurrently, terms related to Rho and small GTPase signaling and cytoskeletal assembly (lamellipodium and filopodium formation) indicate actin remodeling and cell migration. Together, these suggest proteins that coordinate immune cell maturation with cytoskeletal dynamics.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":21},{"id":"GO:0001865","count":18},{"id":"GO:0002344","count":18},{"id":"GO:0030032","count":18},{"id":"GO:0007264","count":18}]},{"hash":"1896768620436692942","title":"Immune cell adhesion and signaling","description":"Most enriched terms converge on cell-cell adhesion and immune signaling, including heterophilic cell-cell adhesion, B cell receptor signaling, NK and T cell regulation, and macrophage activation, with additional links to actin cytoskeleton remodeling and synapse-related processes. This points to a cluster of proteins coordinating immune cell contacts and communication rather than a single specialized pathway. Confidence: High","confidence":"","size":29,"edges":341,"triangles":2197,"max_degree":28,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":10},{"id":"GO:0043318","count":8},{"id":"GO:0046718","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0090138","count":8}]},{"hash":"273283145294844272","title":"GTPase Regulation and Endosomal Trafficking","description":"The cluster highlights enrichment for both positive and negative regulation of GTPase activity and transport between endosomal compartments (early to late endosome, endosome to lysosome), with supporting signaling links to ERK1/2 and some mechanosensory response terms. This suggests a cohesive module coordinating small GTPase signaling with vesicular trafficking and downstream signaling, rather than a single enzyme activity. ","confidence":"Medium","size":29,"edges":2,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0045022","count":5},{"id":"GO:0070374","count":4},{"id":"GO:0034260","count":4},{"id":"GO:1903215","count":4}]},{"hash":"396713272492249417","title":"Mitochondrial respiration and immune signaling cluster","description":"The top terms show a metabolic core around mitochondrial respiratory chain IV assembly and aerobic respiration, indicating energy production activity. Additional terms point to immune processes (T cell costimulation, plasma cell differentiation) and signaling/adhesion (PI3K/AKT regulation, cell-matrix adhesion, regulation of cell shape), suggesting the proteins link metabolism with signaling and cell interactions, possibly in immune or differentiating cells. Confidence reflects a reasonable, though not exclusive, link among metabolism, signaling, and adhesion functions.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010977","count":3},{"id":"GO:0033617","count":3},{"id":"GO:0009060","count":3},{"id":"GO:0031295","count":2},{"id":"GO:0051897","count":2}]},{"hash":"380422011315025897","title":"Developmental signaling and stress-responsive transcription","description":"The cluster centers on DNA-templated transcription and signaling pathways (notably the p38MAPK cascade), with associated stress responses (immobilization stress, lipopolysaccharide response) and developmental/differentiation processes (fat cell differentiation, cartilage chondrocyte growth, vagina development). Additional terms related to xenobiotic metabolism and glandular regulation hint at broader regulatory roles in development and environmental response. This suggests a cohesive theme of signaling-driven transcriptional regulation during development and stress, hence the label.","confidence":"Medium","size":29,"edges":56,"triangles":40,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":16},{"id":"GO:0035902","count":16},{"id":"GO:0045444","count":15},{"id":"GO:0060068","count":15},{"id":"GO:0042738","count":15}]},{"hash":"528721684208198987","title":"Development-related metabolism and amino acid catabolism","description":"This cluster centers on energy and amino-acid metabolism (gluconeogenesis, TCA cycle, glycogen biosynthesis, leucine/valine catabolism) with developmental context (post-embryonic and liver development), suggesting proteins involved in metabolic remodeling during development. A single outlier term (cell wall organization) is noted but does not override the main theme.","confidence":"High","size":29,"edges":21,"triangles":11,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":7},{"id":"GO:0006552","count":6},{"id":"GO:0009791","count":6},{"id":"GO:0042594","count":6},{"id":"GO:0005978","count":6}]},{"hash":"1895491027550551872","title":"Steroidogenesis and gonadal development","description":"This cluster shows strong representation of GO terms related to female gonad development, mammary gland development, and androgen metabolism (testosterone biosynthetic process, androgen metabolic process) as well as cholesterol catabolic and xenobiotic metabolism. Together these point to a module involved in steroid hormone biosynthesis and reproductive tissue development, with ancillary detoxification processes. The presence of mixed oxidation-related terms and ent-kaurene oxidation is unusual but may reflect shared redox processes or annotation breadth. Overall, the theme is steroidogenesis linked to gonadal and mammary development.","confidence":"Medium","size":29,"edges":7,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008585","count":6},{"id":"GO:0032094","count":6},{"id":"GO:0008209","count":5},{"id":"GO:0061370","count":5},{"id":"GO:0042738","count":5}]},{"hash":"2067182987462056657","title":"Signaling and cytoskeletal remodeling","description":"The enriched GO terms point to signaling pathways that regulate cytoskeletal dynamics (dendrite morphogenesis, Rho signaling, calcium sensing) and structural remodeling (microvillus assembly, angiogenesis, proteolysis/fibrinolysis), suggesting a shared role in coordinating cellular signaling with remodeling across tissues. The presence of thyroid hormone metabolism and cell cycle terms implies broader regulation, but the dominant pattern favors signaling-driven remodeling rather than a single pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050774","count":5},{"id":"GO:0006508","count":4},{"id":"GO:0042730","count":4},{"id":"GO:0043950","count":4},{"id":"GO:0005513","count":4}]},{"hash":"1929680310599709060","title":"Unknown","description":"The cluster's GO terms are highly diverse, spanning transcriptional regulation, neural development/visual perception, and several immune/coagulation processes, with no clear unifying function. The lack of edges/triangles suggests little functional connectivity, so a single coherent label is not supported.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":19},{"id":"GO:0030901","count":13},{"id":"GO:0007601","count":10},{"id":"GO:0050830","count":9},{"id":"GO:0044130","count":9}]},{"hash":"2032747521675176923","title":"Neural and sensory development","description":"Most terms point to nervous system and sensory organ development (inner ear, brain, vision, synapse assembly, locomotion). A few terms concern transcription regulation, immune response, or endothelial barrier establishment, which are less central to the theme. Overall, the cluster seems best described as neural and sensory development.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048839","count":6},{"id":"GO:0003148","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0071222","count":5},{"id":"GO:0051965","count":4}]},{"hash":"411238432325521435","title":"Neurovascular-immune signaling","description":"The top terms include axonogenesis, angiogenesis and its regulation, plus innate immune and adaptive immune signaling (defense against virus, B cell receptor signaling, Kit signaling), suggesting a cluster of proteins involved in broad signaling pathways that connect neural development, vascular processes, and immune responses.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007409","count":7},{"id":"GO:0016525","count":7},{"id":"GO:0009395","count":6},{"id":"GO:0043552","count":6},{"id":"GO:0051607","count":6}]},{"hash":"281357328999439743","title":"Enteric nervous system signaling and metabolic regulation","description":"The top GO terms cluster around gut neural function (enteric nervous system development, peristalsis), neural signaling (GPCR pathways, membrane potential regulation, pain perception, ERK cascade), and metabolic/thermogenic processes (diet-induced thermogenesis, electron transport chain, blood pressure regulation). This suggests a theme of enteric nervous system control of gut motility coupled with metabolic signaling. The zero edges imply these proteins co-occur by shared functional annotations rather than direct interactions. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":23},{"id":"GO:0071502","count":23},{"id":"GO:0019233","count":23},{"id":"GO:0042391","count":21},{"id":"GO:0010579","count":20}]},{"hash":"1812695764226499202","title":"Unknown","description":"The top GO terms span very diverse processes\u2014from intracellular calcium release and morphine response to inflammation, neural learning and sensorimotor gating, saliva secretion, and even bacterial cell wall catabolism\u2014showing no coherent single function or pathway connecting them. This heterogeneity suggests no clear functional theme for the cluster, so a specific label isn\u2019t justifiable; thusUnknown with no confidence.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":27},{"id":"GO:0043278","count":27},{"id":"GO:0002882","count":26},{"id":"GO:0035106","count":26},{"id":"GO:0046541","count":26}]},{"hash":"1775522577087149072","title":"Unknown","description":"The top GO terms span diverse, loosely related areas including inflammatory signaling, neural/sensory processing, secretion, and tissue development, with no single cohesive function tying them together. This suggests the cluster is functionally heterogeneous rather than representing a specific, unified biological theme.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":28},{"id":"GO:0035106","count":28},{"id":"GO:0046541","count":28},{"id":"GO:0009253","count":28},{"id":"GO:0014829","count":28}]},{"hash":"1633326578180539252","title":"Innate Immune Signaling and Vesicle Trafficking","description":"This cluster centers on innate immune pathways (innate immune response, TNF signaling, JNK regulation) and ubiquitination, with several terms tied to intracellular protein transport and COPII vesicle loading, suggesting a functional group of immune signaling proteins coupled with vesicle trafficking.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0045737","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0032486","count":3}]},{"hash":"1420931466002503227","title":"Neural morphogenesis and cytoskeletal remodeling","description":"The top GO terms cluster around development and morphogenesis (midbrain morphogenesis, animal organ morphogenesis, peripheral nervous system myelination) coupled with cytoskeletal dynamics (lamellipodium/filopodium assembly) and signaling (activation of GTPase activity, EGFR-related response). Together these points suggest proteins involved in neural development and cell shape/movement, rather than unrelated processes. Confidence: High","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071364","count":3},{"id":"GO:0009887","count":3},{"id":"GO:1904693","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0030032","count":3}]},{"hash":"2296280349417684848","title":"Neuronal signaling and actin remodeling","description":"This cluster shows enrichment for actin cytoskeleton organization and small GTPase\u2013mediated signaling, paired with neural-related terms such as sensory perception of sound and vocalization behavior, suggesting proteins that participate in neuronal signaling coupled with cytoskeletal dynamics. While insulin signaling and Golgi localization appear, the dominant theme appears to be neuronal signal transduction linked to actin remodeling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030036","count":5},{"id":"GO:0048009","count":5},{"id":"GO:0007605","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0060313","count":4}]},{"hash":"1217832689963693503","title":"Transcription Regulation and Ubiquitination","description":"This cluster is enriched for GO terms related to regulation of DNA-templated transcription and for ubiquitin-related processes (ubiquitination, deubiquitination) and ERAD components, suggesting proteins that coordinate transcription control with protein turnover. The co-occurrence of transcription regulation and ubiquitin/ERAD terms supports a connected functional theme rather than isolated processes.","confidence":"High","size":28,"edges":145,"triangles":204,"max_degree":19,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":6},{"id":"GO:0007205","count":5},{"id":"GO:0007253","count":5},{"id":"GO:0035871","count":5},{"id":"GO:1904378","count":5}]},{"hash":"365160971243720693","title":"Dopaminergic Signaling and Drug Response","description":"The cluster is dominated by neural and sensory-related GO terms: dopaminergic synaptic transmission, visual perception and learning, sensory/behavioral responses to cocaine and morphine, and signaling via the ERK cascade\u2014all hallmarks of dopamine-mediated neural circuits involved in reward, perception, and learning. The heart development term is less aligned, suggesting some noise, but the core pattern fits dopaminergic signaling and drug-response pathways.","confidence":"Medium","size":28,"edges":274,"triangles":1224,"max_degree":24,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":20},{"id":"GO:0019233","count":20},{"id":"GO:0007601","count":19},{"id":"GO:0070374","count":19},{"id":"GO:0048148","count":19}]},{"hash":"952877496194234047","title":"Pollen development and pollen wall formation","description":"The top GO terms show strong signals for pollen-related processes: anther dehiscence and pollen exine formation, indicating pollen development and wall biosynthesis. There are additional hints of cytoskeletal remodeling and cell polarity supporting polarized growth during maturation, while housekeeping processes (organelle inheritance, glycosylation, nucleotide catabolism) likely reflect broader cellular activity in pollen cells. Overall, the cluster centers on reproductive pollen development and wall formation.","confidence":"Medium","size":28,"edges":326,"triangles":2157,"max_degree":27,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000001","count":8},{"id":"GO:0071963","count":8},{"id":"GO:0000011","count":8},{"id":"GO:0000147","count":8},{"id":"GO:0006256","count":8}]},{"hash":"1577280476128402282","title":"Cholinergic GPCR signaling and cardiac contractility","description":"The top GO terms center on acetylcholine-triggered GPCR signaling, including GPCR desensitization and internalization, PI3K/AKT signaling, and the regulation of cardiac muscle contraction, with several terms highlighting negative regulation of heart contraction. This suggests a coherent theme of cholinergic GPCR signaling influencing cardiac contractility and its modulation, making a label focused on cholinergic GPCR signaling in the heart both accurate and specific.","confidence":"High","size":28,"edges":9,"triangles":0,"max_degree":4,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007213","count":4},{"id":"GO:0032094","count":3},{"id":"GO:0010572","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0002029","count":3}]},{"hash":"2265926523696139639","title":"Unknown","description":"The GO terms are diverse, spanning differentiation of several cell types (cerebellar granule cells, follicular dendritic cells, macrophage-derived foam cells), endocytic regulation (pinocytosis), proteasome assembly, and even cardiac action potential regulation. There is no single cohesive process uniting them, so the cluster appears to cover multiple, unrelated cellular functions.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048549","count":18},{"id":"GO:0021707","count":17},{"id":"GO:0000083","count":17},{"id":"GO:0044707","count":17},{"id":"GO:0070682","count":17}]},{"hash":"544794462462870529","title":"Mitochondrial translation and respiration cofactor biosynthesis","description":"These GO terms cluster around mitochondrial processes: translation and tRNA modification indicate mitochondrial protein synthesis; cristae formation and cell cycle point to mitochondrial inner-mmembrane biogenesis. The presence of ubiquinone/menaquinone, biotin, and phosphatidylcholine biosynthetic terms suggests production of cofactors and membrane components essential for respiration. Overall, the proteins appear tied to mitochondrial translation machinery and the biogenesis of respiration-related cofactors and membranes.","confidence":"Medium","size":28,"edges":117,"triangles":136,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0030488","count":4},{"id":"GO:0006744","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0002098","count":3}]},{"hash":"1939473987743297813","title":"ERAD and Proteostasis Regulators","description":"The GO terms point to ubiquitin- and SUMO-mediated regulation of protein quality control, especially ER-associated degradation (ERAD), deubiquitination, and autophagy-related pathways, plus links to mitochondrial dynamics and stress/inflammatory signaling. This suggests a coherent cluster of proteins that govern proteostasis and stress-response regulation rather than a single specific enzymatic activity.","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":14},{"id":"GO:0030433","count":14},{"id":"GO:1904378","count":13},{"id":"GO:0016925","count":13},{"id":"GO:1901097","count":12}]},{"hash":"358516062306381527","title":"Immune response and cytoskeletal remodeling","description":"This cluster combines immune-related terms (defense response to fungus, neutrophil aggregation, memory) with cytoskeletal dynamics (stress fiber assembly, actin cytoskeleton reorganization), suggesting proteins involved in immune cell activation and migration, where cytoskeletal remodeling is key. Additional terms like apoptosis and stress/ toxin responses align with broader cellular stress during immune responses and signaling networks (e.g., transcriptional regulation and complex assembly) that support these functions.","confidence":"Medium","size":28,"edges":49,"triangles":15,"max_degree":10,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":18},{"id":"GO:0051290","count":14},{"id":"GO:0050832","count":8},{"id":"GO:0051496","count":8},{"id":"GO:0051597","count":8}]},{"hash":"1208652845221740472","title":"Nuclear chromatin regulation and cell cycle control","description":"Based on the GO terms, the proteins cluster around chromatin remodeling and nuclear processes (histone deacetylation, rDNA heterochromatin formation, regulation of protein localization to the nucleus), along with cell-cycle and ubiquitin-proteasome related regulation. This suggests a cohesive set of nuclear regulators coordinating chromatin state, gene expression, and cell cycle progression, despite some broader terms like neuron differentiation. The balance of chromatin- and nucleus-focused terms supports a single functional theme rather than disparate cytosolic pathways.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:2000059","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0000413","count":3},{"id":"GO:0030182","count":3}]},{"hash":"486228985825161128","title":"Transcriptional Control and Cell Cycle Regulation","description":"The top terms are dominated by DNA-templated transcription and regulation of the cell cycle (notably the G1/S transition), with accompanying differentiation-related terms (mammary gland development, lactation). This suggests a shared theme of transcriptional regulation governing cell proliferation and tissue differentiation, though the presence of diverse tissue terms implies a broad regulatory program rather than a single tissue-specific process.","confidence":"Medium","size":28,"edges":38,"triangles":16,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":18},{"id":"GO:0071157","count":17},{"id":"GO:0000082","count":17},{"id":"GO:0060749","count":17},{"id":"GO:0033327","count":17}]},{"hash":"497949572133594282","title":"Mycolic and Long-Chain Fatty Acid Biosynthesis","description":"The dominant GO terms are lipid-centric, including fatty acid elongation, very long-chain fatty acid biosynthesis, and specifically mycolic acid biosynthetic process, which together point to enzymes building long-chain lipids critical for bacterial cell envelopes (notably in mycobacteria). Other terms (antibiotic-related and retinoid/phylloquinone metabolism) appear but are less central to the core function. This makes the lipid biosynthesis theme a coherent and representative label for the cluster.","confidence":"High","size":28,"edges":38,"triangles":7,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0046677","count":7},{"id":"GO:0017000","count":6},{"id":"GO:0030497","count":5},{"id":"GO:0031427","count":5}]},{"hash":"1833368967217001950","title":"T and B Cell Activation Signaling","description":"The cluster is dominated by GO terms tied to adaptive immunity, including positive regulation of T cell proliferation (\u03b1\u03b2 and \u03b3\u03b4), beta selection, and the B cell receptor signaling pathway, pointing to proteins involved in lymphocyte activation and development. Additional terms related to protein processing and nuclear DNA replication suggest coordination with cell cycle during activation. Some outliers (visual perception, ECM disassembly regulation) may reflect broader functional annotations, but the core theme is immune signaling and maturation.","confidence":"High","size":28,"edges":201,"triangles":670,"max_degree":23,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":28},{"id":"GO:0010765","count":28},{"id":"GO:0010571","count":28},{"id":"GO:0010954","count":28},{"id":"GO:0045588","count":28}]},{"hash":"1557643493940541742","title":"Notch signaling in development","description":"This cluster features multiple GO terms centered on Notch signaling regulation (both positive and negative) alongside various developmental processes across tissues (somitogenesis, ovarian follicle development, imaginal disc segmentation, intestinal epithelial development, and B cell differentiation). The common thread appears to be Notch-mediated control guiding diverse developmental events, rather than a single molecular function, suggesting the overarching theme of Notch signaling in development.","confidence":"Medium","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032092","count":7},{"id":"GO:0002315","count":6},{"id":"GO:1902367","count":5},{"id":"GO:0001541","count":5},{"id":"GO:0007386","count":5}]},{"hash":"1507519034981619655","title":"Ribosome biogenesis and translation","description":"The dominant GO terms point to ribosome assembly and function\u2014ribosome biogenesis, ribosomal subunit biogenesis, cytoplasmic translation, and tRNA modification\u2014indicating a cluster of proteins involved in making ribosomes and supporting protein synthesis. Some cell-cycle-related terms appear, suggesting coordination between growth, ribosome production, and division.","confidence":"High","size":28,"edges":9,"triangles":1,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007049","count":5},{"id":"GO:0006400","count":4},{"id":"GO:0042274","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000747","count":3}]},{"hash":"2183734500349888976","title":"Budding yeast mitosis and cytokinesis","description":"The most frequent GO terms are cell division, mitotic cell cycle, mitotic cytokinesis, division septum assembly, and protein localization to bud neck, which together point to mitotic progression and septum formation in budding yeast. Other terms like spermatogenesis and cell differentiation are present but secondary. Thus the cluster likely represents proteins involved in yeast mitosis and cytokinesis, particularly septum formation and bud neck localization.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0007283","count":5},{"id":"GO:0030154","count":5},{"id":"GO:0000281","count":4}]},{"hash":"154904443587388202","title":"Unknown","description":"The GO terms cover pharmacological response (morphine), oxidative stress response, various biosynthetic pathways (galactose catabolism, glycogen and lipopolysaccharide/O-antigen biosynthesis), transcription antitermination, proteolysis, and non-motile cilium assembly, suggesting the proteins do not share a cohesive single function. ","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043278","count":5},{"id":"GO:0070301","count":5},{"id":"GO:0019388","count":4},{"id":"GO:0009243","count":4},{"id":"GO:0055114","count":4}]},{"hash":"2148980253427666015","title":"Developmental transcription regulation","description":"This cluster is dominated by GO terms for both negative and positive regulation of transcription by RNA polymerase II, coupled with multiple developmental terms focused on brain-related and sensory organ development (midbrain, brain, inner ear). The strongest signals point to transcriptional control during development rather than a single tissue, with additional but less central terms spanning other developmental processes.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0030901","count":13},{"id":"GO:0045944","count":10},{"id":"GO:0048839","count":9},{"id":"GO:1903142","count":9}]},{"hash":"385555156622611647","title":"Developmental growth and lipid homeostasis with immune signaling","description":"Based on the top GO terms, the cluster centers on developmental processes (fat cell differentiation, heart development, multicellular growth) and lipid metabolism/homeostasis (cholesterol and phospholipid), with additional links to immune signaling (response to LPS and NF-kappaB regulation). While some terms appear peripheral (visual perception, vagina development), the dominant theme ties development to lipid homeostasis and inflammatory signaling, justifying the label.","confidence":"Medium","size":28,"edges":217,"triangles":834,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":9},{"id":"GO:0060068","count":9},{"id":"GO:0042632","count":9},{"id":"GO:0071222","count":9},{"id":"GO:0007601","count":9}]},{"hash":"682585936763441707","title":"Immune and Developmental Signaling","description":"The GO terms point to immune functions (innate immunity, phagocytosis, response to xenobiotics, fungal-origin signaling) and development-related processes (heart development, cartilage condensation, B cell maturation), with some insulin signaling, suggesting a cluster centered on immune and developmental signaling crosstalk.","confidence":"Medium","size":28,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:2001275","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0002344","count":4},{"id":"GO:0010572","count":4},{"id":"GO:0008286","count":4}]},{"hash":"1743718552704164601","title":"Cell adhesion driven immune neural development signaling","description":"Based on the prominent terms for cell-cell adhesion (heterophilic/homophilic) and related signaling in immune (T cell proliferation, costimulation) and neural development (synapse assembly, nervous system development), with an additional ossification signal, the proteins appear to function as adhesion-mediated signaling modules that coordinate interactions during immune responses and neural development, with skeletal development involvement. The shared theme is adhesion molecules guiding cell communication.","confidence":"Medium","size":28,"edges":7,"triangles":4,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":14},{"id":"GO:0043931","count":13},{"id":"GO:0007156","count":12},{"id":"GO:0006910","count":11},{"id":"GO:0048661","count":11}]},{"hash":"237810650366164392","title":"Atherosclerosis-related macrophage inflammation and lipid remodeling","description":"This cluster combines signals of macrophage-driven inflammation (IL-1 and IL-8 production, neutrophil immunity, regulation of T cell proliferation, ERK signaling) with lipid remodeling and lipoprotein processing (phosphatidylserine and phosphatidylethanolamine acyl-chain remodeling, LDL particle remodeling, foam cell differentiation) and arachidonic acid\u2013mediated responses. The convergence of inflammatory mediators and lipid metabolism changes strongly points to macrophage activation in an atherosclerotic context. Together, these features suggest a cohesive role in inflammatory lipid remodeling within macrophages during atherosclerosis.","confidence":"High","size":28,"edges":148,"triangles":322,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":9},{"id":"GO:0010744","count":9},{"id":"GO:0036150","count":7},{"id":"GO:0036152","count":7},{"id":"GO:0032612","count":7}]},{"hash":"444940575751369767","title":"Actin-driven protrusions and adhesion dynamics","description":"The cluster is dominated by terms for actin-based structures (filopodium/lamellipodium assembly), Rho GTPase signaling, and adhesion-dependent cell spreading, suggesting a cohesive role in cytoskeleton remodeling that drives protrusions and cell migration, with relevance to immune and developmental processes.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0046847","count":14},{"id":"GO:0060313","count":14},{"id":"GO:0030032","count":14},{"id":"GO:0043314","count":14},{"id":"GO:0043552","count":14}]},{"hash":"1939715471370650892","title":"Nervous system development and synapse assembly","description":"The top GO terms cluster around neuronal connectivity and synaptic organization (synapse assembly, neuroligin clustering at postsynaptic membranes, dopaminergic neuron guidance, and nervous system development). While there are a couple of outliers (B cell differentiation, ossification), the dominant signal is nervous system development and synapse-related processes, suggesting proteins in this cluster contribute to neuron connectivity and synapse assembly.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0002315","count":4},{"id":"GO:0045176","count":4},{"id":"GO:0097118","count":4},{"id":"GO:0007416","count":4}]},{"hash":"2300953825401688684","title":"Palatogenesis and skeletal development signaling","description":"The cluster centers on palate development, skeletal system development, chondrocyte differentiation, and BMP signaling, with related terms such as ERK cascade and astrocyte differentiation pointing to broader developmental signaling networks. This suggests a theme of craniofacial and skeletal morphogenesis coordinated by BMP/ERK pathways, indicating involvement in palate formation and bone/cartilage development.","confidence":"Medium","size":28,"edges":3,"triangles":0,"max_degree":1,"top_function":"wound healing","top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0030513","count":6},{"id":"GO:0007565","count":6},{"id":"GO:0001938","count":6},{"id":"GO:0070374","count":6}]},{"hash":"1286862067470883699","title":"GPCR-Mediated Sensory Signaling and Vascular Regulation","description":"The cluster\u2019s top GO terms cluster around GPCR signaling that activates adenylate cyclase, sensory processes (vision, visual learning, and pain perception), and physiological modulation of vasculature (blood pressure and vasoconstriction). This suggests a common function in signaling pathways that govern sensory processing and cardiovascular regulation, with additional signaling-related and immune response terms providing a broader signaling context. The electron transport chain term appears as a general metabolic annotation but doesn\u2019t define the core theme. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":14},{"id":"GO:0022900","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0035025","count":14},{"id":"GO:0045907","count":12}]},{"hash":"627190697267383547","title":"Neural development and cell adhesion with immune activity","description":"Top terms indicate strong signals for cell adhesion (homophilic/heterophilic) and nervous system development (including synapse assembly), along with immune-related processes (innate immune response, complement activation, phagocytosis) and remodeling activities (proteolysis, ossification). This points to a coherent theme of adhesion-mediated neural development with concurrent immune and extracellular remodeling contexts.","confidence":"Medium","size":28,"edges":76,"triangles":44,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":19},{"id":"GO:0007157","count":19},{"id":"GO:0043931","count":17},{"id":"GO:0006958","count":15},{"id":"GO:0051965","count":15}]},{"hash":"737045397866766282","title":"Cell adhesion and transcytosis","description":"The cluster is mainly driven by GO terms for cell adhesion (GO:0007155) and transcytosis (GO:0045056), suggesting proteins involved in cell\u2013cell interactions and vesicle-mediated transport. Other terms are diverse and include developmental processes and signaling, but they appear less cohesive. Therefore, a concise label focusing on adhesion and trafficking best captures the core function of the cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":3},{"id":"GO:0045056","count":3},{"id":"GO:0019877","count":3},{"id":"GO:0009089","count":3},{"id":"GO:1903955","count":2}]},{"hash":"1975706999870395153","title":"DNA Damage Response and Telomere Maintenance","description":"The top GO terms cluster around nuclear processes tied to genomic stability: DNA replication, DNA repair, and telomere maintenance via telomerase, along with poly-ADP-ribosylation and p53-mediated apoptotic signaling in response to DNA damage. This suggests a cohesive theme of DNA damage response and cellular fate decisions. While a few terms touch on stem cell differentiation or behavioral phenotypes, the dominant signal is genomic maintenance and damage response.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":2},{"id":"GO:0006261","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0000289","count":2},{"id":"GO:0048863","count":2}]},{"hash":"1195492270047252018","title":"Unknown","description":"The top GO terms cover a broad, unrelated mix of processes\u2014from centrosome and mitotic cycling to transcription, RNA processing, telomere maintenance, and even neural/sensory and fertilization processes\u2014showing no single cohesive function tying the cluster together. ","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007098","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0060291","count":3}]},{"hash":"1578598931904275548","title":"Embryonic development and morphogenesis","description":"The GO terms cluster around embryogenesis and tissue formation across multiple lineages\u2014mesoderm development, left/right patterning, placental/trophoblast differentiation, cartilage and hair follicle morphogenesis, and EMT events\u2014indicating a shared role in developmental patterning and morphogenesis 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:0060806","count":28},{"id":"GO:0060707","count":28},{"id":"GO:0060972","count":28},{"id":"GO:0003323","count":28},{"id":"GO:0003198","count":28}]},{"hash":"1205327189909462001","title":"Dopamine GPCR Signaling and Metabolic Stress Responses","description":"This cluster is dominated by GO terms for adenylate cyclase-activating GPCR signaling, including the dopamine receptor pathway, and also includes metabolism-related terms (electron transport chain, diet-induced thermogenesis) along with temperature/prostaglandin responses and defense to bacteria. The combined set suggests a cohesive theme where GPCR signaling interfaces with metabolic regulation and stress/immunity responses.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":18},{"id":"GO:0022900","count":18},{"id":"GO:0045777","count":18},{"id":"GO:0035025","count":18},{"id":"GO:0008283","count":17}]},{"hash":"516413881756449778","title":"Unknown","description":"The top GO terms include several vision-related processes (visual learning, photoreceptor cell maintenance, visual perception) but also a spread of cardiovascular, signaling, neural and immune functions (heart development, positive regulation of blood pressure, ERK cascade regulation, monocyte chemotaxis, cocaine response, prostaglandin response). Because these terms point to multiple, diverse biological themes with no single dominant function, there is no coherent label that captures the cluster\u2019s overall biology. Therefore I assign Unknown with None.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":14},{"id":"GO:0045494","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0007507","count":13},{"id":"GO:0045777","count":13}]},{"hash":"407059791851095661","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006261","count":4},{"id":"GO:0000289","count":4},{"id":"GO:0010606","count":4},{"id":"GO:0000738","count":4},{"id":"GO:0002107","count":3}]},{"hash":"94136674622934515","title":"Embryonic organogenesis and morphogenesis","description":"This cluster centers on developmental processes across multiple organs (kidney ureteric bud branching, limb, nervous system, lung, heart) and includes signaling pathways such as BMP and ERK, indicating proteins involved in broad embryonic organogenesis and morphogenesis rather than a single specific function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001658","count":6},{"id":"GO:0055114","count":4},{"id":"GO:0035116","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0007399","count":4}]},{"hash":"1267305571559245937","title":"Calcium signaling via GPCR and kinases","description":"Top GO terms indicate calcium release modulation, GPCR- and Wnt-related calcium signaling, and phosphorylation/kinase activity, suggesting a shared function in calcium-dependent signal transduction and kinase cascades. Despite some older or unrelated terms, the cluster appears to center on calcium dynamics and phosphorylation-driven signaling.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007205","count":5},{"id":"GO:0051281","count":4},{"id":"GO:0007223","count":4},{"id":"GO:0071902","count":4},{"id":"GO:0031954","count":4}]},{"hash":"2251855344605109621","title":"Rho-GTPase\u2013driven developmental signaling","description":"This cluster centers on developmental processes and signaling pathways, notably Rho-family GTPase signaling and positive regulation of GTPase activity, which link cytoskeletal dynamics to growth and differentiation (heart, skeletal, nervous system development). It also includes components of calcium-dependent exocytosis and dopamine receptor\u2013PLC/cAMP signaling, suggesting an integrated network of signaling that coordinates development and cellular communication. The presence of pseudohyphal growth hints at conserved signaling mechanisms across species. ","confidence":"Medium","size":27,"edges":333,"triangles":2509,"max_degree":26,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007507","count":19},{"id":"GO:0043547","count":15},{"id":"GO:0007124","count":15},{"id":"GO:0007266","count":15},{"id":"GO:0001501","count":15}]},{"hash":"365351435107157762","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":18},{"id":"GO:0009636","count":5},{"id":"GO:0045071","count":5},{"id":"GO:0070126","count":5},{"id":"GO:0046677","count":5}]},{"hash":"367964429568485408","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0000398","count":8},{"id":"GO:0036265","count":7},{"id":"GO:0007420","count":7}]},{"hash":"1478078581496377799","title":"RNA splicing regulation and translation initiation","description":"The top GO terms cluster around spliceosome-mediated mRNA processing and its regulation (alternative splicing, mRNA stability under stress, splicing via spliceosome, ncRNA-mediated silencing) alongside translation initiation/preinitiation complex formation and even IRES-dependent viral initiation. This suggests a cohesiveFunctional theme in RNA processing and control of translation, including viral contexts.","confidence":"High","size":27,"edges":299,"triangles":2039,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":18},{"id":"GO:0048026","count":17},{"id":"GO:0031047","count":17},{"id":"GO:0000381","count":17},{"id":"GO:0006378","count":17}]},{"hash":"2139596706742401108","title":"Embryonic development and morphogenesis","description":"The top GO terms cluster around developmental processes across multiple tissues\u2014endocardial cushion EMT, cartilage morphogenesis, left-right pattern formation, placenta/embryonic development, pancreatic endocrine lineage, and trophoblast differentiation\u2014indicating a group of proteins involved in embryonic organogenesis and tissue patterning. Ubiquitin-related processes are present but ancillary to the main developmental theme.","confidence":"High","size":27,"edges":11,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":8},{"id":"GO:0042787","count":8},{"id":"GO:0051865","count":8},{"id":"GO:0002250","count":7},{"id":"GO:0003323","count":7}]},{"hash":"1366264532303375166","title":"Heart Morphogenesis and Development","description":"The cluster shows strong representation of GO terms tied to heart formation, including ventricular morphogenesis, embryonic heart tube development, and ductus arteriosus closure, indicating a coherent theme of cardiac development. Other terms like glucose homeostasis and regulation of TGF-\u03b21 production are present but less central to the core cardiac function.","confidence":"High","size":27,"edges":223,"triangles":1028,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0055010","count":14},{"id":"GO:0003208","count":14},{"id":"GO:0032914","count":14},{"id":"GO:0003146","count":14},{"id":"GO:2000320","count":14}]},{"hash":"1629335283854660310","title":"DNA Repair and Cell Cycle Regulation","description":"This cluster centers on genome maintenance and progression through the cell cycle, as indicated by multiple GO terms for DNA repair, DNA replication, chromosomal condensation, and cell-cycle transitions (e.g., meiotic and mitotic re-entry). Some glycosylation or RNA processing terms appear as minor associations, but the dominant signal is DNA damage response and replication machinery.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":6},{"id":"GO:0071479","count":3},{"id":"GO:0051321","count":3},{"id":"GO:0006487","count":3},{"id":"GO:0006261","count":2}]},{"hash":"834123337150002865","title":"Development and stress-response signaling","description":"The cluster shows enrichment in developmental processes across tissues (heart, hippocampus, lung epithelial differentiation) and neural plasticity (long-term potentiation), coupled with stress-related pathways (NF-kappaB signaling, glucocorticoid response, hypoxia, xenobiotic response) and regulation of GTPase activity, suggesting proteins that participate in signaling networks coordinating development with environmental and cellular stress responses. An outlier term related to karyogamy may reflect annotation noise rather than a shared function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0043123","count":6},{"id":"GO:0035690","count":6},{"id":"GO:0000742","count":5},{"id":"GO:0001666","count":5}]},{"hash":"579547854536727259","title":"RNA processing and ribosome biogenesis","description":"This cluster is enriched for RNA metabolism and ribosome-related processes: multiple terms for mRNA export and splicing regulation, ncRNA-mediated silencing, and especially rRNA maturation and ribosomal subunit biogenesis, alongside translation initiation and preinitiation complex formation. These together point to a coordinated role in RNA processing and assembly of the translation machinery, with ancillary vesicle transport processes likely reflecting broader cellular logistics.","confidence":"High","size":27,"edges":88,"triangles":124,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0002188","count":5}]},{"hash":"1508429665864107597","title":"Chromatin-based transcriptional repression in development","description":"The cluster is enriched for GO terms about negative regulation of transcription by RNA polymerase II and chromatin-related processes (DNA methylation and histone modification) with several development-related terms such as placenta morphogenesis and spermatid differentiation, plus spindle assembly, suggesting a nucleus-centered module that represses gene expression through chromatin remodeling during development and gametogenesis.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:1901536","count":8},{"id":"GO:0045869","count":7},{"id":"GO:0060669","count":7},{"id":"GO:0051225","count":7}]},{"hash":"1435937884573850522","title":"GTPase Signaling and Cell Migration","description":"The top GO terms emphasize small GTPase-mediated signaling (GO:0007264), positive regulation of GTPase activity (GO:0043547), and cell migration (GO:0016477), pointing to a cohesive function in GTPase-driven regulation of cytoskeleton and movement. Additional terms touch on cardiovascular/endothelial remodeling and sensory signaling, suggesting a broader signaling network tied to migration and tissue dynamics. Overall, the cluster centers on GTPase-driven signaling related to cell movement.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0098907","count":6},{"id":"GO:0097497","count":6},{"id":"GO:0097284","count":6}]},{"hash":"1433063344102948801","title":"mRNA processing and translation initiation","description":"This cluster centers on translation initiation and reinitiation (GO:0002188, GO:0001731, GO:0075522) along with mRNA processing and splicing via the spliceosome (GO:0045292, GO:0006378, GO:0048026), plus regulation of poly(A) tail length and splicing, indicating a cohesive role in RNA maturation and control of translation initiation. The presence of IRES-dependent initiation further supports a focus on alternative translation initiation mechanisms linked to RNA processing events.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":16},{"id":"GO:0001731","count":16},{"id":"GO:0045292","count":12},{"id":"GO:0006378","count":12},{"id":"GO:1903586","count":11}]},{"hash":"1847216256458913917","title":"Immune signaling and phagocytosis activation","description":"This cluster is dominated by immune-related GO terms: innate immune response, B cell receptor signaling, Fc-epsilon receptor signaling, complement activation, and phagocytosis recognition, plus interleukin-2 regulation, indicating proteins involved in both innate and adaptive immune signaling and effector functions. Some outlier terms (lens morphogenesis, sodium transport) exist but do not override the overall immune-defense theme.","confidence":"High","size":27,"edges":9,"triangles":0,"max_degree":4,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0010765","count":13},{"id":"GO:0045087","count":12},{"id":"GO:0046718","count":11},{"id":"GO:0007157","count":11},{"id":"GO:0050853","count":11}]},{"hash":"1045027615763319493","title":"Adhesion-driven development and tissue remodeling","description":"The top GO terms are dominated by cell-cell adhesion (heterophilic and homophilic) and several development-related processes (nervous system development, ossification, angiogenesis, synapse assembly). Additional terms reference immune interactions (innate immune response, neutrophil extravasation) and host\u2013symbiont entry, suggesting a broad theme where cell adhesion underpins developmental remodeling and tissue organization with immune involvement. This makes the label \"Adhesion-driven development and tissue remodeling\" a concise, specific summary of the cluster\u2019s function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0007399","count":10},{"id":"GO:0007156","count":9},{"id":"GO:0043931","count":9},{"id":"GO:0046718","count":8}]},{"hash":"1918073100368169979","title":"Pain and Temperature Response with Inflammation","description":"The cluster is enriched for pain perception, temperature stimulus response, thermogenesis, and inflammatory/vascular regulation terms, suggesting a shared theme of nociceptive/thermo-sensory signaling with inflammatory processes, despite one outlier term (retina development) that may reflect multifunctional proteins. ","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":20},{"id":"GO:0002024","count":19},{"id":"GO:0071502","count":19},{"id":"GO:0060041","count":18},{"id":"GO:0008283","count":18}]},{"hash":"1664361941115908546","title":"Embryonic organ development and patterning","description":"The top GO terms point to embryonic development and morphogenesis across multiple tissues, including endocrine system and pancreatic cell development, left/right patterning, placental and heart-associated EMT, and cartilage formation. While some terms reflect general cellular processes (splicing, ubiquitin-mediated degradation), the dominant signal is embryonic organogenesis and tissue patterning, justifying a label centered on developmental patterning and morphogenesis.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035270","count":9},{"id":"GO:0003323","count":9},{"id":"GO:0060972","count":9},{"id":"GO:0060707","count":9},{"id":"GO:0060536","count":9}]},{"hash":"463177499882966768","title":"Neural mechanosensory signaling and ubiquitin regulation","description":"The cluster centers on regulation of signaling and protein turnover, highlighted by strong ubiquitin-related terms (K48-linked deubiquitination and ubiquitin-dependent protein catabolic processes) and neural mechanosensory cues (negative regulation of dendrite morphogenesis, sensory perception of sound, cellular response to mechanical stimulus). Additional terms (PKA activity regulation, phosphorylation) fit into signaling modulation, with a few immune/metabolic terms present but not dominant. Overall, a coherent theme around neural mechanosensory signaling and protein turnover emerges.","confidence":"Medium","size":27,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050774","count":4},{"id":"GO:0007605","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0043029","count":4},{"id":"GO:0071108","count":4}]},{"hash":"1030603289884525162","title":"Ubiquitin-Dependent Proteolysis and Circadian Regulation","description":"The cluster is dominated by GO terms for ubiquitin-dependent proteolysis, SCF-dependent ubiquitin-protein catabolic processes, and polyubiquitination, indicating a core theme of protein degradation via the ubiquitin-proteasome system. Additional terms point to circadian rhythm regulation and stress-response pathways (methylmercury and arsenic exposure), suggesting an integration of proteolysis with circadian and cellular stress control, making this label representative.","confidence":"High","size":27,"edges":41,"triangles":12,"max_degree":11,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0031146","count":11},{"id":"GO:0042752","count":11},{"id":"GO:1903378","count":10},{"id":"GO:0000083","count":9}]},{"hash":"2148526346356133881","title":"Neural development and spinal cord patterning","description":"The top GO terms are dominated by spinal cord development (dorsal/ventral spinal cord, rhombomere 2) and transcriptional regulation related to neural specification, with a recurring theme of patterning and Wnt signaling during development. While some terms touch on other organs (eye, heart, muscle), the strongest signal centers on neural development and spinal cord patterning.","confidence":"Medium","size":27,"edges":47,"triangles":50,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0021920","count":26},{"id":"GO:0021516","count":26},{"id":"GO:0060527","count":26},{"id":"GO:0021913","count":26},{"id":"GO:2001055","count":26}]},{"hash":"155592509059526515","title":"Cardiac signaling and metabolic regulation","description":"This cluster centers on heart development, vasoconstriction, and GPCR acetylcholine signaling, all pointing to cardiovascular signaling and function. It also includes terms tied to energy metabolism such as fatty acid beta-oxidation and glycogen biosynthesis, suggesting metabolic regulation accompanying cardiac activity. A few terms (e.g., dendritic spine regulation, obsolete PI3K signaling) are less aligned but do not outweigh the cardiovascular/metabolic theme.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0010765","count":15},{"id":"GO:0007507","count":15},{"id":"GO:0035023","count":15},{"id":"GO:0061000","count":15},{"id":"GO:0045907","count":15}]},{"hash":"1871391816998325913","title":"Neuronal axon guidance and synapse formation","description":"The top GO terms are strongly tied to neuronal development\u2014axon guidance (axonal fasciculation, branchiomotor/trigeminal neuron guidance, sympathetic projection) and synapse assembly\u2014with semaphorin-plexin signaling highlighted. A few terms about skeletal development or complement activation appear but are less central, suggesting a primary theme around axon pathfinding and synaptogenesis with some annotation noise. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007413","count":13},{"id":"GO:0051965","count":12},{"id":"GO:0006958","count":12},{"id":"GO:0014068","count":12},{"id":"GO:0021785","count":11}]},{"hash":"208907423379575862","title":"Neuronal adhesion and synapse development","description":"Strong enrichment for neural cell-cell adhesion (homophilic/heterophilic), neuron adhesion, synapse assembly, and chemical synaptic transmission, along with nervous system development and corticospinal tract morphogenesis. These terms point to proteins involved in establishing and maintaining neuronal connections and synaptic communication. A few terms related to ossification and the complement pathway are present but less represented, not altering the core neural connectivity theme.","confidence":"High","size":27,"edges":177,"triangles":389,"max_degree":20,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":20},{"id":"GO:0007157","count":19},{"id":"GO:0007399","count":16},{"id":"GO:0051965","count":14},{"id":"GO:0043931","count":14}]},{"hash":"1110308547851360046","title":"Blood coagulation and thrombin signaling","description":"This cluster is dominated by terms tied to blood coagulation and thrombin signaling, including fibrinolysis, negative regulation of plasminogen activation, and thrombin-activated receptor signaling. Additional terms point to extracellular matrix remodeling and heart development, which fits a cardiovascular/hemostasis context, while a mitochondrial fission term and an outlier sensory perception of sound term suggest some annotation noise. Overall, the cluster seems to represent hemostasis and heart-associated remodeling processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":8},{"id":"GO:0007596","count":6},{"id":"GO:0042730","count":6},{"id":"GO:0007605","count":5},{"id":"GO:0003331","count":5}]},{"hash":"882284588111878215","title":"Neurovascular signaling and development","description":"The cluster centers on signaling pathways (Rho GTPase, ERK cascade, small GTPase signaling) and developmental processes spanning nervous and cardiovascular systems (heart development, nervous system development, endothelial lumen formation). Additional terms related to dopamine signaling and immune responses (lipopolysaccharide response, T cell receptor signaling) suggest broad, integrative signal transduction roles that tie neural and vascular function together.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":14},{"id":"GO:0035023","count":11},{"id":"GO:0007507","count":11},{"id":"GO:0050852","count":11},{"id":"GO:0097498","count":11}]},{"hash":"22827889422443382","title":"Post-transcriptional RNA processing and translation regulation","description":"This cluster is enriched for processes governing RNA maturation and translation: mRNA stability regulation under stress, splicing and spliceosome-mediated regulation, ncRNA-mediated gene silencing, poly(A) tail shortening, mRNA splice-site recognition, and translation reinitiation/IRES-dependent initiation. The common thread is RNA-level control of gene expression, spanning processing, surveillance, and initiation of protein synthesis.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":24},{"id":"GO:0048026","count":21},{"id":"GO:0031047","count":21},{"id":"GO:1903586","count":19},{"id":"GO:1902625","count":19}]},{"hash":"880492237817265564","title":"Neural and organ development signaling","description":"Top GO terms indicate a core theme of neural and organ formation, with nervous system development, brain development, and kidney development, plus key developmental signaling pathways such as ROBO (Roundabout) and Smoothened/Hedgehog. Rac signaling and dendrite-related regulation further tie to neuronal growth and cytoskeletal dynamics, while Golgi to plasma membrane transport hints at vesicle trafficking supporting development. Overall, the cluster appears to group proteins involved in developmental signaling governing neural and organ development, with some peripheral signaling processes. ","confidence":"High","size":27,"edges":85,"triangles":59,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":7},{"id":"GO:0001822","count":7},{"id":"GO:0007420","count":7},{"id":"GO:0035385","count":6},{"id":"GO:0007224","count":6}]},{"hash":"1099797850229383226","title":"Immune activation and thymic development","description":"This cluster centers on immune signaling and lymphoid development, with prominent terms for innate immune responses, B and T cell signaling, and thymus development. Supporting pathways like ephrin receptor and Wnt signaling suggest broader developmental signaling linked to immune cell maturation, while apoptosis and cytoskeletal terms are less central. Overall, the dominant theme is immune system activation and thymic/lymphoid development.","confidence":"Medium","size":27,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":9},{"id":"GO:0048013","count":8},{"id":"GO:0048538","count":8},{"id":"GO:0050798","count":8},{"id":"GO:0090263","count":8}]},{"hash":"1344408773516400800","title":"Neuropeptide GPCR Signaling and Thermogenesis","description":"The cluster is dominated by GO terms for GPCR signaling that activates adenylate cyclase, neuropeptide signaling, and thermogenic processes (diet-induced thermogenesis, temperature response), with supporting links to energy metabolism and vascular regulation, suggesting a cohesive role in neuropeptide-driven signaling and energy homeostasis.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":12},{"id":"GO:0022900","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0002024","count":11},{"id":"GO:0071502","count":11}]},{"hash":"1964075297809398295","title":"Mitochondrial dynamics and apoptotic signaling","description":"The top terms cluster around mitochondrial processes (fission, outer membrane permeabilization, cytochrome c release, membrane potential) and apoptosis, with supporting terms for electron transport and brown fat differentiation, suggesting a theme of mitochondria-driven remodeling and apoptotic signaling in a brown fat context.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050873","count":2},{"id":"GO:0022900","count":1},{"id":"GO:0090141","count":1},{"id":"GO:0090200","count":1},{"id":"GO:1901998","count":1}]},{"hash":"1629810293389184136","title":"Unknown","description":"The top GO terms are highly diverse, spanning neuromuscular/posture control, AMPA receptor regulation, nitrogen utilization, ion gradient maintenance, fibroblast proliferation, germ cell death, bone morphogenesis, host\u2013symbiont interactions, and general biotic-stimulus responses. With no network connections (Edges 0, Triangles 0, Max Degree 0), there isn\u2019t a single coherent function uniting these proteins, so a specific functional label isn\u2019t supported. ","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050884","count":3},{"id":"GO:2000311","count":2},{"id":"GO:0006808","count":2},{"id":"GO:0010248","count":2},{"id":"GO:0048147","count":2}]},{"hash":"1109256244359535486","title":"ECM Remodeling and Angiogenesis","description":"This cluster is dominated by terms linking extracellular matrix interactions (collagen fibril organization, integrin-mediated signaling) with vascular development processes (angiogenesis, endothelial tube morphogenesis, lung development). The convergence on ECM remodeling and endothelial/angiogenic pathways suggests the proteins function together in matrix adhesion and blood vessel formation, with other terms likely secondary context. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007229","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0030324","count":4},{"id":"GO:0045766","count":4}]},{"hash":"331924267522251288","title":"G1/S Cell Cycle Regulation and Immune Signaling","description":"The top terms center on G1/S transition, DNA-templated transcription, and CDK activity regulation, indicating a core cell cycle control role, including re-entry into mitosis. The additional signals (LPS, GM-CSF, T cell receptor, xenobiotic and insulin signaling) suggest co-regulated immune or stress-response pathways, so the cluster likely mixes cell cycle regulators with broader signaling responses.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":7},{"id":"GO:0035690","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0045737","count":6},{"id":"GO:0046626","count":5}]},{"hash":"172674469344325065","title":"Embryonic development and transcriptional regulation","description":"Top GO terms point to developmental processes across tissues (pituitary gland development, gastrulation, in utero embryonic development, eye development) and to transcriptional and epigenetic regulation (negative regulation of transcription by RNA polymerase II, regulation of DNA-templated transcription, histone deacetylation). This pattern suggests a cluster of proteins involved in orchestrating embryogenesis through transcriptional control and chromatin remodeling, making \"Embryonic development and transcriptional regulation\" an appropriate label.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021983","count":14},{"id":"GO:0000122","count":9},{"id":"GO:0007369","count":9},{"id":"GO:0016575","count":9},{"id":"GO:0007568","count":9}]},{"hash":"2112225554468709735","title":"Proliferation, transcription, and ciliogenesis","description":"The top GO terms point to cell cycle and cell proliferation (mitotic cell cycle, cell population proliferation) paired with transcriptional activity (DNA-templated transcription). The inclusion of cilium assembly and retina development suggests a link to ciliogenesis and sensory tissue context, while GO terms for GTPase activity regulation and tyrosine phosphorylation indicate broader signaling control connected to these processes. Taken together, the cluster seems centered on proliferative and transcriptional regulation with a ciliogenesis component. Medium","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0000278","count":5},{"id":"GO:0060041","count":4},{"id":"GO:0043982","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1361679652639934165","title":"Mitochondrial Translation and Ribosome Biogenesis","description":"This cluster centers on core components of protein synthesis and ribosome maturation, including histidyl- and prolyl-tRNA aminoacylation, translation, and maturation of SSU rRNA, plus regulation of translational fidelity. Several terms also point to mitochondrial function, such as mitochondrion morphogenesis and the respiratory electron transport chain, suggesting the proteins participate in mitochondrial translation and ribosome assembly, with a broader link to mitochondrial bioenergetics. A few associations (e.g., DNA biosynthetic process, epithelial proliferation) appear less central and may reflect broader cellular processes in the dataset. Overall, the cohesive theme is mitochondrial translation machinery and ribosome biogenesis.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006427","count":3},{"id":"GO:0050679","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0015966","count":2}]},{"hash":"1244123957116193927","title":"Epidermis development and morphogenesis","description":"This cluster centers on epidermal differentiation and morphogenetic processes, highlighted by terms for epidermis development, keratinization, and dorsal closure, which together describe skin formation and movement of epidermal cells. While a few terms (e.g., eye development or heat response) are less skin-specific, the dominant theme is epidermal morphogenesis, giving a reasonable, but not exclusive, representation. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008625","count":3},{"id":"GO:0006446","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0032515","count":2}]},{"hash":"431176082586589024","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060237","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0070478","count":3},{"id":"GO:0000465","count":3}]},{"hash":"21028552874773782","title":"Airway Inflammation and Vascular Regulation","description":"Based on the enrichment of GO terms related to inflammatory response modulation (eosinophil chemotaxis; positive regulation of chronic inflammatory response), vascular functions (vasoconstriction; smooth muscle contraction), and lung/mucosal tissue processes (lung connective tissue development; saliva secretion), the cluster appears to group proteins involved in airway mucosal immunity and regulation of blood flow/airway tone. Some terms seem heterogeneous or outdated (obsolete GO, operant conditioning, peptidoglycan catabolism), likely reflecting annotation noise or broad multifunctionality, but the core theme is respiratory inflammatory signaling and vascular regulation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035625","count":22},{"id":"GO:0002882","count":19},{"id":"GO:0035106","count":19},{"id":"GO:0046541","count":19},{"id":"GO:0009253","count":19}]},{"hash":"850873919375282615","title":"Fc receptor\u2013mediated immune activation and phagocytosis","description":"This cluster\u2019s top GO terms cluster around Fc receptor signaling (both Fc-epsilon and Fc-gamma), endocytosis and phagocytosis pathways, complement activation, neutrophil extravasation, and T cell costimulation, all hallmarks of immune cell activation and uptake processes. While a few terms (adipose development, synapse maturation, macroautophagy) are broader or less directly tied, the dominant theme is immune receptor signaling and phagocytic activity.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060612","count":3},{"id":"GO:0016236","count":3},{"id":"GO:0038095","count":3},{"id":"GO:0060074","count":3},{"id":"GO:0072672","count":3}]},{"hash":"594599646921329998","title":"Developmental differentiation signaling","description":"The top GO terms point to differentiation and development across multiple tissues (heart morphogenesis, venous endothelial differentiation, osteoblast differentiation, and cerebellar granule cell differentiation), with Notch signaling in heart field supporting a developmental pathway, plus broader regulatory processes like GTPase activity and pinocytosis that can influence differentiation. The diversity of tissues and processes suggests a general developmental signaling cluster rather than a single pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048549","count":8},{"id":"GO:0003270","count":8},{"id":"GO:0007205","count":8},{"id":"GO:0060843","count":8},{"id":"GO:0071901","count":8}]},{"hash":"797957886366283679","title":"Regulation of Signaling and Growth","description":"This cluster centers on GO terms that describe regulation across diverse cellular processes, including ephrin receptor signaling, synaptic plasticity via receptor localization, multicellular growth, and the mitotic cell cycle, as well as proteasome assembly and telomere maintenance regulation. The shared theme is general regulatory control over signaling, proliferation, and proteostasis, rather than a single, cohesive pathway, hence a broad \u201cRegulation of Signaling and Growth\u201d label with medium confidence.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1901187","count":9},{"id":"GO:1900383","count":9},{"id":"GO:0035264","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0000083","count":8}]},{"hash":"644265348409452130","title":"Neural development and glycinergic neurotransmission","description":"The top GO terms jointly point to brain development (thalamus and striatum) and neural signaling, especially glycinergic synaptic transmission, with supporting roles for amino acid transport (taurine, leucine, proline) and related metabolic context. This suggests a cluster centered on neural development and inhibitory neurotransmission mediated by glycine, with accompanying amino acid transport activities.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0021794","count":7},{"id":"GO:0055114","count":6},{"id":"GO:0021756","count":6},{"id":"GO:0006098","count":5},{"id":"GO:0042420","count":4}]},{"hash":"1499238890502176649","title":"Broad Cellular Response to Stimuli","description":"This cluster shows GO terms spanning heat response, pH and estrogen signaling, fluid shear stress, and transport/metabolic processes (CO2 transport, chloride transport, one-carbon metabolism), suggesting proteins broadly involved in sensing and responding to diverse environmental and hormonal cues, rather than a single pathway, with linked transport/metabolic activities.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900035","count":2},{"id":"GO:0015670","count":2},{"id":"GO:0043627","count":2},{"id":"GO:0009268","count":2},{"id":"GO:0070445","count":2}]},{"hash":"1917218474458866876","title":"Unknown","description":"The GO terms listed cover inflammatory regulation, vascular functions, secretory processes, and sensory/behavioral phenotypes with no clear, single unifying theme. The mix of immune, cardiovascular, glandular, and sensory terms suggests a broad, non-specific cluster rather than a coherent biological function.","confidence":"","size":26,"edges":308,"triangles":2230,"max_degree":25,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":25},{"id":"GO:0035106","count":25},{"id":"GO:0046541","count":25},{"id":"GO:0009253","count":25},{"id":"GO:0014829","count":25}]},{"hash":"2065854222986890607","title":"Chromatin modification and cell-cycle regulation","description":"This cluster centers on chromatin state and transcription control, evidenced by GO terms for DNA-templated transcription, multiple histone modifications (K4, K27, K79 methylation; acetylation), and regulation of gene expression, along with cell-cycle processes (anaphase-promoting complex\u2013dependent catabolic process, cell division, growth). The combination suggests proteins involved in epigenetic regulation and orchestration of the cell cycle. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0051568","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0061087","count":4},{"id":"GO:0031145","count":4}]},{"hash":"1944525497395075633","title":"Developmental signaling and cytoskeletal remodeling","description":"The GO terms show developmental processes (uterus development; anterior/posterior pattern specification; forebrain development) together with signaling pathways (EGFR signaling; TGF-beta stimulus) and cytoskeletal dynamics (lamellipodium and microspike assembly, lamellipodium morphogenesis) and Rho signaling, suggesting proteins that coordinate development through growth factor signaling and actin remodeling.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060065","count":6},{"id":"GO:0009952","count":5},{"id":"GO:0030900","count":5},{"id":"GO:0071560","count":5},{"id":"GO:1900042","count":4}]},{"hash":"1905349685418995391","title":"Translation Initiation and mRNA Processing","description":"The top GO terms show a clear focus on translation initiation (reinitiation, preinitiation complex formation, IRES-dependent initiation, viral initiation/termination-reinitiation) and on mRNA processing steps (polyadenylation, poly(A) tail regulation, and splicing). This suggests a cohesive module that links how mRNA is processed and prepared for translation with the initiation machinery. Some terms are obsolete, but the core theme remains transcription/translation-coupled mRNA handling.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":14},{"id":"GO:0001731","count":14},{"id":"GO:0075522","count":13},{"id":"GO:0075525","count":13},{"id":"GO:0006446","count":13}]},{"hash":"83329676130572561","title":"Proteostasis and gene expression regulation","description":"The cluster centers on ubiquitin-proteasome\u2013mediated protein turnover and deubiquitination, indicating a core proteostasis function. It also includes terms for RNA processing and translation initiation/preinitiation complex formation, plus cell division-related processes, suggesting a broader coordination of protein synthesis/degradation with RNA processing and cell cycle events. Confidence in this label is Medium.","confidence":"","size":26,"edges":136,"triangles":252,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0010950","count":5},{"id":"GO:0043161","count":5},{"id":"GO:0000281","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0035871","count":4}]},{"hash":"1992529961488583378","title":"RNA processing and translation initiation cluster","description":"The proteins cluster around mRNA processing and translation control, including translation initiation/reinitiation, formation of the preinitiation complex, and spliceosome-mediated alternative splicing, plus regulation of mRNA stability under stress. This points to a cohesive role in post-transcriptional gene expression regulation.","confidence":"High","size":26,"edges":36,"triangles":52,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":11},{"id":"GO:0001731","count":11},{"id":"GO:0000381","count":10},{"id":"GO:0000380","count":10},{"id":"GO:0010610","count":10}]},{"hash":"1716628286033220051","title":"Osteoblast and adipocyte lineage commitment","description":"This cluster is strongly enriched for GO terms about adipose tissue development and osteoblast fate commitment, indicating a mesenchymal lineage decision between fat and bone. Additional membrane remodeling terms (podosome assembly, tubulation, raft distribution) suggest dynamic cytoskeletal/membrane changes linked to differentiating osteoblasts/adipocytes, even though some terms relate to broader signaling. Overall, the core theme is lineage specification toward bone and fat cells.","confidence":"High","size":26,"edges":50,"triangles":34,"max_degree":22,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1904179","count":25},{"id":"GO:0060348","count":25},{"id":"GO:0097320","count":25},{"id":"GO:0060378","count":25},{"id":"GO:0071800","count":25}]},{"hash":"2117750946059301553","title":"Adaptive immune activation and phagocytosis","description":"The terms cluster around adaptive immunity (B cell receptor signaling, positive regulation of B cell activation, T cell proliferation, immunological synapse) and innate processes (complement activation, innate immune response) with phagocytosis-related recognition/engulfment and immune cell adhesion. This suggests a module coordinating antibody-mediated signaling, lymphocyte activation, and phagocytic interactions.","confidence":"High","size":26,"edges":13,"triangles":1,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":15},{"id":"GO:0045087","count":14},{"id":"GO:0007156","count":14},{"id":"GO:0007157","count":14},{"id":"GO:0050853","count":13}]},{"hash":"90784203225279571","title":"GPCR-mediated sensory perception and signaling","description":"Top terms cluster around GPCR signaling linked to sensory perception (pain, vision) and downstream ERK activation, with prostaglandin signaling and drug-response phenotypes. The cluster thus likely represents GPCRs involved in sensory signal transduction and related physiological responses (thermogenesis, temperature response).","confidence":"High","size":26,"edges":168,"triangles":309,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":25},{"id":"GO:0007601","count":24},{"id":"GO:0002031","count":24},{"id":"GO:0007507","count":24},{"id":"GO:0022400","count":24}]},{"hash":"2063473066687741046","title":"Neural plasticity and myelination","description":"The proteins are enriched for neural-related functions: memory, regulation of short-term neuronal synaptic plasticity, calcium signaling, and integrin-mediated signaling in neurons, alongside myelination. These collectively point to neuronal signaling and plasticity with glial-associated myelination as a core theme. Some terms like skin development, hypoxia, and cold response appear as broader or secondary associations, but the dominant signal is neural function and synaptic modulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":5},{"id":"GO:0071456","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0098703","count":4},{"id":"GO:0007229","count":3}]},{"hash":"609004181469686650","title":"Embryonic organ morphogenesis and transcriptional regulation","description":"The cluster is dominated by GO terms pointing to broad embryonic development across multiple organs (digestive tract morphogenesis, pancreas development, neural crest cell migration, brain segmentation, lung morphogenesis, eye morphogenesis, skeletal muscle development) and includes both transcription by RNA polymerase II and regulation of transcription, suggesting coordinated gene-expression control during organogenesis rather than a single tissue-specific function.","confidence":"High","size":26,"edges":37,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":20},{"id":"GO:0048557","count":16},{"id":"GO:0090190","count":16},{"id":"GO:0031018","count":16},{"id":"GO:0001755","count":16}]},{"hash":"2211677288363689006","title":"Embryonic development and morphogenesis","description":"The proteins cluster around diverse embryonic development processes: craniofacial (roof of mouth) development, mesoderm formation, cartilage morphogenesis, placental and endocrine system development, left-right patterning, and EMT events in heart formation, indicating a cohesive role in embryogenesis and tissue morphogenesis.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":20},{"id":"GO:0060806","count":18},{"id":"GO:0060972","count":18},{"id":"GO:0060536","count":18},{"id":"GO:0035270","count":18}]},{"hash":"2210014944452780841","title":"T Cell Activation and Cytokine Signaling","description":"The cluster shows strong enrichment for T cell receptor signaling, IL-2 production, macrophage/monocyte differentiation, and responses to TGF-beta and M-CSF, pointing to coordinated adaptive immune signaling and cytokine regulation. While a few terms touch on other signaling axes (cGMP and cardiac-related processes), these do not define the main functional theme of the cluster.","confidence":"High","size":26,"edges":60,"triangles":43,"max_degree":23,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0050852","count":17},{"id":"GO:0019933","count":13},{"id":"GO:0071560","count":13},{"id":"GO:0071321","count":12},{"id":"GO:0032729","count":12}]},{"hash":"866709207468110731","title":"Steroid Hormone Biosynthesis and Development","description":"The top terms point to steroid-related biology across kingdoms (cortisol biosynthesis in animals; brassinosteroid homeostasis and ent-kaurene oxidation in plants) along with development-related GO terms (female gonad development, mammary gland development, hepatocyte differentiation), suggesting a theme of hormone-driven development and stress regulation. Some terms (stress response, detoxification) are broader, but the core signal is steroid hormone biosynthesis linked to development, yielding a Medium confidence.","confidence":"Medium","size":26,"edges":41,"triangles":13,"max_degree":12,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0008585","count":14},{"id":"GO:0010241","count":14},{"id":"GO:0030879","count":14},{"id":"GO:0032259","count":14},{"id":"GO:0035902","count":14}]},{"hash":"1241958417826843312","title":"Mitochondrial membrane potential and metabolite transport","description":"This cluster centers on mitochondrial-related processes: regulation of mitochondrial membrane potential and permeability, and transport of metabolites such as NAD, deoxynucleotides, manganese, thiamine pyrophosphate, and ATP. The presence of amino acid starvation response and necroptosis regulation terms further ties the set to mitochondrial energy status and stress signaling. Together, these terms point to a coherent theme of mitochondrial transport and energy regulation rather than disparate functions.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060546","count":7},{"id":"GO:0051881","count":7},{"id":"GO:0034198","count":6},{"id":"GO:0046902","count":6},{"id":"GO:0097274","count":6}]},{"hash":"2133023752745359046","title":"Developmental organogenesis and transcription regulation","description":"This cluster features multiple development-related terms across various organs (retina, inner ear, osteoblasts, pituitary) and morphogenesis, plus transcriptional regulation by RNA polymerase II, suggesting a theme of developmental organogenesis governed by transcription control. The diversity of tissue-specific developmental terms alongside transcription regulation supports a coherent high-level function around development and gene expression. ","confidence":"Medium","size":26,"edges":324,"triangles":2576,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0060041","count":12},{"id":"GO:0002087","count":10},{"id":"GO:0002076","count":10},{"id":"GO:0021983","count":9}]},{"hash":"1274828756922939770","title":"Embryonic morphogenesis and patterning","description":"The proteins are dominated by GO terms for embryonic development across multiple tissues (palate, cartilage, placenta, pancreas) and left-right patterning, plus related transcriptional regulation, suggesting a cohesive role in developmental morphogenesis and tissue specification.","confidence":"High","size":26,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":10},{"id":"GO:0060806","count":10},{"id":"GO:0060536","count":10},{"id":"GO:0035270","count":10},{"id":"GO:0060972","count":10}]},{"hash":"761016899402696188","title":"DNA Repair and Transcription Regulation","description":"The top GO terms center on nucleotide-excision repair, especially transcription-coupled repair and pyrimidine dimer repair, plus responses to UV and regulation of transcription, which together point to a DNA damage response coupled with transcription control. A few other terms (eye morphogenesis, heterochronic development, insulin secretion) may reflect broader multifunctionality or annotation overlaps, but the core theme is DNA repair and transcription regulation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006283","count":3},{"id":"GO:0048597","count":3},{"id":"GO:0061178","count":3},{"id":"GO:0010224","count":3},{"id":"GO:0010225","count":3}]},{"hash":"1716820713687441788","title":"Neural adhesion and CNS development proteins","description":"The top terms cluster around neural connectivity and maturation: heterophilic and homophilic cell-cell adhesion, axonal fasciculation, synapse assembly, CNS development, and myelination. These point to functions in neural circuit formation and nerve insulation, with some bone-related terms present but likely secondary. Confident this cluster centers on neural adhesion and CNS development.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":12},{"id":"GO:0051965","count":12},{"id":"GO:0007413","count":10},{"id":"GO:0007156","count":10},{"id":"GO:0043931","count":10}]},{"hash":"157078313380775674","title":"DNA replication and mitosis machinery","description":"This cluster is dominated by GO terms for DNA-templated transcription, DNA replication, centromere (CENP-A) chromatin assembly, microtubule severing, and cell division, pointing to proteins involved in nuclear genome maintenance and chromosome segregation. Some terms related to ERAD/ER-Golgi transport appear but do not define the core theme; overall, the set most coherently reflects replication and mitotic/chromosome dynamics.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0070651","count":4},{"id":"GO:0061641","count":4},{"id":"GO:0051013","count":4}]},{"hash":"1106449093564364103","title":"Cell Cycle and RNA Processing","description":"Top GO terms show strong signals for mitotic cell cycle and cell division (mitosis, APC/C-dependent catabolic process, regulation of G2/M) alongside RNA processing (mRNA splicing via spliceosome). The presence of ubiquitination (K11-linked) and chromatin modification hints suggests coordinated control of protein turnover and chromatin state during the cell cycle. Together these points support labeling this cluster as related to cell cycle progression with concurrent RNA processing regulation, rather than a single, narrow function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0070979","count":3},{"id":"GO:0061087","count":3},{"id":"GO:0031145","count":3}]},{"hash":"662437881524654751","title":"Ubiquitin-mediated regulation of signaling and development","description":"This cluster is dominated by ubiquitin-related processes: multiple terms for ubiquitin-dependent protein catabolism, autoubiquitination, and specific ubiquitin linkages (K48, K33). These are complemented by GO terms linking ubiquitination to broader signaling and developmental contexts, including circadian rhythm regulation, TNF signaling, B cell receptor signaling, nervous system development, skeletal muscle differentiation, and peroxisomal protein import. Together, the proteins likely function as a ubiquitin-regulated hub coordinating protein turnover with signaling and developmental pathways.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0042752","count":10},{"id":"GO:0051865","count":9},{"id":"GO:0035914","count":9},{"id":"GO:0016558","count":8}]},{"hash":"2041142168759078917","title":"Ubiquitin-Linked Developmental Regulation","description":"Top GO terms indicate ubiquitination processes (protein ubiquitination, ERAD pathway) intertwined with multicellular development (skin, forebrain) and circadian regulation, plus cilium assembly and transcriptional control. This suggests a cluster of proteins coordinating developmental programs through ubiquitin-mediated signaling and related processes. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":4},{"id":"GO:0007275","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0032922","count":2}]},{"hash":"963659483566695800","title":"Immune receptor signaling and angiogenesis","description":"Top GO terms indicate Fc-epsilon receptor signaling, B cell receptor signaling, T cell receptor signaling, and phagocytosis, along with angiogenesis and endothelial cell migration. This points to a cluster centered on immune signaling (adaptive and FcR-mediated pathways) with concurrent vascular remodeling in inflammatory contexts. Some metabolic or developmental terms appear less central but are present in the set.","confidence":"Medium","size":25,"edges":22,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":7},{"id":"GO:0001525","count":7},{"id":"GO:0050853","count":6},{"id":"GO:0043536","count":6},{"id":"GO:0006909","count":5}]},{"hash":"542310499836882588","title":"Mitotic Regulation and Proliferation Signaling","description":"This cluster is dominated by GO terms related to cell division and growth control (mitotic cell cycle, mitotic spindle assembly, positive regulation of cell population proliferation) along with signaling and phosphorylation activities (positive regulation of GTPase activity, positive regulation of protein serine/threonine kinase activity, protein autophosphorylation). The convergence on mitosis and kinase/GTPase signaling suggests a coherent theme of regulating cell division and proliferation. Some terms like neuron projection development and mRNA transport are less central here, but the core signals point to cell cycle regulation and growth signaling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":12},{"id":"GO:0071456","count":11},{"id":"GO:0051260","count":11},{"id":"GO:0071902","count":11},{"id":"GO:0051028","count":11}]},{"hash":"642346641196149171","title":"Dopaminergic Signaling and Drug Response","description":"The top GO terms cluster around neural signaling and sensory processing, including dopaminergic synaptic transmission, visual perception and learning, sensory perception of pain, and behavioral responses to cocaine and morphine, along with ERK/MAPK cascade regulation in neurons. This suggests a cohesive theme of neuronal signaling and drug reward/response. Peripheral terms like heart development and macrophage chemotaxis appear less central but may reflect broader pleiotropy. Confidence: Medium","confidence":"","size":25,"edges":241,"triangles":1247,"max_degree":24,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":13},{"id":"GO:0007601","count":12},{"id":"GO:0070374","count":12},{"id":"GO:0048148","count":12},{"id":"GO:0043278","count":12}]},{"hash":"111752997792188169","title":"Antiviral Response and RNA Silencing","description":"This cluster centers on antiviral defense and post-transcriptional regulation: terms like response to virus, response to interferon-alpha, negative regulation of viral genome replication, and RISC complex assembly point to antiviral signaling and RNA interference. The inclusion of translation and ribosome biogenesis suggests these proteins also support general protein synthesis needed during immune responses, while JNK cascade upregulation indicates stress-related signaling linked to defense. Overall, a cohesive theme around antiviral response and RNA silencing, with some housekeeping functions.","confidence":"Medium","size":25,"edges":298,"triangles":2255,"max_degree":24,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0009636","count":7},{"id":"GO:0045071","count":7},{"id":"GO:0009615","count":5},{"id":"GO:0035455","count":5}]},{"hash":"623125093356200999","title":"Mitochondrial Translation and Cardiac Function","description":"The top GO terms cluster around mitochondrial protein synthesis and maintenance (translation; regulation of translational fidelity; mitochondrial seryl-tRNA aminoacylation; protein import into the mitochondrial matrix; protein stabilization; diadenosine tetraphosphate biosynthesis), indicating a mitochondrial translation machinery theme. accompany\u00ading terms related to heart biology (heart development; SA node cell action potential regulation) and glucose-stimulated insulin secretion suggest a link to cardiac metabolic regulation. Together, these points support a cohesive module tying mitochondrial translation to cardiac function and metabolism.","confidence":"Medium","size":25,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006450","count":2},{"id":"GO:0035774","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0098907","count":2}]},{"hash":"1579114060116525171","title":"Tyrosine phosphatases repress TCR and ERK signaling","description":"This cluster is dominated by GO terms for negative regulation of T cell receptor signaling and the ERK/MAPK cascade, plus peptidyl-tyrosine dephosphorylation. That combination points to protein tyrosine phosphatases as central players dampening immune signaling and MAPK activity. The neural development terms (axon regeneration, cerebellar cortex formation, Bergmann glial differentiation) suggest these phosphatases may also play roles in neural development or glial signaling, aligning with multifunctional PTP/DUSP enzymes.","confidence":"High","size":25,"edges":294,"triangles":2168,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":20},{"id":"GO:0070373","count":20},{"id":"GO:0000200","count":20},{"id":"GO:0035335","count":14},{"id":"GO:0048679","count":14}]},{"hash":"2301518414738581146","title":"DNA replication and genome integrity stress response","description":"This cluster centers on genome maintenance activities: DNA replication and primer synthesis, DNA topological changes and unwinding, repair signaling (SOS), and related quality control (nonsense-mediated decay) and apoptosis, with supportive cell cycle and developmental terms. Together these suggest a module focused on preserving genome integrity during replication and cellular stress.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045087","count":9},{"id":"GO:0090307","count":9},{"id":"GO:0006915","count":8},{"id":"GO:0000184","count":7},{"id":"GO:0006306","count":7}]},{"hash":"1480250525851064555","title":"Ribosome Biogenesis and Protein Translation","description":"Proteins in this cluster are enriched for translation-related GO terms (translation; cytoplasmic translation; mRNA processing) and ribosome biogenesis, indicating involvement in making and assembling the protein-synthesis machinery. Additional terms point to antiviral responses (response to interferon-alpha, response to virus) and cell-cycle processes, but the dominant theme centers on ribosome function and protein synthesis.","confidence":"High","size":25,"edges":161,"triangles":403,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0042254","count":9},{"id":"GO:0002181","count":6},{"id":"GO:0035455","count":6},{"id":"GO:0045071","count":6}]},{"hash":"41511691712027972","title":"Unknown","description":"The top GO terms span very diverse processes (growth factor signaling, neurotransmitter regulation, GPCR/cGMP signaling, immune responses, olfactory perception, and protein oligomerization) with no single dominant function connecting most proteins. This heterogeneity makes it hard to assign a specific, concise theme to the cluster.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":9},{"id":"GO:0042053","count":8},{"id":"GO:0071321","count":8},{"id":"GO:0010754","count":8},{"id":"GO:0097011","count":8}]},{"hash":"1480521678551041396","title":"Dopaminergic Neural Signaling and Drug Response","description":"This cluster is dominated by neural signaling terms: dopaminergic synaptic transmission, sensory perception (including pain), and visual perception/learning, plus drug-related behavioral responses to cocaine and morphine. The ERK cascade and prostaglandin-related terms support signaling context, but the core theme is neural pathways involved in perception, reward, and drug response.","confidence":"High","size":25,"edges":253,"triangles":1389,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":23},{"id":"GO:0007507","count":23},{"id":"GO:0070374","count":23},{"id":"GO:0048148","count":23},{"id":"GO:0043278","count":23}]},{"hash":"1099175154657297278","title":"Craniofacial and respiratory tissue development","description":"This cluster centers on transcriptional regulation and a coordinated program of development for craniofacial and respiratory structures, including trachea and bronchial cartilage, palate (roof of the mouth), skeletal muscle differentiation, and lung smooth muscle development, with involvement of TGF-beta signaling. The mix of GO terms for DNA-templated transcription, transcriptional regulation, and diverse developmental processes points to a shared developmental regulatory role in these tissues.","confidence":"High","size":25,"edges":247,"triangles":1331,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":16},{"id":"GO:0000122","count":11},{"id":"GO:0035690","count":11},{"id":"GO:0035914","count":11},{"id":"GO:0060534","count":11}]},{"hash":"1116908780072576411","title":"Proteolysis-driven tissue remodeling and morphogenesis","description":"The cluster centers on proteolysis and catabolic processes (bradykinin, neuropeptide, collagen catabolic) alongside morphogenesis-related terms (lung epithelial branching, intramembranous ossification, bone resorption). This suggests a common function in extracellular matrix remodeling during development and tissue formation, with immune activity possibly reflecting remodeling contexts. Overall, the proteins appear linked to proteolytic remodeling and developmental morphogenesis.","confidence":"High","size":25,"edges":179,"triangles":708,"max_degree":21,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0010815","count":19},{"id":"GO:2000179","count":16},{"id":"GO:0051603","count":16},{"id":"GO:0060441","count":16},{"id":"GO:0030574","count":16}]},{"hash":"211815897908179338","title":"Neural development and axon guidance","description":"The top GO terms cluster around neural development, neuron migration, axon pathfinding, and synaptic signaling: Roundabout signaling (Slit-Robo), fasciculation of motor neuron axons, forebrain cell migration, chemorepulsion in olfactory interneuron migration, trans-synaptic signaling, and receptor tyrosine kinase signaling. Additional terms for embryonic morphogenesis and photoreceptor differentiation support a developmental neural context. Together these suggest the proteins participate in neural development and axon guidance.","confidence":"High","size":25,"edges":289,"triangles":2067,"max_degree":24,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:1902948","count":12},{"id":"GO:0030513","count":12},{"id":"GO:0010172","count":12},{"id":"GO:0021836","count":12},{"id":"GO:0007169","count":12}]},{"hash":"1955809370456252767","title":"Neuronal axon guidance and signaling","description":"Based on the top GO terms, the cluster is dominated by axon guidance and neural signaling pathways (Roundabout signaling, axon guidance, Smoothened/Hedgehog signaling, ERK cascade, and regulation of synaptic vesicle exocytosis), suggesting a cohesive theme of neuronal development and neural communication. Some terms like mating projection growth or ossification appear peripheral and do not fit as tightly, but the core signal remains neural development and signaling.","confidence":"High","size":25,"edges":196,"triangles":733,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035385","count":24},{"id":"GO:0031384","count":24},{"id":"GO:0010796","count":24},{"id":"GO:0070374","count":24},{"id":"GO:0007411","count":24}]},{"hash":"1412786960112716112","title":"ERAD and Proteostasis Regulation","description":"The top GO terms center on the ubiquitin-dependent ERAD pathway and its negative regulation, indicating a core theme of protein quality control and turnover. Additional terms touch on related stress-response processes (lipid droplet organization, nuclear membrane reassembly) and cell fate (cell death), suggesting a proteostasis and stress-regulation module that can influence signaling and survival. ","confidence":"Medium","size":25,"edges":298,"triangles":2255,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:0007253","count":5},{"id":"GO:1903094","count":5},{"id":"GO:0034389","count":5},{"id":"GO:1904293","count":5}]},{"hash":"1963556544469802776","title":"Neuroimmune signaling and neuromuscular regulation","description":"This cluster mixes neural processes (cholinergic synaptic transmission, sensory perception, locomotion, neuromuscular control) with immune signaling (phagocytosis recognition, T cell activation, TNF/IL-2 production), suggesting a shared theme of neuroimmune communication and modulation of neuromuscular activity.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006910","count":7},{"id":"GO:0050910","count":7},{"id":"GO:0042102","count":6},{"id":"GO:0031295","count":6},{"id":"GO:0007271","count":6}]},{"hash":"716197972339840518","title":"Neural development and inner ear sensory signaling","description":"This cluster\u2019s proteins are enriched for nervous system development, inner ear development, sensory perception of sound, and GABAergic synaptic transmission, pointing to roles in neural differentiation and auditory/sensory signaling; a few terms about transcription regulation and mechanical response appear less central but do not overturn the main neural/sensory theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:1903142","count":4},{"id":"GO:0097150","count":4},{"id":"GO:0051932","count":4},{"id":"GO:0007605","count":4}]},{"hash":"1010448461381138915","title":"Skin epithelial differentiation and inflammatory/angiogenic signaling","description":"This cluster centers on keratinocyte differentiation and skin-specific signaling, highlighted by keratinocyte differentiation, Notch receptor processing, and TNF-driven responses. It also includes immune and adhesion-related terms (complement activation, integrin-mediated adhesion) and angiogenic regulation (VEGF signaling), suggesting a cohesive theme around epidermal development, inflammation, immune defense, and wound-related vascular remodeling. Oxidative stress and detoxification terms appear as supporting context in inflammatory environments.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0034612","count":12},{"id":"GO:0007220","count":12},{"id":"GO:0030216","count":12},{"id":"GO:0010042","count":12},{"id":"GO:0001867","count":10}]},{"hash":"1831972023906802127","title":"Developmental and Immune Signaling","description":"The proteins cluster around signaling pathways involved in nervous system development, immune cell signaling, and key developmental routes (Roundabout/ROBO, Smoothened/Hedgehog), with JNK cascade regulation and mechanotransduction; these shared signaling themes justify a label focusing on developmental and immune signaling.","confidence":"Medium","size":25,"edges":51,"triangles":8,"max_degree":9,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0007399","count":6},{"id":"GO:0042088","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0046330","count":6},{"id":"GO:0035385","count":5}]},{"hash":"2254871407320938976","title":"Neural development and signaling with cell-cycle control","description":"The top GO terms include cerebellar cortex formation and Bergmann glial differentiation (neural development), alongside signaling pathways (insulin receptor, T cell receptor) and a mechanism of tyrosine dephosphorylation, as well as regulation of cyclin-dependent kinase activity and cell proliferation, suggesting a cluster where neural differentiation is linked to signaling modulation and cell-cycle control. Confidence: Medium","confidence":"","size":25,"edges":243,"triangles":1337,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":12},{"id":"GO:0045736","count":12},{"id":"GO:0021697","count":12},{"id":"GO:0060020","count":12},{"id":"GO:0008285","count":12}]},{"hash":"1734061519920565343","title":"Muscle mechanotransduction and actin remodeling","description":"This cluster centers on proteins involved in sensing mechanical stretch and regulating the actin cytoskeleton, supported by terms like detection of muscle stretch, actin filament depolymerization and its regulation, and integrin signaling. It also includes calcium/NFAT signaling (calcineurin-NFAT) and cytoskeletal-adhesion pathways, pointing to coordinated mechanosensitive signaling. A few terms (miRNA silencing, gonad development) appear peripheral but may reflect broader regulatory roles. Overall, the dominant theme is muscle/mechanotransduction with actin dynamics.","confidence":"Medium","size":25,"edges":134,"triangles":288,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:2000637","count":25},{"id":"GO:0021526","count":25},{"id":"GO:0030042","count":25},{"id":"GO:0030835","count":25},{"id":"GO:0008585","count":25}]},{"hash":"2042128587075224084","title":"Unknown","description":"The terms include kidney development, sarcomere organization, myoblast fusion, estrogen response, oligodendrocyte progenitor proliferation, bone resorption, carbon dioxide transport, pH response, and one-carbon metabolism. This spread across tissues and processes makes a single cohesive function unlikely; no clear common theme emerges to define a specific cluster name.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001822","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0045214","count":5},{"id":"GO:0043627","count":5},{"id":"GO:0070445","count":5}]},{"hash":"876021634141037223","title":"Endocrine and metabolic differentiation","description":"Given the top GO terms, the cluster centers on development and regulation of endocrine- and metabolism-related tissues, including pituitary gland development, brown fat and osteoblast differentiation, lactation regulation, and fatty acid homeostasis. Immune-related processes (cytokine production, MHC class II biosynthesis) appear alongside, suggesting endocrine-immune cross-talk, but the prevailing theme is differentiation and metabolic regulation in endocrine/adipose contexts. Medium","confidence":"","size":25,"edges":298,"triangles":2254,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0035470","count":11},{"id":"GO:0045348","count":10},{"id":"GO:0021983","count":10},{"id":"GO:1903489","count":8}]},{"hash":"1752310704478048566","title":"Integrin signaling and cytoskeletal protrusion assembly","description":"This cluster is dominated by terms related to integrin-mediated signaling, podosome and filopodium assembly, and Rho-dependent cytoskeletal dynamics, indicating a cohesive group of proteins involved in cell adhesion and actin-based protrusions. The inclusion of these assembly terms alongside Rho signaling supports a shared function in cytoskeletal remodeling and protrusive activity, with supplementary signals pointing to related pathways such as growth factor receptor signaling.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007229","count":7},{"id":"GO:0071800","count":7},{"id":"GO:0046847","count":7},{"id":"GO:0071320","count":7},{"id":"GO:0071803","count":7}]},{"hash":"613318914593038803","title":"Vascular angiogenesis and coagulation regulation","description":"The GO terms show a coherent vascular theme: blood coagulation, fibrinolysis, and angiogenesis regulation, with Wnt signaling tying into vascular development and transcriptional control as a general regulatory backdrop. While there are some unrelated terms like cellular response to glucose, the dominant signals point to endothelial-related coagulation and angiogenic processes, justifying this label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0007596","count":6},{"id":"GO:0045766","count":5},{"id":"GO:0071333","count":5},{"id":"GO:0045944","count":5}]},{"hash":"2302112369585611078","title":"Immune development and stress-response processes","description":"The top GO terms combine immune-related development (T cell homeostasis, hemocyte development) with developmental and stress-related processes (mesoderm development, wound healing, xenobiotic response, apoptotic signaling, miRNA processing). This suggests a cluster of proteins involved in immune system development coupled with cellular stress responses, rather than a single narrow function.","confidence":"Medium","size":25,"edges":14,"triangles":0,"max_degree":9,"top_function":"wound healing","top_go_terms":[{"id":"GO:0043029","count":8},{"id":"GO:2001241","count":6},{"id":"GO:0007498","count":6},{"id":"GO:1903799","count":6},{"id":"GO:0042493","count":5}]},{"hash":"1583264011693753392","title":"Diverse Metabolic Biosynthesis and Catabolism","description":"The GO terms point to a broad mix of metabolic activities, including biosynthesis of biotin, antibiotics, and plant hormones (strigolactone), as well as catabolic/degenerative steps for lipids and pigments (monoacylglycerol, triglyceride, phosphatidylserine, chlorophyll). This suggests proteins involved in diverse metabolic pathways rather than a single, cohesive function, so a label reflecting general metabolism is most appropriate.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042952","count":8},{"id":"GO:0017000","count":7},{"id":"GO:0009102","count":7},{"id":"GO:2000124","count":7},{"id":"GO:0052651","count":7}]},{"hash":"44646858431790766","title":"Developmental signaling and morphogenesis","description":"These proteins cluster around organ and neural development, with terms for heart and vascular development, dendrite morphogenesis and axon extension, and cell migration, plus broader growth signaling (insulin pathway) and immune-related signaling (GM-CSF). The common thread is coordinated developmental signaling governing morphogenesis across tissues, rather than a single specific pathway. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097011","count":18},{"id":"GO:0008286","count":17},{"id":"GO:0010765","count":16},{"id":"GO:0097194","count":16},{"id":"GO:0007507","count":16}]},{"hash":"1564545201154974628","title":"Neuronal GPCR Signaling and Synaptic Plasticity","description":"The top GO terms show GPCR signaling and neuronal signaling features (GO:0007205, GO:0060079, GO:1900452) with links to excitatory postsynaptic potentials and long-term synaptic depression, indicating synaptic modulation. Additional terms involve receptor signaling pathways (thrombin-activated receptor), inflammatory signaling (TNF), and lipid signaling (sphingolipid metabolism), all of which can influence neuronal communication, migration, and plasticity. Taken together, the cluster appears centered on GPCR-driven signaling governing synaptic function and plasticity, with supporting signaling and metabolic context.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007205","count":11},{"id":"GO:0016477","count":10},{"id":"GO:0060079","count":10},{"id":"GO:0010803","count":9},{"id":"GO:0048146","count":9}]},{"hash":"870605245678869439","title":"Lens Proteoglycan Biosynthesis","description":"The top GO terms cluster around biosynthesis of proteoglycans (heparan sulfate, chondroitin sulfate) and related glycosylation steps (e.g., UDP-D-xylose metabolic process), indicating enzymes and proteins that build core proteoglycan ECM components. The inclusion of tissue morphogenesis and maintenance of lens transparency terms suggests a lens-specific ECM role, reinforcing a theme of proteoglycan synthesis relevant to lens structure and function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0030210","count":7},{"id":"GO:0015012","count":7},{"id":"GO:0006486","count":7},{"id":"GO:0050650","count":7},{"id":"GO:0032868","count":6}]},{"hash":"2225544549173392748","title":"Dopaminergic Visual Perception and Learning","description":"The cluster\u2019s top GO terms concentrate on neural processing related to vision, visual learning, and dopaminergic synaptic signaling, plus a behavioral response to cocaine, suggesting a neural/visual-perception and reward-signaling theme. While some terms (inflammation, macrophage chemotaxis, heart development) are peripheral, the dominant signal points to dopamine-mediated neural processing and visual perception pathways.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":20},{"id":"GO:0048148","count":20},{"id":"GO:0070374","count":20},{"id":"GO:0010759","count":20},{"id":"GO:0019233","count":20}]},{"hash":"1715086488519282678","title":"Neural signaling and learning","description":"The top GO terms are dominated by neural/behavioral themes: visual learning, operant conditioning, prepulse inhibition, and adenylate cyclase-activating GPCR signaling, which together point to neuronal signaling and learning processes. Other terms such as eosinophil chemotaxis, chronic inflammatory response, and saliva secretion may reflect multifunctional proteins or broader tissue contexts but do not negate the central neural theme. Confidence: Medium","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0040015","count":13},{"id":"GO:0008542","count":13},{"id":"GO:0010579","count":11},{"id":"GO:0002882","count":10},{"id":"GO:0035106","count":10}]},{"hash":"953900185051709941","title":"Calcium signaling in immune and inflammatory responses","description":"The cluster is dominated by GO terms involving calcium release into the cytosol, immune and inflammatory processes (including LPS response and chronic inflammation), and coagulation, suggesting a theme of calcium-dependent signaling in innate immunity and inflammatory regulation. Some neural-related terms (pain regulation, membrane potential, learning) appear but the strongest common thread ties to calcium signaling coupled with immune/inflammatory responses.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051281","count":8},{"id":"GO:0007596","count":8},{"id":"GO:0032496","count":8},{"id":"GO:0051930","count":8},{"id":"GO:0042391","count":8}]},{"hash":"982323645648426649","title":"Antiviral immune modulation","description":"The most frequent GO terms relate to antiviral and immune processes: positive regulation of interferon-beta production, host-mediated activation and suppression of viral genome replication, and negative regulation of MHC class II biosynthesis, all pointing to host defense and modulation of viral activity. Additional terms link to glycosylation-related metabolism (UDP-glucose and UDP-galactose pathways), which can influence immune protein processing and surface antigen presentation. While some terms touch on development or meiosis, the dominant pattern centers on immune response and control of viral replication, justifying the label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000289","count":4},{"id":"GO:0007129","count":3},{"id":"GO:0006011","count":3},{"id":"GO:0052573","count":3},{"id":"GO:0044829","count":3}]},{"hash":"2079985430951899718","title":"GTPase-driven developmental signaling and motility","description":"The top GO terms point to small GTPase-mediated signal transduction, with links to organ development (heart, bone, thymus) and cell movement (podosome assembly, smooth muscle migration) as well as pathways like JNK cascade regulation. This suggests a cohesive theme of GTPase-regulated signaling guiding development and cellular motility, rather than a single specific process. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007264","count":12},{"id":"GO:0060378","count":11},{"id":"GO:0014911","count":11},{"id":"GO:0060348","count":11},{"id":"GO:0046328","count":11}]},{"hash":"60501869212012410","title":"Craniofacial skeletal development","description":"The cluster is dominated by GO terms for skeletal system development, osteoblast differentiation, and roof-of-mouth development, i.e., craniofacial skeletogenesis. Vasculogenesis is also represented, suggesting concurrent formation of bone and its blood supply. Additional terms reflect regulatory and signaling mechanisms (transcriptional control, calcium signaling, mechanical response) that accompany morphogenesis. This combination supports the label Craniofacial skeletal development.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0001501","count":5},{"id":"GO:0007565","count":4},{"id":"GO:0001649","count":4},{"id":"GO:0001570","count":4}]},{"hash":"309192855191061356","title":"Ubiquitin-Dependent Antiviral Immunity","description":"The cluster is dominated by ubiquitin-dependent protein catabolic processes and ubiquitination (including K63-linked ubiquitination) alongside innate immune and antiviral defense terms (innate immune response, defense response to virus), pointing to a cohesive module where ubiquitin-regulated proteostasis controls antiviral immune signaling.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0045087","count":10},{"id":"GO:0032088","count":7},{"id":"GO:0051092","count":7},{"id":"GO:0051607","count":7}]},{"hash":"2188937556307625125","title":"Ubiquitin-mediated regulation of immune signaling","description":"The cluster is dominated by ubiquitination-related GO terms (protein ubiquitination, autoubiquitination, K48/K63-linked ubiquitination, histone catabolic) and includes adaptive immune response and regulation of TNF and RIG-I signaling, indicating a cohesive function in ubiquitin-dependent modulation of immune pathways.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:1903265","count":12},{"id":"GO:0051865","count":12},{"id":"GO:0016567","count":11},{"id":"GO:0036205","count":11}]},{"hash":"83921134187215232","title":"Mitochondrial Translation and Apoptosis","description":"The cluster is dominated by mitochondrial-related processes: mitochondrial translation, ATP synthesis driven by the proton motive force, and assembly of respiratory chain components, plus proton transport. Also present are apoptotic signals such as cytochrome c release, indicating mitochondria-linked apoptosis. This suggests a cohesive theme around mitochondrial gene expression, energy metabolism, and apoptotic regulation.","confidence":"High","size":24,"edges":272,"triangles":1942,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0032543","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0015986","count":2},{"id":"GO:0099132","count":2}]},{"hash":"1277038597177272222","title":"Ribosome biogenesis and nuclear RNA processing","description":"The cluster is enriched for ribosome biogenesis and translation terms, with multiple RNA-processing and nuclear transport terms (snRNP/hnRNP import, ribosomal subunit export, transcription regulation), indicating a group of nucleolar/nuclear factors coordinating ribosome assembly, RNA processing, and export, with some cell-cycle related association.","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0042254","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0000055","count":5}]},{"hash":"2275485852342057278","title":"Developmental signaling and gene expression","description":"The proteins show enrichment in developmental processes (bone development, multicellular organism development, negative regulation of angiogenesis, negative thymic T cell selection) and core gene expression machinery (translation, spliceosomal snRNP assembly) along with modulation of signaling (receptor clustering, negative regulation of peptidyl-threonine phosphorylation). This pattern suggests a cluster of proteins involved in coordinating developmental signaling with regulation of gene expression.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060348","count":4},{"id":"GO:0043113","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0010801","count":3},{"id":"GO:0016525","count":2}]},{"hash":"106663949338792807","title":"B12/heme and amino acid metabolism","description":"The top GO terms point to cobalamin (B12) biosynthesis, heme biosynthesis, and multiple amino acid catabolic pathways (threonine, alanine, kynurenine, glutamate), indicating a cluster centered on vitamin/cofactor production and amino acid metabolism. The single outlier of transcription-templated terms suggests some regulatory context, but the dominant signal is metabolic pathways related to B12 and heme cofactors and amino acid turnover.","confidence":"Medium","size":24,"edges":229,"triangles":1219,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":10},{"id":"GO:0009236","count":9},{"id":"GO:0019518","count":9},{"id":"GO:0032869","count":8},{"id":"GO:0006783","count":7}]},{"hash":"2071098588608712663","title":"ER protein folding and redox stress response","description":"The cluster is dominated by GO terms for endoplasmic reticulum\u2013localized protein folding, unfolded protein response, ER stress, and redox homeostasis/detoxification, indicating a cohesive set of ER quality-control and redox-regulation proteins. A DNA replication term appears but seems incidental to the dominant ER stress/oxidative stress theme.","confidence":"High","size":24,"edges":134,"triangles":355,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045454","count":20},{"id":"GO:0034975","count":17},{"id":"GO:0070389","count":12},{"id":"GO:0030433","count":12},{"id":"GO:0036494","count":11}]},{"hash":"2035686385255753618","title":"Neural Development and Transcriptional Regulation","description":"GO terms point to transcriptional control (negative and positive regulation of transcription, DNA-templated transcription) coupled with neural development processes (neuron projection development, neural tube closure) and related signaling (TGF-beta response) and stem cell maintenance, with ancillary memory and inflammatory signals. This suggests a cohesive theme of transcription-regulating factors guiding neural development and associated signaling pathways.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0006351","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0031175","count":3}]},{"hash":"694019214089910532","title":"Ribosome Biogenesis and mRNA Processing","description":"The dominant terms center on ribosome assembly (LSU biogenesis, rRNA maturation, preinitiation complex formation, translation reinitiation) and RNA processing (mRNA splicing via spliceosome and mRNA export). This suggests a cohesive module linking ribosome production with RNA processing and translation initiation control.","confidence":"Medium","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0042273","count":6},{"id":"GO:0006406","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0002188","count":5}]},{"hash":"2224466529436028882","title":"Mitotic cell cycle and mitochondrial distribution","description":"The dominant GO terms center on cell division and mitosis (mitotic cell cycle, cell division) and the placement/organization of mitochondria (intracellular distribution of mitochondria), along with related processes like centrosome maintenance and nuclear envelope organization. While there are some peripheral terms (apoptosis, innate immunity, synaptic depression), the cluster appears to be tied to the coordination of mitosis with mitochondrial dynamics and cellular architecture. ","confidence":"Medium","size":24,"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:0048312","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1283018695984292807","title":"Dopaminergic signaling and sensory processing","description":"Based on the prominent neural terms, including dopaminergic synaptic transmission, behavioral response to cocaine, visual perception and learning, and pain perception, the cluster seems centered on dopamine-mediated neuronal signaling and sensory processing. ERK cascade regulation and GTPase activity further support signaling and plasticity in neural circuits. While a few terms like heart development may be incidental, the core theme is neural signaling and sensory function.","confidence":"Medium","size":24,"edges":251,"triangles":1534,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":14},{"id":"GO:0007601","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0071380","count":13}]},{"hash":"225092108693955293","title":"Neural development and synaptic plasticity","description":"The top terms cluster around neural growth and function, including axonogenesis, Schwann cell development, visual perception, and long-term synaptic potentiation, plus general multicellular development. A few terms related to heart development and cardiac hypertrophy may reflect shared developmental signaling rather than a cardiac-focused module. Overall, the proteins appear tied to neurodevelopment, neural signaling, and glial support rather than a cardiac-specific process.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903244","count":12},{"id":"GO:0007275","count":12},{"id":"GO:0007601","count":11},{"id":"GO:0007507","count":11},{"id":"GO:0014044","count":11}]},{"hash":"751482061369499850","title":"Neural plasticity and stress response proteins","description":"Most represented terms indicate neuronal signaling and plasticity (long-term potentiation, long-term memory, and modulation of synaptic plasticity) along with stress/immune responses (innate immune response, cadmium ion response) and mitochondrial distribution, hinting at a cluster of proteins that participate in synaptic regulation influenced by cellular stress and mitochondrial dynamics. Although cell division terms appear, they seem less central to the core theme. ","confidence":"Medium","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0000278","count":7},{"id":"GO:0045087","count":6},{"id":"GO:0060291","count":5},{"id":"GO:0071276","count":5}]},{"hash":"1529634528841970320","title":"Development and apoptotic signaling","description":"The proteins are annotated with a mix of development-related GO terms (eye development, forebrain development, hepatocyte differentiation, lymphangiogenesis, blood circulation) and apoptosis-related terms (intrinsic apoptotic signaling via p53, anoikis). This suggests a shared theme around tissue development and programmed cell death during organogenesis and remodeling, rather than a single specific function. The lack of interactions among proteins aligns with a broad, process-level grouping rather than a tight pathway cluster.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032725","count":2},{"id":"GO:0001654","count":2},{"id":"GO:0043276","count":2},{"id":"GO:0072332","count":2},{"id":"GO:0008015","count":2}]},{"hash":"1056000358000159414","title":"Choline and PE lipid biosynthesis","description":"This cluster centers on lipid metabolism pathways, notably choline and ethanolamine-derived phospholipid biosynthesis (CDP-choline pathway and PE biosynthesis) and related membrane trafficking signals, with a few outlier terms suggesting noise or multifunctionality.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0071044","count":2},{"id":"GO:0007141","count":2},{"id":"GO:0034498","count":2},{"id":"GO:0006580","count":2}]},{"hash":"1413473824337618038","title":"Glycosylation and cell wall biosynthesis","description":"The top GO terms point to glycan production and modification and to plant cell wall construction, including cell wall organization, glucuronoxylan/mucilage biosynthesis, and plant-type secondary cell wall biogenesis, plus protein O-linked glycosylation and glycosphingolipid biosynthesis. While a few terms (e.g., infection structure, sperm binding, cardiac myofibril assembly) are broader, the dominant signal is glycan- and cell wall\u2013related biosynthetic pathways, suggesting this cluster centers on glycosylation processes and cell wall architecture.","confidence":"Medium","size":24,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":5},{"id":"GO:0005978","count":5},{"id":"GO:0016266","count":5},{"id":"GO:0075015","count":5},{"id":"GO:0007339","count":4}]},{"hash":"1677912989555698625","title":"Oxidative Stress Defense and Redox Homeostasis","description":"The cluster centers on antioxidant and redox-related functions, with terms like cellular oxidant detoxification, cell redox homeostasis, UV protection, and responses to gamma radiation and selenium, indicating a cohesive theme of defending against oxidative stress. Though a few terms touch on lipid metabolism and signaling, the dominant signal is redox protection and stress response.","confidence":"High","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0098869","count":15},{"id":"GO:0045454","count":10},{"id":"GO:0006641","count":8},{"id":"GO:1902176","count":7},{"id":"GO:0042311","count":7}]},{"hash":"47639351033355157","title":"Wnt and Hippo signaling with apoptosis control","description":"These terms center on two major signaling axes, Wnt and Hippo, which regulate cell growth and differentiation, with multiple entries on apoptosis (both promoting and inhibiting) and general signal transduction via small GTPases. The presence of keratinocyte differentiation and a mating projection growth term suggests broader differentiation control. Taken together, the cluster represents signaling networks that coordinate cell fate decisions and survival.","confidence":"High","size":24,"edges":5,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":16},{"id":"GO:0031384","count":13},{"id":"GO:0030216","count":13},{"id":"GO:0060044","count":13},{"id":"GO:0006915","count":13}]},{"hash":"2232170665049800231","title":"Leukocyte adhesion and phagocytic signaling","description":"The top GO terms point to core innate immune processes: leukocyte tethering/rolling, cell adhesion molecule production, Fc-gamma receptor signaling, and phagocytosis recognition all suggest leukocyte recruitment and opsonophagocytic activity. Additional terms like arachidonate secretion indicate inflammatory mediator release, with regulatory signals affecting NK cell chemotaxis and platelet activation, reflecting inflammatory cross-talk. Although a cartilage condensation term appears, the cluster is best characterized by immune activation, adhesion, and phagocytic signaling.","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":22},{"id":"GO:2000502","count":17},{"id":"GO:0010572","count":17},{"id":"GO:0001502","count":17},{"id":"GO:0090403","count":15}]},{"hash":"251095099345097875","title":"Dendrite morphogenesis and neuronal signaling","description":"This cluster is dominated by terms tied to neural development and morphology, especially dendrite morphogenesis, plus signaling regulators such as Rho and Wnt pathways that govern neuronal structure and function. The presence of potassium ion transport and pain perception also points to neuron-specific roles, while transcription and protein export terms reflect broader regulatory processes accompanying neural development. Overall, the theme centers on neuron development and related signaling rather than generic cellular processes.","confidence":"Medium","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043552","count":17},{"id":"GO:0048813","count":17},{"id":"GO:0006813","count":16},{"id":"GO:0006351","count":15},{"id":"GO:0019233","count":15}]},{"hash":"1084207860706430220","title":"Inflammation and immune-vascular remodeling","description":"In this cluster, the top GO terms center on inflammatory response and lipopolysaccharide response, with substantial representation of cell adhesion (cell\u2013cell and cell\u2013matrix) and processes related to vascular remodeling (endothelial proliferation in angiogenesis, hyaluronan biosynthesis). There are also signals related to extrinsic apoptotic pathways and T cell death, which align with immune activation and tissue remodeling during inflammation. Together, these terms point to a coordinated inflammatory response coupled with immune-vascular remodeling rather than a single isolated function.","confidence":"Medium","size":24,"edges":46,"triangles":41,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":18},{"id":"GO:0007275","count":16},{"id":"GO:0032496","count":16},{"id":"GO:1903588","count":15},{"id":"GO:0071260","count":15}]},{"hash":"83057377959123706","title":"RNA processing and splicing regulation","description":"The cluster is enriched for GO terms tied to RNA biogenesis and post-transcriptional control, including mRNA polyadenylation, spliceosome-mediated splicing and its regulation, mRNA stability in response to stress, regulation of poly(A) tail shortening, translation reinitiation, and regulatory ncRNA\u2013mediated gene silencing. Together these terms indicate a cohesive group of proteins involved in RNA maturation and regulation of gene expression after transcription.","confidence":"High","size":24,"edges":201,"triangles":807,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":20},{"id":"GO:0010610","count":19},{"id":"GO:0045292","count":18},{"id":"GO:0048025","count":17},{"id":"GO:0031047","count":16}]},{"hash":"761311714121641863","title":"Innate immune response and cytokine production","description":"The cluster is best characterized by immune-related functions: innate immune response, cytokine and chemokine production (including IL-2), and regulation of T cell proliferation and macrophage activation. While heart development and spermatid development appear among the terms, the dominant signal ties to immune signaling and inflammatory cytokine activity, indicating a cohesive cluster around immune regulation and signaling. ","confidence":"Medium","size":24,"edges":47,"triangles":5,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0046007","count":5},{"id":"GO:0007286","count":5},{"id":"GO:0002374","count":5}]},{"hash":"99677273403607702","title":"Acetylation and Chromatin in Development","description":"The cluster centers on protein acetylation processes (N-terminal acetylation, N6-acetylation, propionylation) and chromatin-related activities (subtelomeric heterochromatin formation, centromeric cohesion), with hints of developmental roles such as angiogenesis and neuron development. Some metabolic terms appear as outliers, but the overarching theme appears to be regulation through PTMs and chromatin state in a developmental context.","confidence":"Medium","size":24,"edges":7,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":9},{"id":"GO:0018003","count":8},{"id":"GO:0006348","count":7},{"id":"GO:0048666","count":6},{"id":"GO:0017196","count":6}]},{"hash":"863756376156931802","title":"Nuclear DNA replication and repair with transcription regulation","description":"Based on the top GO terms, the cluster centers on nuclear processes involved in DNA metabolism (DNA repair and DNA-templated DNA replication) and transcriptional control (regulation of transcription by RNA polymerase II). Additional RNA processing (tRNA processing) and related stress-response terms (dexamethasone, TNF) suggest contextual regulation rather than distinct pathways. Taken together, these proteins likely function in genome maintenance and transcriptional regulation, justifying the label. ","confidence":"High","size":24,"edges":94,"triangles":108,"max_degree":17,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":3},{"id":"GO:0006486","count":3},{"id":"GO:0006261","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0000738","count":2}]},{"hash":"623653367397343749","title":"Ubiquitin-Dependent Mitosis and Antiviral Response","description":"This cluster is dominated by GO terms for K11-linked ubiquitination and mitosis (cell division, metaphase/anaphase transition, APC-dependent catabolic process), pointing to ubiquitin-mediated regulation of the cell cycle. The presence of innate immune and type I interferon response terms, plus negative regulation of defense response to virus, suggests these proteins may also participate in antiviral signaling pathways or cross-talk between cell cycle control and immune responses.","confidence":"Medium","size":24,"edges":17,"triangles":0,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070979","count":20},{"id":"GO:0051301","count":20},{"id":"GO:0045087","count":19},{"id":"GO:0071357","count":19},{"id":"GO:0006463","count":18}]},{"hash":"195884954473297912","title":"Nutrient and xenobiotic membrane transporters","description":"Proteins in this cluster are enriched for transmembrane transport of a broad range of substrates, including vitamins, xenobiotics, and small nutrients, with additional links to osmotic stress and metabolic cues. This pattern points to a shared function as plasma membrane transporters handling diverse substrates and contributing to stress responses.","confidence":"Medium","size":24,"edges":30,"triangles":2,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":20},{"id":"GO:0006855","count":20},{"id":"GO:0042908","count":18},{"id":"GO:0071805","count":16},{"id":"GO:0042149","count":12}]},{"hash":"743683474222566178","title":"Monocyte Activation and Cytokine Response","description":"Based on the enrichment of terms such as monocyte activation and cellular responses to TNF and IL-1, the proteins in this cluster appear to participate in immune cell activation and inflammatory signaling. Additional terms referencing platelet-related responses and growth factor stimuli support a broader theme of inflammatory and immune coordination rather than metabolism. Thus, a label focusing on immune activation and cytokine-driven inflammation is most representative.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0036120","count":6},{"id":"GO:0042117","count":6},{"id":"GO:0071356","count":6},{"id":"GO:0071347","count":6}]},{"hash":"1984340430314613607","title":"Unknown","description":"The cluster's top GO terms cover very different biological areas (muscle development, synaptic vesicle regulation, circadian rhythm, B cell signaling, ubiquitination, gravitropism, nervous system development, plant metabolism) with no single coherent function tying them together, suggesting the proteins represent diverse roles rather than a unified pathway. Therefore there is no clear, specific label to summarize the cluster.","confidence":"","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0048741","count":12},{"id":"GO:1900242","count":12},{"id":"GO:0042752","count":8},{"id":"GO:0050853","count":8},{"id":"GO:1990390","count":8}]},{"hash":"361144823814105409","title":"Neuronal signaling and vision-related processing","description":"The GO terms cluster around neural signaling and sensory systems: sensory perception and pain modulation, drug responses (morphine, amphetamine), ERK signaling, neuropeptide pathways, and retina development/visual learning. This suggests a cohesive theme of neuronal signaling that links sensory processing with vision and neuromodulatory drug responses (including sensorimotor gating like prepulse inhibition and autonomic aspects such as blood pressure regulation).","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":13},{"id":"GO:0043278","count":13},{"id":"GO:0051930","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0001975","count":13}]},{"hash":"1714523083819417127","title":"Rho GTPase-driven cytoskeletal remodeling in mitosis","description":"The top GO terms point to Rho GTPase signaling and actin cytoskeleton dynamics (positive regulation of GTPase activity, actin filament depolymerization, regulation of Rho signaling) together with mitotic processes (mitotic cell cycle, cell division, mitotic spindle assembly). This suggests a cluster centered on coordinating cytoskeletal remodeling during mitosis, with supporting roles in vesicle trafficking and related processes. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000278","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0030042","count":3},{"id":"GO:0090307","count":3}]},{"hash":"127236977212988307","title":"FGF-MAPK\u2013driven organ morphogenesis","description":"This cluster centers on developmental signaling and morphogenesis, with GO terms highlighting salivary gland branching morphogenesis, organ induction, nervous system and olfactory bulb development, and regulation of MAPK cascades by FGF signaling. The recurring theme is FGF-mediated MAPK signaling guiding organogenesis and tissue morphogenesis across multiple contexts, including endothelial chemotaxis to FGF. Hence, a label emphasizing FGF-MAPK\u2013driven morphogenesis is appropriate.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000187","count":2},{"id":"GO:0060665","count":2},{"id":"GO:0060445","count":2},{"id":"GO:0001759","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1544766898934271722","title":"Rho GTPase\u2013driven motility and endocytosis","description":"Based on the enriched GO terms, these proteins cluster around Rho GTPase signaling, cytoskeletal dynamics, and membrane trafficking. The strong presence of positive regulation of GTPase activity, regulation of Rho signaling, cell migration, polarity, and endocytosis/phagocytosis suggests a cohesive role in cytoskeletal remodeling and movement, with endocytic/membrane trafficking components accompanying that function. Some terms like transcription or heterochromatin formation may reflect multifunctionality or broader annotations, but the dominant theme is Rho-mediated motility and membrane remodeling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0006915","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0006351","count":4}]},{"hash":"1076119215831766509","title":"Dopaminergic Visual Processing and Cocaine Response","description":"Based on the top GO terms, the cluster centers on neuronal signaling with emphasis on dopaminergic synaptic transmission, visual perception/learning, and behavioral responses to cocaine. ERK signaling and protein phosphorylation support neuronal signal transduction, while terms like visual perception and visual learning anchor the theme to sensory processing. Some terms (e.g., heart development, macrophage chemotaxis, prostaglandin response) may be peripheral or pleiotropic, but the core theme is dopamine-related neural signaling and visual function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":19},{"id":"GO:0019233","count":19},{"id":"GO:0007507","count":19},{"id":"GO:0048148","count":18},{"id":"GO:0070374","count":18}]},{"hash":"212991919534776242","title":"GPCR-Driven Metabolic and Immune Regulation","description":"The cluster shows strong representation of GPCR-related signaling terms (adenylate cyclase-activating and dopamine receptor pathways) alongside immune-related terms (immune response, neutrophil chemotaxis, TNF production regulation) and metabolic/regulatory processes (diet-induced thermogenesis, electron transport chain, blood pressure, Rho signaling). This pattern suggests a theme where GPCR signaling modulates metabolic and immune functions, even though direct interactions aren\u2019t captured by edges in this set.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":15},{"id":"GO:0022900","count":15},{"id":"GO:0008283","count":15},{"id":"GO:0045777","count":15},{"id":"GO:0006955","count":15}]},{"hash":"909677345090557005","title":"Unknown","description":"The top GO terms span inflammatory regulation, immune cell chemotaxis, saliva secretion, vascular functions, neural processes, and sensory perception, with no single shared theme across all terms. Since there are no edges or cohesive functional grouping, there isn\u2019t a clear representative function for the cluster.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":24},{"id":"GO:0035106","count":24},{"id":"GO:0046541","count":24},{"id":"GO:0009253","count":24},{"id":"GO:0014829","count":24}]},{"hash":"71586767129193832","title":"Auditory hair cell stereocilium organization and actin signaling","description":"Top GO terms indicate a focus on sensory perception of sound and auditory receptor cell stereocilium organization, coupled with actin cytoskeleton dynamics and filopodium regulation (Rho signaling). This suggests the cluster represents proteins involved in hair cell cytoskeletal remodeling and signaling that underlie mechanotransduction in the auditory system, with some related signaling and transport processes reflected as broader connections.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0060088","count":4},{"id":"GO:0019933","count":4},{"id":"GO:0010765","count":3}]},{"hash":"1480092659232443360","title":"Ubiquitin-Dependent Protein Degradation","description":"The standout GO terms are ubiquitin-dependent protein catabolic process, protein ubiquitination, and ERAD-related pathway, indicating a strong enrichment for ubiquitin-proteasome system components. Additional terms for histone catabolic process and regulation of JNK and TNF signaling suggest roles for ubiquitination in protein turnover and inflammatory signaling. Taken together, these proteins cluster around ubiquitin-mediated proteolysis and related regulatory pathways.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0016567","count":12},{"id":"GO:0030433","count":11},{"id":"GO:0036205","count":10},{"id":"GO:1903721","count":10}]},{"hash":"1461610004735832359","title":"Embryonic development and placental morphogenesis","description":"The top GO terms cluster around embryonic development, placental and endocrine tissue formation, left-right patterning, and morphogenesis (cartilage, EMT), suggesting the proteins work together in early developmental processes and tissue formation rather than a single signaling pathway.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0003323","count":5}]},{"hash":"1476832226848628256","title":"Mitochondrial Translation and Complex I Assembly","description":"This cluster is dominated by mitochondrial translation and import terms (translation, import into mitochondrial matrix, elongation, termination) with clear signals for assembly of the mitochondrial respiratory chain, specifically complex I, indicating a cohesive module of mitochondrial protein synthesis and respiratory apparatus assembly. Some carbohydrate metabolism terms appear incidental. ","confidence":"High","size":23,"edges":236,"triangles":1434,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0030150","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0070126","count":2},{"id":"GO:0070125","count":2}]},{"hash":"502277405863320880","title":"Dopamine GPCR\u2013cAMP signaling in cardiovascular system","description":"The cluster is dominated by GO terms for dopamine receptor signaling that activates adenylate cyclase and downstream cAMP pathways (and PLC involvement), which clearly points to dopamine GPCR-coupled signaling. Coupled terms like heart development and positive regulation of blood pressure suggest cardiovascular functions, while electron transport chain hints at energy metabolism relevant to cardiac tissue. Together, these indicate a cohesive theme around dopamine-mediated signaling impacting cardiovascular function and associated energy processes.","confidence":"High","size":23,"edges":20,"triangles":1,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":21},{"id":"GO:0022900","count":21},{"id":"GO:0045777","count":21},{"id":"GO:0007190","count":20},{"id":"GO:0042493","count":19}]},{"hash":"1107637947346522544","title":"Cell Growth and Vesicle Trafficking","description":"The cluster centers on fundamental growth and cell-division processes (multicellular organism growth, cell population proliferation, cell division, mitotic cell cycle, mitotic spindle assembly) and a connected set of membrane trafficking activities (COPII-coated vesicle budding, retrograde Golgi-to-ER transport) with supporting membrane lipid homeostasis, plus developmental context (brain development). This suggests a coherent theme of coordinating proliferation with secretory pathway function and membrane dynamics during development.","confidence":"High","size":23,"edges":102,"triangles":101,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035264","count":9},{"id":"GO:0010628","count":9},{"id":"GO:0055091","count":9},{"id":"GO:0008283","count":8},{"id":"GO:0051301","count":8}]},{"hash":"1866264598845170997","title":"Unknown","description":"The proteins in this cluster map to a diverse mix of processes (DNA repair, chromatin assembly, mitochondrial import, oxidative stress response, development, transport, protein interactions, and regulatory RNA silencing) with no single dominant shared function, suggesting a heterogeneous group without a clear common theme.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0001824","count":2},{"id":"GO:0061641","count":2},{"id":"GO:0045041","count":2},{"id":"GO:0034599","count":2}]},{"hash":"358942599915085007","title":"mRNA processing and translation initiation","description":"Reason: The terms point to mRNA maturation and control of translation, with emphasis on polyadenylation/poly(A) tail dynamics, preinitiation complex formation, translation reinitiation, IRES-mediated initiation, and regulation of mRNA stability and splicing in response to stress.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":14},{"id":"GO:0002188","count":12},{"id":"GO:0001731","count":12},{"id":"GO:0010610","count":10},{"id":"GO:1903586","count":9}]},{"hash":"919007725136160905","title":"Embryonic musculoskeletal and neural development","description":"This cluster\u2019s top GO terms cluster around embryonic development of skeletal/muscular and neural lineages: skeletal muscle tissue development, embryonic skeletal system development, regulation of somitogenesis, ventral spinal cord interneuron specification, and dopaminergic neuron differentiation. Ubiquitin-dependent protein catabolic processes and related pathways are present as general regulatory processes involved in protein turnover during differentiation, not defining a separate functional theme. Together, these terms point to developmental programs shaping muscle and nervous system during embryogenesis, justifying the label.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0048294","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0000122","count":3}]},{"hash":"1557599792745396637","title":"Innate immune activation and leukocyte trafficking","description":"This cluster centers on inflammatory and immune cell\u2013related processes: leukocyte tethering/rolling, phagocytosis recognition, Fc-gamma receptor signaling, complement activation, and lymphatic vessel morphogenesis, all pointing to coordinated recruitment and activation of immune cells. Additional terms related to arachidonate secretion and NK cell chemotaxis further emphasize inflammatory signaling and innate immune responses, with oxidative stress\u2013linked senescence adding a stress-immune connection. Overall, the proteins appear to function together in leukocyte recruitment and immune activation during inflammation.","confidence":"High","size":23,"edges":33,"triangles":22,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":6},{"id":"GO:0006910","count":6},{"id":"GO:0060355","count":6},{"id":"GO:0050901","count":6},{"id":"GO:0038094","count":6}]},{"hash":"499543482110342822","title":"Actin dynamics and receptor signaling","description":"This set is dominated by terms tied to actin cytoskeleton dynamics and related signaling. Frequent mentions of actin organization, lamellipodium and ruffle assembly, and barbed-end capping point to remodeling of the actin network. Additional terms on Rho signaling, endocytosis regulation, and immune/neural contexts (Fc receptor signaling, IL-2 production, dendritic spine morphogenesis) reflect how actin remodeling couples to receptor signaling and morphogenesis across cell types. Therefore the label Actin dynamics and receptor signaling captures the common theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0060368","count":3},{"id":"GO:1900042","count":3},{"id":"GO:0051016","count":3},{"id":"GO:0030036","count":3}]},{"hash":"545275204168017349","title":"Cardiac development and conduction","description":"This cluster is dominated by GO terms tied to heart formation and electrical function, including multicellular organism development, ossification in bone maturation, nervous system development, myelination, and several cardiac-specific processes such as regulation of heart rate by cardiac conduction, AV node action potential, atrial depolarization, and ventricular membrane repolarization. While there are some broader developmental terms (e.g., nervous system and bone development), the strong emphasis on cardiac muscle physiology and conduction suggests a cohesive theme around cardiac development and electrical activity.","confidence":"High","size":23,"edges":39,"triangles":7,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007275","count":11},{"id":"GO:0043931","count":10},{"id":"GO:0007399","count":9},{"id":"GO:0042552","count":9},{"id":"GO:1903244","count":8}]},{"hash":"1314656348558131379","title":"Immune activation and extracellular matrix signaling","description":"The cluster shows strong enrichment for immune-related terms (adaptive immune response, B cell receptor signaling, complement activation, response to LPS) along with cell-matrix adhesion and integrin-mediated signaling (cell-matrix adhesion, integrin-mediated signaling, cartilage condensation). This suggests proteins functionally linked in immune activation and extracellular matrix interactions, potentially during inflammation and tissue remodeling.","confidence":"Medium","size":23,"edges":16,"triangles":2,"max_degree":4,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0002250","count":9},{"id":"GO:0071226","count":8},{"id":"GO:0007160","count":8},{"id":"GO:0001502","count":8},{"id":"GO:0032496","count":8}]},{"hash":"571781713525141643","title":"Post-transcriptional mRNA processing and splicing regulation","description":"This cluster is dominated by GO terms related to spliceosome-mediated mRNA splicing, regulation of mRNA stability, polyadenylation, and translation reinitiation, indicating proteins involved in post-transcriptional RNA processing and regulation of gene expression.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":19},{"id":"GO:0000381","count":14},{"id":"GO:0006378","count":14},{"id":"GO:0031047","count":13},{"id":"GO:0048026","count":13}]},{"hash":"1711398973695228649","title":"Ubiquitin/SUMO Regulation of Signaling","description":"The top GO terms center on deubiquitination and sumoylation, with an ERAD reference, and extend to diverse signaling processes (Wnt, TNF, TLR3), endocytosis, autophagy, and mitochondrial fusion. This points to proteins that modify or regulate signaling via ubiquitin and SUMO modifications, affecting multiple pathways rather than a single one.","confidence":"Medium","size":23,"edges":249,"triangles":1689,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":11},{"id":"GO:0016925","count":9},{"id":"GO:0030433","count":7},{"id":"GO:0090090","count":6},{"id":"GO:0090263","count":6}]},{"hash":"55018948865973856","title":"Coagulation and ECM remodeling","description":"The top GO terms cluster around blood coagulation, fibrinolysis, and extracellular matrix (ECM) secretion/remodeling, suggesting a set of proteins involved in coagulation cascades and tissue remodeling. Additional terms touch on post-translational regulation (deglutamylation), liver regeneration, insulin processing, and neuronal differentiation, but the strongest signal centers on coagulation/fibrinolysis and ECM dynamics, which are closely linked in tissue repair contexts like liver regeneration. Confidence is Medium.","confidence":"","size":23,"edges":47,"triangles":32,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0097421","count":4},{"id":"GO:0003331","count":3},{"id":"GO:0010757","count":3},{"id":"GO:0035611","count":3},{"id":"GO:0051918","count":3}]},{"hash":"1660375929744648898","title":"Mitotic Cell Cycle and Ribosome Biogenesis","description":"The cluster shows strong representation of mitosis/cell cycle terms (mitotic cell cycle, cell division, exit from mitosis, cell cycle) alongside ribosome biogenesis and translation terms (ribosomal subunit biogenesis, ribosomal export from nucleus, cytoplasmic translation, tRNA modification) and ER-Golgi trafficking. This suggests a connected theme where cell cycle progression is coordinated with ribosome assembly and protein trafficking, rather than a narrow, single-function group.","confidence":"Medium","size":23,"edges":3,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0006888","count":7},{"id":"GO:0051301","count":6},{"id":"GO:0007049","count":5},{"id":"GO:0010458","count":5}]},{"hash":"2229543357605256112","title":"Neuronal axon guidance and paranode trafficking","description":"The top GO terms cluster around axon extension and guidance (including sensory neuron guidance), plus precise protein localization to paranode and juxtaparanode regions of axons, and related endosomal/synaptic vesicle trafficking. This suggests a cohesive role in neuronal development and maintenance of specialized axonal domains, with some broader developmental terms present but less central. ","confidence":"High","size":23,"edges":10,"triangles":2,"max_degree":4,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0010842","count":11},{"id":"GO:1900242","count":11},{"id":"GO:0048846","count":10},{"id":"GO:0030913","count":9},{"id":"GO:0007507","count":9}]},{"hash":"2242601454978517639","title":"Unknown","description":"The top GO terms are highly diverse, covering signaling regulation, apoptosis, transcytosis, membrane raft organization, sensory perception, tight junctions, immune differentiation, and neuronal plasticity. This lack of a unifying function or pathway suggests there isn\u2019t a coherent shared role for the whole cluster beyond broad cellular processes, so Unknown is most appropriate. ","confidence":"","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090038","count":3},{"id":"GO:1902043","count":3},{"id":"GO:0045056","count":3},{"id":"GO:0001766","count":3},{"id":"GO:0007605","count":3}]},{"hash":"700573916280015333","title":"Neural and organ development signaling","description":"The prominent GO terms center on broad developmental programs across nervous system and various organs (heart, kidney) with active signaling networks (SHH, ROBO, PI3K/AKT, STAT). Angiogenesis and cell-migration signals align with morphogenesis and tissue patterning, supporting a cohesive theme of developmental signaling in neural and organ contexts, despite the inclusion of some immune-related terms.","confidence":"High","size":23,"edges":178,"triangles":682,"max_degree":22,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007399","count":8},{"id":"GO:0042517","count":7},{"id":"GO:0035385","count":7},{"id":"GO:0001525","count":6},{"id":"GO:0043491","count":6}]},{"hash":"1966379533561830626","title":"TGF-\u03b2/BMP signaling regulation (SMAD)","description":"The top GO terms cluster around transforming growth factor beta and BMP signaling, including regulation of TGF-\u03b2 receptor signaling, cellular response to TGF-\u03b2, BMP pathway inhibition, and SMAD-related assembly/dephosphorylation. This pattern points to regulators of the TGF-\u03b2/BMP pathway rather than core signaling components.","confidence":"High","size":23,"edges":129,"triangles":438,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0046827","count":14},{"id":"GO:0030512","count":14},{"id":"GO:0071560","count":13},{"id":"GO:0042347","count":12},{"id":"GO:0030514","count":12}]},{"hash":"1801287183772549238","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":217,"triangles":1206,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":22},{"id":"GO:0000278","count":22},{"id":"GO:0043547","count":19},{"id":"GO:0072356","count":18},{"id":"GO:1905490","count":18}]},{"hash":"676283685112618474","title":"Growth factor signaling and cytoskeletal remodeling","description":"The top GO terms cluster around receptor-mediated signaling pathways (ephrin, PDGF, TGF-beta) that regulate actin filament dynamics, cell adhesion/spreading, and cell migration, all key to morphogenesis and immune-related signaling crosstalk. This suggests a coherent theme of growth-factor\u2013driven signaling leading to cytoskeletal remodeling and movement, with a note that immune response terms are present but secondary. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048013","count":2},{"id":"GO:0014911","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0006955","count":2},{"id":"GO:0036120","count":2}]},{"hash":"665345782813443603","title":"Steroid hormone biosynthesis and reproductive development","description":"Based on the GO terms, the cluster is enriched for hormone biosynthesis (prostaglandin, cortisol) and development of reproductive tissues (female gonad, mammary gland). Although there are a few outlier terms (plant hormone pathways, xenobiotic metabolism), the dominant theme ties to lipid hormone production and related developmental processes, with inflammation modulation as a secondary link.","confidence":"Medium","size":23,"edges":111,"triangles":300,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":18},{"id":"GO:0008585","count":10},{"id":"GO:0010241","count":10},{"id":"GO:0030879","count":10},{"id":"GO:0032259","count":10}]},{"hash":"240642811847664019","title":"Protein acetylation and amine metabolism","description":"Based on the top GO terms, the strongest signal is acetylation-related processes (N-terminal acetylation, propionylation, peptidyl-N6 acetylation) together with catabolic pathways for amines/polyamines (putrescine, spermine) and related metabolism (N-acetylglucosamine, mycothiol). This suggests a cluster enriched for protein acetylation and amine/amine-derived metabolite processing. While chromatin-related functions and mycothiol biosynthesis appear less central, the acetylation theme best explains the majority of terms.","confidence":"Medium","size":23,"edges":217,"triangles":1190,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0017196","count":14},{"id":"GO:0071962","count":14},{"id":"GO:0061606","count":14},{"id":"GO:0010125","count":14},{"id":"GO:0045150","count":14}]},{"hash":"2014247919021974394","title":"GPCR-cAMP Signaling and Vascular Regulation","description":"The strongest terms point to GPCR signaling that activates adenylate cyclase and cAMP pathways (GO:0010579, GO:0007190), with clear links to vascular function (GO:0045777, GO:0014829) such as blood pressure regulation and vascular smooth muscle contraction. This suggests a coherent theme around GPCR-cAMP signaling impacting cardiovascular regulation, while some other terms (e.g., electron transport, saliva secretion) may reflect broader or noisy annotations. The cluster has no recorded edges, indicating grouping by shared GO annotations rather than direct protein interactions.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":18},{"id":"GO:0022900","count":18},{"id":"GO:0045777","count":18},{"id":"GO:0007190","count":18},{"id":"GO:0002882","count":15}]},{"hash":"631288367088181117","title":"Diverse Metabolic Biosynthesis Pathways","description":"This cluster\u2019s GO terms are dominated by various biosynthetic processes (antibiotics, biotin, PHB, strigolactones, chlorophyll, etc.) and related catabolic/detoxification activities, suggesting a broad, multi-pathway metabolic theme rather than a single specific function. Confidence is Medium.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0017000","count":7},{"id":"GO:0098869","count":6},{"id":"GO:0009102","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0042619","count":5}]},{"hash":"428808509759665642","title":"ECM-Integrin Signaling in Development","description":"This cluster centers on extracellular matrix components and integrin-mediated adhesion/signaling, with supporting pathways such as Notch, BMP, and TNF signaling, and processes like cartilage-related collagen organization and peripheral nervous system myelination\u2014together suggesting ECM-guided tissue development and cell interactions.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007229","count":7},{"id":"GO:0030199","count":7},{"id":"GO:0071356","count":7},{"id":"GO:0034612","count":6},{"id":"GO:0007220","count":6}]},{"hash":"1757983903290899947","title":"Muscle development and sarcomere organization","description":"This cluster is enriched for GO terms related to cardiac and skeletal muscle differentiation, sarcomere organization, and regulation of skeletal muscle contraction via calcium ion release, as well as muscle attachment. Together these indicate proteins involved in forming and regulating the muscle contractile apparatus and its growth, making 'Muscle development and sarcomere organization' a coherent label. Some terms reference broader development (forebrain, olfactory nerve) or Notch signaling, but the dominant pattern points to muscle structure and differentiation.","confidence":"High","size":23,"edges":31,"triangles":7,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0045746","count":2},{"id":"GO:0055007","count":2},{"id":"GO:0045602","count":2},{"id":"GO:0045214","count":2}]},{"hash":"708711489221596890","title":"RNA Pol II Transcription Regulation","description":"This cluster is dominated by GO terms tied to regulation of transcription by RNA polymerase II, including initiation and elongation, indicating a coherent function in Pol II\u2013mediated transcription control. Some minority terms (histone modification, development) are present but do not override the central theme of transcription regulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0006367","count":3},{"id":"GO:0032968","count":3},{"id":"GO:0006283","count":2},{"id":"GO:0045899","count":2}]},{"hash":"1613857517598720339","title":"Neural development and transcription regulation","description":"Top GO terms center on transcription by RNA polymerase II and DNA-templated transcription, with multiple neural development terms (retina, habenula, locus ceruleus, spinal cord interneuron differentiation) and muscle development terms (myoblast proliferation, muscle organ development). This suggests a cohesive cluster of proteins coordinating developmental programs via transcriptional control in neural and, to some extent, muscle lineages.","confidence":"High","size":23,"edges":247,"triangles":1649,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0060041","count":8},{"id":"GO:2000288","count":7},{"id":"GO:0006351","count":7},{"id":"GO:0021986","count":7}]},{"hash":"5811332492806714","title":"Embryonic morphogenesis and organogenesis","description":"This cluster centers on embryonic development across multiple tissues\u2014mouth, neural crest, pancreas, dentin/tooth, ureteric branching, hypothalamus\u2014coupled with transcriptional regulation (RNA Pol II). The diversity of organogenesis terms suggests a shared theme of developmental morphogenesis rather than a single pathway, so a general label of embryonic morphogenesis/organogenesis fits best.","confidence":"High","size":23,"edges":93,"triangles":75,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0048557","count":9},{"id":"GO:0090190","count":9},{"id":"GO:0060021","count":9},{"id":"GO:0031018","count":9}]},{"hash":"1787257750178239751","title":"Multi-tissue Development and Differentiation","description":"The top GO terms point to broad developmental programs across multiple tissues (neuronal, muscular, pancreatic, lung, vascular) with transcriptional regulation at the core, indicating a general role in coordinating developmental differentiation rather than a single specific pathway.","confidence":"Medium","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":21},{"id":"GO:0033504","count":12},{"id":"GO:0035881","count":12},{"id":"GO:0001756","count":12},{"id":"GO:0060426","count":12}]},{"hash":"2085332684728024470","title":"Placental and embryonic morphogenesis","description":"Cluster terms cluster around placental/trophoblast development, palate and craniofacial morphogenesis, and broader embryonic tissue patterning, with transcriptional regulation during development, suggesting a cohesive role in embryonic morphogenesis.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":9},{"id":"GO:0060536","count":9},{"id":"GO:0000122","count":9},{"id":"GO:0035270","count":9},{"id":"GO:0060972","count":9}]},{"hash":"1257156984311925484","title":"MAPK-Driven Immune Signaling and Angiogenesis","description":"The cluster centers on immune responses (innate and adaptive) with strong activity in MAPK/ERK signaling and downstream STAT phosphorylation, alongside angiogenesis and multicellular development, suggesting a coordinated program linking immune signaling to vascular development and cell adhesion.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042742","count":9},{"id":"GO:0000187","count":9},{"id":"GO:0050910","count":9},{"id":"GO:0070374","count":7},{"id":"GO:0001525","count":7}]},{"hash":"1314487697516891558","title":"Neuroimmune-vascular signaling","description":"The proteins cluster around neural processing (prepulse inhibition, operant conditioning), immune/inflammatory activity (eosinophil chemotaxis, inflammatory regulation), and vascular/secretory functions (vasoconstriction, saliva secretion, smooth muscle contraction, lung connective tissue development), suggesting a broad, coordinated signaling theme spanning nervous, immune, and vascular systems.","confidence":"Medium","size":23,"edges":13,"triangles":7,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":15},{"id":"GO:0002882","count":13},{"id":"GO:0035106","count":13},{"id":"GO:0046541","count":13},{"id":"GO:0009253","count":13}]},{"hash":"819145449407063762","title":"Neurodevelopmental morphogenesis and ERK signaling","description":"This cluster's top GO terms center on nervous system development (substantia nigra development, nervous system development, embryonic neurocranium morphogenesis) and morphogenetic processes, with notable enrichment for ERK1/ERK2 cascade activation and tyrosine phosphorylation, suggesting signaling roles during neural development. Additional terms touch on tissue morphogenesis (hair follicle, aorta) and intracellular transport, indicating a broader developmental program linked by signaling and morphogenesis.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0031069","count":3},{"id":"GO:0007399","count":3}]},{"hash":"2185995684952395364","title":"Neurodevelopment and visual system formation","description":"The terms cluster around neural development (neuron migration, axon extension), visual perception, and angiogenesis, consistent with neuroretinal development and related signaling/adhesion processes.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0001764","count":3},{"id":"GO:0001822","count":3}]},{"hash":"108089160795873260","title":"Embryonic Development and Placental Formation","description":"The cluster is enriched in terms tied to embryogenesis and placental biology, including trophoblast giant cell differentiation, placenta/embryo development, left-right pattern formation, and cartilage morphogenesis, with proteolysis supporting tissue remodeling. Immune-related terms like complement activation and defense response may reflect remodeling and maternal-fetal interface interactions during development, reinforcing a broad theme of developmental differentiation with placental involvement.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0006508","count":4},{"id":"GO:0003323","count":4}]},{"hash":"296582635745464279","title":"Cardiac development and endothelial differentiation","description":"This cluster\u2019s top GO terms center on heart formation and vascular development (Notch signaling in the secondary heart field, cardiac right atrium morphogenesis, and venous endothelial differentiation), indicating a coherent theme of cardiac morphogenesis and heart/vasculature differentiation. A few terms reference broader processes like mechanotransduction or kinase regulation, which may reflect signaling context in heart development, while unrelated terms appear as noise in the list.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003270","count":6},{"id":"GO:0060843","count":6},{"id":"GO:0003213","count":6},{"id":"GO:0048549","count":5},{"id":"GO:0097284","count":5}]},{"hash":"174367573535657542","title":"Embryonic development and mitotic cytokinesis regulation","description":"The cluster is dominated by GO terms linking cell cycle regulation and mitotic cytokinesis (regulation and positive regulation), alongside embryonic development processes such as endodermal cell fate commitment, embryonic body morphogenesis, and neural plate development. Additional terms about cortical microtubule cytoskeleton localization and anisotropic cell growth align with the mechanics of cell division and morphogenesis. A peripheral term on proton transmembrane transport is present but does not define the core theme. Overall, the cluster appears to coordinate cell division during embryonic development and morphogenesis.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":13},{"id":"GO:0000281","count":11},{"id":"GO:0001711","count":11},{"id":"GO:0010172","count":11},{"id":"GO:0001840","count":11}]},{"hash":"1205918978549994905","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000447","count":5},{"id":"GO:0000480","count":5},{"id":"GO:0000472","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0043547","count":5}]},{"hash":"223733008221589126","title":"Gene Expression and Genome Maintenance Core","description":"The cluster centers on core gene expression machinery: transcription (RNA polymerase II), RNA processing (mRNA splicing, RNA-templated transcription), ribosome biogenesis, and translation, indicating a cohesive theme of gene expression. DNA repair and cell-cycle terms add a genome maintenance aspect, suggesting this group covers both expression and genome integrity functions. A couple of outliers (eye morphogenesis, insulin secretion regulation) may reflect annotation noise or pleiotropy.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0007049","count":3},{"id":"GO:0006366","count":2},{"id":"GO:0001172","count":2},{"id":"GO:0042254","count":2}]},{"hash":"762725072808378274","title":"Unknown","description":"The top terms are highly diverse, including blood coagulation, transcriptional regulation, biomineral tissue development, neuronal synaptic plasticity, fertilization, response to lipopolysaccharide, insulin signaling, and endosome localization. There isn\u2019t a single clear shared function or pathway linking these terms, suggesting the proteins in this cluster are functionally heterogeneous rather than part of one cohesive process.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030194","count":6},{"id":"GO:0000122","count":4},{"id":"GO:0031214","count":4},{"id":"GO:0048168","count":4},{"id":"GO:0007338","count":4}]},{"hash":"1655354030402670421","title":"Bacterial glycolysis and nucleotide metabolism","description":"The terms converge on glycolytic pathways (canonical glycolysis; glycolysis from storage polysaccharide through glucose-1-phosphate; fructose-6-phosphate metabolic), carbohydrate phosphorylation, and broad nucleotide metabolism (nucleotide metabolic process; ribonucleoside monophosphate catabolic process; adenosine metabolic process), with menaquinone biosynthesis indicating a bacterial energy/metabolic context. This suggests a coherent cluster centered on central carbon metabolism and nucleotide turnover in bacteria.","confidence":"High","size":22,"edges":11,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":4},{"id":"GO:0009234","count":3},{"id":"GO:0000162","count":2},{"id":"GO:1901069","count":2},{"id":"GO:0009158","count":2}]},{"hash":"2136457862227185831","title":"Developmental and Immune Response Genes","description":"This cluster features strong signals for developmental processes (midbrain development; pancreas morphogenesis; endocrine pancreas development) alongside immune-related activity (complement activation pathways; defense against Gram-positive bacteria; blood coagulation). The presence of a transcriptional regulator term suggests regulatory roles but there isn\u2019t a single cohesive pathway tying all terms together. A broad Developmental and Immune Response label seems most representative, with moderate confidence due to the mixed signals.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0030901","count":8},{"id":"GO:0035264","count":7},{"id":"GO:0031018","count":6},{"id":"GO:0030574","count":5}]},{"hash":"1658920899356270129","title":"Vesicle trafficking and ubiquitination in neural development","description":"The terms show a clear theme of intracellular transport (ER-Golgi, Golgi-ER retrograde, endosome to melanosome, general intracellular transport) and post-translational modification (protein ubiquitination, heterooligomerization). Added neural-context terms (brain development, asymmetric neuroblast division, mitotic cell cycle) suggest these proteins function in neural cells, linking vesicle trafficking with development and cell division. Overall, a cohesive label around vesicle trafficking with ubiquitination in neural contexts fits well.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":6},{"id":"GO:0051291","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0006888","count":3}]},{"hash":"2052652290283361430","title":"Cytokinesis and Developmental Cell Cycle","description":"The cluster\u2019s top GO terms repeatedly point to mitotic and regulatory aspects of cytokinesis and the broader cell cycle (mitotic cytokinesis, regulation of cell cycle, positive regulation of cytokinesis, positive regulation of GTPase activity). In addition, several terms relate to development and patterning (embryonic body morphogenesis, neural plate development, endodermal cell fate commitment, anisotropic cell growth), suggesting these proteins coordinate cell division with embryonic development. The combination of cytokinesis machinery and developmental processes supports a label focused on both cell division and developmental regulation.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":11},{"id":"GO:0006607","count":11},{"id":"GO:0043547","count":11},{"id":"GO:0007050","count":10},{"id":"GO:0000281","count":9}]},{"hash":"149358330453487804","title":"Neuronal GPCR signaling and dopaminergic transmission","description":"The top GO terms cluster around GPCR signaling that activates adenylate cyclase, regulation of dopamine secretion, and behavioral responses to cocaine, with supporting GABAergic synaptic transmission and sensory modalities (visual perception, pain). This points to a brain neuronal signaling module centered on GPCR\u2013cAMP pathways modulating dopaminergic and GABAergic communication, with energy metabolism terms reflecting active neurons. Thus, a concise label is neuronal GPCR signaling and dopaminergic transmission.","confidence":"High","size":22,"edges":12,"triangles":0,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0019233","count":16},{"id":"GO:0007190","count":15}]},{"hash":"2303829173867254227","title":"Translation Machinery and Regulation","description":"The top GO terms are dominated by translation-related processes (translation, translational initiation/termination, elongation, positive regulation of cytoplasmic translation) and tRNA modification, indicating a core theme around protein synthesis and its control. A few terms such as calcium transport and glial cell proliferation are present but secondary, so the central function appears to be translation machinery and its regulation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0070588","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0006413","count":2}]},{"hash":"1309283039190420500","title":"TGF-beta/SMAD signaling in mesoderm formation","description":"This cluster is dominated by TGF-beta receptor signaling and SMAD complex assembly, pointing to a core signaling-transcription axis driving mesoderm formation and gastrulation. It also features transcriptional regulation (DNA-templated transcription) and post-translational control (protein sumoylation) of developmental regulators. The inclusion of mesoderm formation and related processes, along with broader terms like axon regeneration and smooth muscle contraction, suggests a developmental program with shared regulatory modules across tissues. Overall, the common thread is TGF-beta\u2013SMAD\u2013mediated transcriptional regulation guiding mesoderm development.","confidence":"High","size":22,"edges":118,"triangles":277,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007179","count":10},{"id":"GO:0007183","count":10},{"id":"GO:0006351","count":9},{"id":"GO:0016925","count":7},{"id":"GO:0001702","count":7}]},{"hash":"943913055403850552","title":"Immune Activation: Innate and Adaptive","description":"This cluster is centered on immune system activation and signaling across both innate and adaptive arms, highlighted by B cell receptor signaling and activation, T cell proliferation, and complement activation, along with phagocytosis-related terms. The inclusion of innate immune response and cytoskeletal regulation for cell-cell interactions further supports a general immune activation theme rather than a single pathway. Confidence: High","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":6},{"id":"GO:0042102","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0006911","count":5},{"id":"GO:0006910","count":5}]},{"hash":"2283839396237859361","title":"Ubiquitin-Driven Immune Signaling Regulation","description":"The term set centers on ubiquitin-dependent protein catabolic processes (including autoubiquitination) and immune signaling pathways (NF-\u03baB/I\u03baB phosphorylation, TNF signaling, JNK cascade) with adaptive immune response, suggesting proteins that regulate immune signaling through ubiquitin-mediated protein turnover; additional terms on histone catabolism and X chromosome dosage compensation appear as related, but secondary, themes.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0051865","count":11},{"id":"GO:0036205","count":9},{"id":"GO:1903265","count":9},{"id":"GO:0085020","count":9}]},{"hash":"1615173053653472902","title":"Small-molecule biosynthesis and catabolism","description":"The cluster\u2019s terms span multiple biosynthetic pathways (strigolactone, biotin, antibiotic biosynthesis) and several catabolic routes (uracil, glucuronoside, 3-phenylpropionate, beta-ketoadipate), with some regulatory and stress-related terms. This mix suggests a broad theme of diverse small-molecule metabolism, rather than a single specific pathway, so the label reflects the shared function of processing various small molecules.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901601","count":7},{"id":"GO:0006212","count":7},{"id":"GO:2000124","count":7},{"id":"GO:0042952","count":7},{"id":"GO:0017000","count":7}]},{"hash":"1232424092841798936","title":"Angiogenesis and Endothelial Barrier Regulation","description":"Based on the top GO terms, this cluster centers on vascular biology: positive regulation of angiogenesis, blood coagulation, and establishment of endothelial barriers, plus positive regulation of focal adhesion and growth processes, which together point to endothelial cell function and vascular remodeling. Some terms related to lens differentiation, pancreatic beta-cell development, and defense responses are peripheral and may reflect broader developmental programs; nonetheless the dominant signal is angiogenesis and endothelial barrier regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045766","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0035264","count":4}]},{"hash":"1025699489453157806","title":"Collagen ECM Synthesis and Tissue Development","description":"The cluster shows multiple top GO terms tied to collagen fibril organization and collagen biosynthetic processes, pointing to collagen/ECM production. Additional terms such as blood coagulation and various development-related processes (endodermal differentiation, vagina development) suggest roles in tissue remodeling and developmental signaling. Together with BMP- and nitric oxide\u2013related signaling and neuronal terms, the set appears centered on ECM assembly coordinated with tissue development rather than a single isolated pathway.","confidence":"Medium","size":22,"edges":175,"triangles":825,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0014012","count":3},{"id":"GO:0045721","count":3},{"id":"GO:0032964","count":3},{"id":"GO:0007596","count":3}]},{"hash":"476283384651246583","title":"Diverse substrate membrane transporters","description":"GO terms indicate transmembrane transport of a variety of substrates (nitrate/nitrite, vitamins, sugars like galactose, sialic acid, 4-hydroxyphenylacetate, potassium, xenobiotics). This points to a cohesive function as membrane transporter proteins with broad substrate specificity, rather than a single substrate class. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":5},{"id":"GO:0035461","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0042891","count":5},{"id":"GO:0006855","count":5}]},{"hash":"2185235233575378819","title":"Unknown","description":"The GO terms span a wide range of biosynthetic processes (lipopolysaccharide, poly-hydroxybutyrate, retinol/retinal, antibiotic, anthocyanin biosynthesis) along with regulatory and developmental terms (lung development, regulation of transcription, cell-matrix adhesion), with no clear, cohesive functional theme across the cluster. This suggests there isn\u2019t a single, interpretable function tying these proteins together.","confidence":"","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0042619","count":6},{"id":"GO:0009103","count":5},{"id":"GO:0009718","count":5},{"id":"GO:0017000","count":5}]},{"hash":"1819027517514639312","title":"Neural development and synaptic signaling","description":"This cluster is dominated by terms tied to nervous system development, hippocampus development, dendrite morphogenesis, axon extension, and excitatory synaptic activity, with additional signals related to dopamine response and JNK pathway regulation. Together, these point to proteins involved in neural development and the formation and function of synapses, especially dopaminergic signaling and dendritic/axonal growth. While mitotic cell cycle appears, the prevailing theme is neuronal differentiation and synaptic maturation.","confidence":"High","size":22,"edges":10,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":21},{"id":"GO:1903351","count":20},{"id":"GO:0033138","count":20},{"id":"GO:0021766","count":20},{"id":"GO:0060079","count":20}]},{"hash":"539059022659055590","title":"Metabolic Stress and Cell Cycle Signaling","description":"The cluster shows metabolic remodeling under nutrient limitation (glucose starvation response, fatty acid and amino acid metabolism, GTP biosynthesis, serine/homocysteine/cysteine catabolism) alongside transport into the nucleus, kinase activation, and regulation of mitotic progression, indicating a coordinated metabolic adaptation linked to cell cycle control.","confidence":"Medium","size":22,"edges":11,"triangles":4,"max_degree":4,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0043418","count":7},{"id":"GO:0042149","count":7},{"id":"GO:0006183","count":7},{"id":"GO:0006633","count":7},{"id":"GO:0031460","count":7}]},{"hash":"1802294857622785707","title":"Cytoskeleton signaling and immune response","description":"This cluster is enriched for terms involving regulation of GTPase activity and actin filament severing, pointing to cytoskeletal remodeling. It also includes cellular responses to lipopolysaccharide and B cell proliferation, indicating immune signaling, along with mechanically induced responses and cell-cycle/apoptosis-related terms that tie signaling to dynamic cellular processes. Overall, the proteins appear to participate in signaling pathways that coordinate the cytoskeleton with immune cues and stress responses.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0000082","count":3},{"id":"GO:0043666","count":3},{"id":"GO:2001241","count":3},{"id":"GO:0071222","count":3}]},{"hash":"2000541116597945646","title":"Gonadal development and steroid hormone biosynthesis","description":"The predominant GO terms point to steroid hormone production (androgen, testosterone, cortisol) and reproductive development (female gonad, mammary gland). A few terms are less related (methylation, plant-specific oxidation, stress response), but the core pattern supports a cluster focused on steroid biosynthesis and gonadal/mammary development.","confidence":"High","size":22,"edges":21,"triangles":5,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":13},{"id":"GO:0008209","count":13},{"id":"GO:0061370","count":13},{"id":"GO:0010241","count":12},{"id":"GO:0030879","count":12}]},{"hash":"436047478848455936","title":"Lipid and Carbohydrate Metabolism with Stress Responses","description":"The cluster is enriched for lipid- and sugar-related metabolic terms (retinol metabolism, fatty acid biosynthesis, fructose and sorbitol catabolic processes) alongside stress/immune response terms (response to lipopolysaccharide, nitrosative stress, response to antineoplastic agent), suggesting a theme of metabolic pathways linked to cellular stress and immune responses. An occasional neuron migration term appears incidental.","confidence":"Medium","size":22,"edges":229,"triangles":1500,"max_degree":21,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0042572","count":11},{"id":"GO:0046370","count":11},{"id":"GO:0032496","count":9},{"id":"GO:0097477","count":9},{"id":"GO:0070527","count":9}]},{"hash":"1357309248956354282","title":"Embryonic development and tissue morphogenesis","description":"The GO terms cluster around embryonic organogenesis across multiple tissues (palate, cartilage, placenta, pancreas) and patterning (left/right), including EMT processes, with accompanying transcriptional regulation and splicing, pointing to a cohesive theme of developmental morphogenesis and lineage specification.","confidence":"High","size":22,"edges":28,"triangles":0,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":19},{"id":"GO:0000122","count":18},{"id":"GO:0060806","count":13},{"id":"GO:0060536","count":13},{"id":"GO:0035270","count":13}]},{"hash":"1702215485574649664","title":"Embryonic organogenesis and tissue development","description":"This cluster is enriched for developmental processes across multiple organs and tissues (retina, pancreas, neural crest, spinal cord, muscle, bronchioles, ureteric bud branching), plus transcription by RNA polymerase II, suggesting coordinated gene regulation during embryogenesis. The common theme is broad organogenesis and morphogenesis rather than a single pathway, justifying the label.","confidence":"High","size":22,"edges":205,"triangles":1089,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0060041","count":10},{"id":"GO:0090190","count":10},{"id":"GO:0031018","count":10},{"id":"GO:0014029","count":10}]},{"hash":"1993474646890366860","title":"Vision and sensory-motor development","description":"The top terms cluster around eye/vision (visual perception, retina development) and behavior (locomotory behavior, operant conditioning, prepulse inhibition), indicating a vision- and sensory-motor development theme; other terms are present but less representative.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":21},{"id":"GO:0060041","count":21},{"id":"GO:0007626","count":21},{"id":"GO:0007507","count":21},{"id":"GO:0002882","count":20}]},{"hash":"11282375787257555","title":"Calcium-dependent exocytosis and vesicle trafficking","description":"The set of GO terms centers on vesicle movement and secretion: exocytosis docking, calcium-regulated exocytosis, neurotransmitter release, and endosome-lysosome transport, plus protein targeting to vacuole. Even though some terms touch pigmentation or lysosomal pH, the prominent pattern is vesicle trafficking and secretory processes, spanning neuronal and secretory cell contexts. Therefore this label captures the main function of the cluster.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048070","count":2},{"id":"GO:0008333","count":2},{"id":"GO:0006904","count":2},{"id":"GO:0045956","count":2},{"id":"GO:0006623","count":2}]},{"hash":"1485705138362292165","title":"Ubiquitination Pathways and TNF Signaling","description":"The proteins are strongly enriched for ubiquitin-related processes (ubiquitin-dependent proteolysis, general ubiquitination, autoubiquitination, and K63/K6-linked ubiquitination) and TNF-mediated signaling, with histone turnover also represented, indicating a cluster centered on ubiquitin-mediated regulation of protein degradation and inflammatory signaling.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:1903265","count":13},{"id":"GO:0036205","count":13},{"id":"GO:0085020","count":13},{"id":"GO:0051865","count":13}]},{"hash":"803541072034052535","title":"Rho GTPase\u2013driven actin remodeling","description":"This cluster is defined by GO terms tied to GTPase regulation and actin cytoskeleton dynamics (positive regulation of GTPase activity, small GTPase-mediated signaling, lamellipodium assembly, actin filament organization). These points indicate a shared function in controlling actin remodeling via Rho family GTPases, with heart, spinal cord, and germ cell development terms reflecting broader morphogenetic roles. Confidence: High","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0021510","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0030032","count":4}]},{"hash":"753040233286688317","title":"Developmental morphogenesis and cytoskeleton dynamics","description":"This cluster is driven by GO terms centered on developmental processes (bone and heart development) and cytoskeletal/cell-adhesion remodeling (actin crosslink formation, cell spreading, polarity, tight junctions) as well as related signaling (GTPase activity) and trafficking (endocytosis, membrane proteolysis). The mixture points to coordinated changes in cell shape, adhesion, and movement during tissue morphogenesis. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060348","count":6},{"id":"GO:0051764","count":5},{"id":"GO:0007507","count":5},{"id":"GO:1900026","count":5},{"id":"GO:0060291","count":5}]},{"hash":"996274160634292776","title":"Ubiquitin-regulated innate antiviral signaling","description":"These proteins are enriched for ubiquitin-dependent protein degradation and innate antiviral defense, including TNF signaling and I-\u03baB regulation, pointing to a role in ubiquitin-mediated modulation of inflammatory/antiviral immune responses.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0051607","count":9},{"id":"GO:0045087","count":9},{"id":"GO:1903265","count":8},{"id":"GO:0000209","count":8}]},{"hash":"1112904678221878772","title":"Vascular-immune signaling and metabolic regulation","description":"The top GO terms cluster around cardiovascular control (positive regulation of blood pressure, vascular permeability), immune cell trafficking (monocyte chemotaxis, GPCR signaling), and metabolic signaling (diet-induced thermogenesis, electron transport chain). The convergence on GPCR/Rho/PLC pathways and temperature/pain responses supports a theme of integrated vascular-immune signaling with metabolic cues.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":14},{"id":"GO:0010579","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0090026","count":13},{"id":"GO:0002024","count":13}]},{"hash":"1269566975661178168","title":"Xenobiotic stress response and nuclear transport","description":"These proteins show GO terms for cellular response to xenobiotic stimulus and nuclear pore complex assembly, implicating xenobiotic stress responses and nuclear transport. They also include general transcription regulation and cytokine production modulation, suggesting a broader stress- and transcription-regulatory module with ancillary immune signaling. Because the terms span multiple related but not tightly linked processes, the cluster is best described with moderate confidence.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0051292","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0045945","count":3},{"id":"GO:0000188","count":3}]},{"hash":"1664898577039453302","title":"Rho GTPase\u2013driven cytoskeletal dynamics in neural development","description":"The cluster shows strong enrichment for Rho and small GTPase signaling (regulation of Rho protein signal transduction; positive regulation of GTPase activity; small GTPase-mediated signaling) and actin cytoskeleton organization, pointing to cytoskeletal remodeling and cell motility in neural contexts (radial glia migration, hippocampus development). While other terms touch on dexamethasone response or apoptosis, the dominant theme ties to GTPase-driven cytoskeletal changes in neural development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0032760","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0071549","count":4},{"id":"GO:0021766","count":3}]},{"hash":"1810890140963780027","title":"RNA processing and ubiquitin regulation","description":"The presence of spliceosomal complex assembly and nuclear poly(A) tail shortening points to RNA maturation and processing roles, while recurrent deubiquitination terms (K11- and K6-linked) and negative regulation of ubiquitin ligase activity indicate involvement in ubiquitin-mediated protein regulation. Taken together, these terms suggest a cluster centered on post-transcriptional RNA processing and ubiquitin pathway regulation, with other terms being more context-specific noise.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0019933","count":6},{"id":"GO:0090557","count":6},{"id":"GO:0050774","count":6},{"id":"GO:2000670","count":6},{"id":"GO:0030033","count":6}]},{"hash":"1055772771080039431","title":"Immune and nervous system signaling","description":"The GO terms show immune receptor signaling (B cell receptor signaling pathway and Fc receptor signaling pathway) and tyrosine phosphorylation of STAT, indicating immune signaling, alongside neural activity terms (excitatory postsynaptic potential) and mechanosensory detection related to hearing, suggesting neural signaling. There is also heterophilic cell-cell adhesion and host-symbiont entry into host cell, which relate to cell interactions and signaling at membranes. Overall, the cluster appears to capture membrane receptor\u2013mediated signaling across immune and nervous systems.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050910","count":8},{"id":"GO:0032516","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0046718","count":6},{"id":"GO:0060079","count":6}]},{"hash":"1876734900374695506","title":"Telomere maintenance regulation","description":"The cluster is dominated by GO terms about telomere maintenance, lengthening, capping, and telomerase regulation, with both positive and negative regulation signals and telomeric DNA binding, suggesting proteins that regulate telomere dynamics (PARP-related activity may modulate this). A few terms like spindle assembly are less central but do not override the telomere theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904357","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0070212","count":3},{"id":"GO:1904355","count":3},{"id":"GO:1904743","count":3}]},{"hash":"2273240865091870870","title":"Immune signaling and vesicle trafficking","description":"This cluster shows strong enrichment for immune-related processes (B cell receptor signaling, IL-2 production, mast cell proliferation) along with vesicle trafficking and lysosome localization (transcytosis, protein localization to lysosome, actin remodeling and cytokinesis). The combination suggests a theme of immune cell activation coupled with vesicular transport and cytoskeletal dynamics. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0045056","count":4},{"id":"GO:0060378","count":4},{"id":"GO:1900042","count":4},{"id":"GO:1903764","count":4}]},{"hash":"1829907297505373245","title":"Embryonic development and morphogenesis","description":"The GO terms show diverse tissue-specific morphogenetic processes (hair follicle, cartilage, mesoderm, endocrine system) and pattern formation, all linked by development and tissue patterning axes. Although the proteins span multiple lineages, the unifying theme is embryonic development and morphogenesis rather than a single pathway.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031069","count":7},{"id":"GO:0060021","count":6},{"id":"GO:0007498","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0060806","count":5}]},{"hash":"782438088836100026","title":"Transcription Regulation & RNA Processing","description":"The Top Terms are dominated by nuclear processes related to gene expression: DNA-templated transcription, negative regulation of transcription by RNA polymerase II, and spliceosomal snRNP assembly, with hints of histone modification regulation. While a few terms touch on signaling or development, the core theme across the cluster appears to be transcription control and RNA processing.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071314","count":2},{"id":"GO:0006351","count":2},{"id":"GO:2000616","count":2},{"id":"GO:0008625","count":2},{"id":"GO:0000122","count":2}]},{"hash":"437741901353544468","title":"Multi-tissue development and differentiation","description":"The top GO terms cover differentiation and development across multiple tissues (neural/glial, astrocyte, lens, muscle, keratinocyte, hepatocyte) and related cytoskeletal organization, suggesting a broad theme of developmental programs rather than a single specific pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0097284","count":5},{"id":"GO:0032980","count":4},{"id":"GO:0060020","count":4},{"id":"GO:0031443","count":4},{"id":"GO:0014012","count":4}]},{"hash":"697548266567125843","title":"Plant development and mitotic spindle regulation","description":"The GO terms show strong emphasis on plant development (root development, embryonic body morphogenesis, epidermal stem cell homeostasis) as well as microtubule- and spindle-associated processes (mitotic spindle assembly, centrosome separation, microtubule regulation, mitotic metaphase chromosome alignment). The presence of chloroplast movement further points to plant-specific cellular dynamics, suggesting the cluster groups proteins involved in coordinating development with cell division machinery.","confidence":"High","size":21,"edges":133,"triangles":541,"max_degree":16,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0048364","count":15},{"id":"GO:0010172","count":9},{"id":"GO:0001560","count":8},{"id":"GO:0090307","count":8},{"id":"GO:0007100","count":8}]},{"hash":"662170630274053905","title":"Mitochondrial translation and metabolic processes","description":"The cluster is anchored by translation-related GO terms, notably translation (GO:0006412) and mitochondrial translational initiation (GO:0070124), pointing to mitochondria-associated protein synthesis. The presence of various metabolic terms (nitrate and sulfate assimilation, phenylacetate catabolic process, organofluorine metabolism) and a sodium ion transport term suggests a broader metabolic context surrounding mitochondrial function, though some terms (e.g., adenohypophysis morphogenesis, thyroid hormone generation) may be annotations not tightly connected to mitochondria. Overall, the label reflects a core focus on mitochondrial translation with accompanying metabolism.","confidence":"Medium","size":21,"edges":195,"triangles":1125,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0051591","count":2},{"id":"GO:0010124","count":2},{"id":"GO:0006814","count":2}]},{"hash":"872598628379566830","title":"Metabolism and xenobiotic response","description":"The top GO terms are dominated by central metabolic processes (glycolysis, TCA cycle, fatty acid and carbohydrate biosynthesis, retinol metabolism), indicating a cluster of proteins involved in energy production and lipid/carbohydrate metabolism. Additional terms point to xenobiotic and LPS-related stress responses and antibiotic biosynthesis, suggesting a linkage to responses to foreign compounds. Taken together, the cluster appears to group metabolic pathways with ancillary xenobiotic/immune-like responses rather than a single highly specific function.","confidence":"Medium","size":21,"edges":167,"triangles":693,"max_degree":20,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0032496","count":5},{"id":"GO:0042572","count":5},{"id":"GO:0006096","count":4},{"id":"GO:0042493","count":4}]},{"hash":"372198997185355212","title":"Vitamin K Biosynthesis and Fatty Acid Metabolism","description":"The top terms cluster around phylloquinone and menaquinone biosynthesis (vitamin K variants) and fatty acid beta-oxidation, with several amino acid catabolic processes also represented. This suggests a metabolic module centered on vitamin K\u2013related biosynthesis and lipid-energy metabolism, with some terms (e.g., Notch signaling) likely representing annotation noise. Confidence: Medium","confidence":"","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"mitochondrion organization","top_go_terms":[{"id":"GO:0017000","count":11},{"id":"GO:0042372","count":9},{"id":"GO:0006635","count":9},{"id":"GO:0006574","count":9},{"id":"GO:0009234","count":9}]},{"hash":"1726094789058861773","title":"Embryonic Organ Morphogenesis","description":"This cluster is enriched for diverse embryonic morphogenesis terms across multiple tissues (heart, hindlimb, eye, placenta, prostate, habenula, etc.). The repeated GO terms for organ development and morphogenesis, plus estrogen receptor signaling, indicate a shared role in coordinating embryonic organ formation rather than a single tissue function. Therefore, Embryonic Organ Morphogenesis best captures the common theme.","confidence":"High","size":21,"edges":34,"triangles":26,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060527","count":13},{"id":"GO:2000288","count":13},{"id":"GO:0007507","count":13},{"id":"GO:0003148","count":13},{"id":"GO:0035116","count":13}]},{"hash":"1467105109969661709","title":"ECM remodeling and inflammatory-vascular signaling","description":"The Top Terms cluster around extracellular matrix processes (collagen fibril organization), development of connective tissues (somite/chondrocyte differentiation), and endothelial/vascular migration, with tied integrin signaling. Immune/inflammatory cues (complement activation, cytokine production) and lipid handling (lipoprotein transport, cholesterol storage) also appear, suggesting a cohesive theme of ECM remodeling linked to vascular development and immune/lipid regulation.","confidence":"Medium","size":21,"edges":26,"triangles":2,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0010886","count":8},{"id":"GO:2001046","count":8},{"id":"GO:0032332","count":8},{"id":"GO:0018057","count":8}]},{"hash":"623440227745886170","title":"Cardiac and Skeletal Muscle Contraction and Development","description":"Top terms cluster around muscle physiology: cardiac and skeletal muscle contraction, calcium sensing and calcium release regulation, and muscle fiber development/morphogenesis. The presence of calcium detection and regulation of contraction by sequestered calcium, along with dephosphorylation and kinase activity modulation, points to calcium-dependent control of muscle function. While memory and mitotic terms are occasional outliers, the dominant theme ties to muscle contraction and its developmental context, justifying this label.","confidence":"High","size":21,"edges":59,"triangles":51,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":13},{"id":"GO:0060048","count":11},{"id":"GO:0007616","count":11},{"id":"GO:0048741","count":11},{"id":"GO:0005513","count":11}]},{"hash":"12229965286922445","title":"Neurodevelopment and craniofacial morphogenesis with transcription regulation","description":"The cluster is enriched for neural and craniofacial developmental terms (habenula development, hypothalamus development, neural crest cell migration, roof of mouth development) and includes transcription-related GO terms (transcription by RNA Pol II and its negative regulation). This points to a set of proteins involved in developmental gene regulation during embryogenesis, coordinating tissue differentiation in brain and facial structures.","confidence":"Medium","size":21,"edges":55,"triangles":7,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0021986","count":11},{"id":"GO:0021979","count":11},{"id":"GO:0031018","count":10},{"id":"GO:0001755","count":10}]},{"hash":"326059437118547543","title":"Synaptic plasticity and membrane repair","description":"The dominant GO terms point to neuronal signaling and membrane dynamics (long-term potentiation, regulation of synaptic plasticity, plasma membrane repair, sphingolipid biosynthesis), with supporting roles in Rho signaling and glial regulation, suggesting a cluster of proteins involved in synaptic remodeling and membrane maintenance.","confidence":"High","size":21,"edges":134,"triangles":407,"max_degree":19,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001778","count":10},{"id":"GO:0060291","count":10},{"id":"GO:0035023","count":9},{"id":"GO:0031914","count":9},{"id":"GO:0043065","count":9}]},{"hash":"1273930327984030702","title":"Inflammation, xenobiotic, and stress response","description":"The top GO terms cluster around responses to xenobiotics, oxidative stress, and inflammatory signals (TNF, LPS, ethanol), with downstream apoptosis and prostaglandin biosynthesis. While terms like uterus development and retinoic acid catabolic process appear, the dominant theme is cellular stress and inflammatory signaling, suggesting a coherent stress/inflammation-focused module.","confidence":"Medium","size":21,"edges":13,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":4},{"id":"GO:0034653","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0001516","count":4},{"id":"GO:0042493","count":4}]},{"hash":"682094659041785155","title":"Auditory-visual neural development and signaling","description":"Strong emphasis on nervous system development and sensory perception; includes cochlea morphogenesis, vocalization, and light perception, plus dendrite and synapse development and serotonin signaling; also notes Golgi localization and tight junction components relevant to neuronal and sensory epithelial function.","confidence":"High","size":21,"edges":134,"triangles":393,"max_degree":19,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0071625","count":12},{"id":"GO:0090103","count":12},{"id":"GO:0051683","count":12},{"id":"GO:0090557","count":12},{"id":"GO:0016358","count":12}]},{"hash":"761688338836589760","title":"Ephrin signaling and synaptic plasticity","description":"The strongest signals are ephrin receptor signaling and regulation of synapse structure/function, including positive regulation of excitatory postsynaptic potential, which points to neuronal connectivity and plasticity. Additional terms touch on inflammatory signaling and tissue morphogenesis, suggesting a broader developmental signaling network, but the core theme centers on ephrin-mediated modulation of neural connectivity and synaptic plasticity.","confidence":"Medium","size":21,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048013","count":3},{"id":"GO:0071963","count":3},{"id":"GO:0051835","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0006954","count":3}]},{"hash":"165851615764536727","title":"Axon guidance and nervous system development","description":"This cluster is dominated by GO terms related to neural development and axon guidance (axon guidance, nervous system development, branchiomotor neuron axon guidance, sympathetic neuron projection extension, semaphorin-plexin signaling in axon guidance, trigeminal nerve structure, neural crest migration). A couple of terms (ossification in bone maturation and mast cell chemotaxis) appear less central to this theme, but the core signal is neural development and axon pathfinding.","confidence":"High","size":21,"edges":81,"triangles":133,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":11},{"id":"GO:0007411","count":11},{"id":"GO:0007399","count":11},{"id":"GO:0021785","count":10},{"id":"GO:0097490","count":10}]},{"hash":"1229378355964043437","title":"Neural signaling, sensory perception, and behavior","description":"This cluster is dominated by neural and sensory terms: dopamine secretion and acetylcholine response point to neural signaling; detection of mechanical stimuli and sound perception, plus lateral geniculate nucleus development, highlight sensory pathways; and startle and walking behaviors reflect neural-driven actions. A few terms (acrosome reaction, amyloid-beta formation, zinc response) are less obviously neural but can be linked to broader cellular or neurological contexts, so the overall theme is neural communication coupled with sensory processing and behavior.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043200","count":10},{"id":"GO:0033603","count":10},{"id":"GO:0050910","count":10},{"id":"GO:0001964","count":10},{"id":"GO:1902004","count":9}]},{"hash":"2099392238096544675","title":"Metabolic pathways and cell-cycle regulation","description":"The GO terms show a mix of metabolic processes (fatty acid and GTP biosynthesis, serine and homocysteine catabolism), transport and stress response (glycine betaine transport, glucose starvation response), nuclear import, activation of protein kinase activity, and a specific cell-cycle regulation term, suggesting a cluster that connects metabolic state with cell growth and division rather than a single pathway.","confidence":"Medium","size":21,"edges":89,"triangles":231,"max_degree":18,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006633","count":8},{"id":"GO:0031460","count":8},{"id":"GO:0043418","count":7},{"id":"GO:0042149","count":7},{"id":"GO:0006183","count":7}]},{"hash":"2045133520317088680","title":"Developmental signaling and cell-cycle regulation","description":"This cluster is enriched in signaling-related GO terms (MAPK/ERK cascade, ephrin receptor signaling) and cell-cycle processes (mitotic cell cycle, DNA replication), with developmental context (hippocampus development). Together, these suggest a module of proteins coordinating growth, differentiation, and neural development through signaling pathways.","confidence":"High","size":21,"edges":100,"triangles":167,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0043366","count":20},{"id":"GO:0070374","count":20},{"id":"GO:0000278","count":20},{"id":"GO:0043552","count":20},{"id":"GO:0033138","count":20}]},{"hash":"1167257204592440448","title":"Synaptic organization and spine morphogenesis","description":"This cluster centers on neuronal synapses: multiple terms describe localization to synapses, receptor clustering, and dendritic spine morphogenesis, together with Rho-mediated signal transduction that governs cytoskeletal remodeling. While a few terms touch on apoptosis or immune signaling, the strongest and most frequent terms point to synaptic assembly and structural plasticity.","confidence":"High","size":21,"edges":109,"triangles":430,"max_degree":20,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0008285","count":16},{"id":"GO:0035418","count":16},{"id":"GO:0007266","count":16},{"id":"GO:0060997","count":16},{"id":"GO:0043113","count":16}]},{"hash":"820644508541105160","title":"Multi-Substrate Membrane Transporters","description":"The cluster is dominated by transmembrane transport GO terms covering xenobiotics, vitamins, potassium ions, and various sugars, plus related cellular responses to glucose starvation and osmotic stress. This points to a coherent set of membrane transporter proteins that handle diverse substrates and osmoregulatory challenges.","confidence":"High","size":21,"edges":180,"triangles":845,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0042908","count":21},{"id":"GO:0035461","count":20},{"id":"GO:0071805","count":20},{"id":"GO:0006855","count":20},{"id":"GO:0042149","count":19}]},{"hash":"1682038819239213009","title":"Developmental transcription regulation and chromatin remodeling","description":"This cluster is dominated by terms for transcription control and chromatin remodeling (negative regulation of transcription by RNA Pol II, DNA-templated transcription, chromatin remodeling), paired with diverse developmental morphogenesis terms (atrial septum primum morphogenesis, ureteric bud branching, endocrine pancreas development, neural crest migration, chondrocyte differentiation, spermatid differentiation). The common thread appears to be proteins that regulate gene expression and chromatin state to drive development and differentiation across multiple tissues.","confidence":"High","size":21,"edges":5,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0006351","count":8},{"id":"GO:0043044","count":6},{"id":"GO:0003289","count":5},{"id":"GO:0090190","count":5}]},{"hash":"555256462050909117","title":"Female reproductive development and hormonal regulation","description":"The top GO terms cluster around female reproductive traits: uterus development, female gonad development, sex differentiation, and mammary gland development, plus cortisol biosynthetic process and related hormone regulation. Together they suggest proteins involved in initiating/maintaining female reproductive development and associated hormonal pathways. Some terms (stress response, methylation, xenobiotic/dioxin catabolic) are less directly linked but may reflect broader regulatory roles. Overall the dominant theme is female reproductive development and hormone synthesis/regulation.","confidence":"High","size":21,"edges":113,"triangles":399,"max_degree":17,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0060065","count":13},{"id":"GO:0007548","count":13},{"id":"GO:0008585","count":12},{"id":"GO:0010241","count":12},{"id":"GO:0030879","count":12}]},{"hash":"1253793904385932748","title":"Lipid and isoprenoid biosynthesis","description":"This cluster\u2019s top GO terms overwhelmingly point to biosynthesis of lipid- and isoprenoid-derived molecules: fatty acid elongation and very long-chain/ mycolic acid biosynthesis, poly-hydroxybutyrate, retinol metabolism, phylloquinone biosynthesis/catabolism, and estrogen biosynthesis. These together suggest a common theme of lipid and isoprenoid metabolite production, with redox-related processes tying into general metabolism. ","confidence":"High","size":21,"edges":62,"triangles":97,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":16},{"id":"GO:0055114","count":16},{"id":"GO:0042619","count":16},{"id":"GO:0030497","count":14},{"id":"GO:0031427","count":14}]},{"hash":"1816362375355455680","title":"RNA Processing and Transcription Regulation","description":"The top GO terms cluster around transcription by RNA polymerase II and RNA processing/splicing (e.g., mRNA splicing via spliceosome, negative regulation of transcription by RNAP II, DNA-templated transcription, and RNAP II regulatory region interactions), with an additional note of ribosomal export and replication initiation that can reflect general gene expression control. The dominant theme is regulation of transcription and RNA processing, suggesting these proteins function as a module in gene expression control. Developmental terms are less central to the core function but may reflect tissue-specific contexts.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0000398","count":4},{"id":"GO:1903026","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0032298","count":4}]},{"hash":"397947981416084224","title":"Unknown","description":"The top GO terms are diverse (spermatid development, mitotic cell cycle, filopodium regulation, xenobiotic response, GABAergic synaptic transmission, immune defense, angiogenesis-related migration, and ERK signaling), with no single unifying function or pathway dominating the cluster. This heterogeneity makes a specific, representative label unlikely. ","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007286","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0051489","count":5},{"id":"GO:0090334","count":5},{"id":"GO:0035690","count":5}]},{"hash":"2102698838772500416","title":"Actin Cytoskeleton Remodeling and Protrusion Formation","description":"The dominant terms point to dynamic actin remodeling, including lamellipodium and filopodium assembly, actin crosslinking/severing, barbed-end capping, and Rac-mediated signaling, all underpinning formation of cellular protrusions and motility. A Bet on B cell receptor signaling is present but not central. Thus the cluster appears to reflect actin-driven protrusion formation and cytoskeleton organization.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":5},{"id":"GO:0046847","count":4},{"id":"GO:0051764","count":4},{"id":"GO:0050853","count":3},{"id":"GO:0051014","count":3}]},{"hash":"1991253321782506005","title":"Rho-Regulated Actin Cytoskeleton Organization","description":"The top GO terms center on regulation of Rho GTPase signaling, actin cytoskeleton organization and crosslinking, and lamellipodium morphogenesis, pointing to a coherent set of proteins controlling actin dynamics under Rho control and influencing cell shape, adhesion, and polarity. The insulin signaling term may reflect cross-talk but is not central to the core theme.","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:0031532","count":4},{"id":"GO:0051764","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0030036","count":4}]},{"hash":"2296062349938694523","title":"Angiogenesis and vascular development","description":"The strongest terms revolve around blood vessel formation and endothelial biology (angiogenesis, endothelial cell proliferation, blood vessel maturation), supported by multicellular development and hypoxia response signals. While there are broader development terms (bone development, embryo implantation, oocyte maturation), the cluster\u2019s core theme appears to be vascular development and related embryonic processes.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:0001666","count":6},{"id":"GO:0019800","count":5},{"id":"GO:0001955","count":5},{"id":"GO:0060348","count":5}]},{"hash":"1462928935712283226","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000447","count":5},{"id":"GO:0000480","count":5},{"id":"GO:0000472","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0006351","count":4}]},{"hash":"1858156661437085665","title":"Unknown","description":"The top GO terms are very heterogeneous, spanning nervous-system\u2013related processes (visual perception, operant conditioning, prepulse inhibition), immune/inflammatory activity (eosinophil chemotaxis, chronic inflammatory response), secretory function (saliva secretion), vascular/connective tissue development, and even peptidoglycan catabolic process, with no clear, single shared function tying all proteins together. There is no cohesive theme or pathway apparent, so the label Unknown is appropriate.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":21},{"id":"GO:0035106","count":21},{"id":"GO:0046541","count":21},{"id":"GO:0009253","count":21},{"id":"GO:0014829","count":21}]},{"hash":"604876787871790334","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning inflammatory and immune processes, nervous system function (prepulse inhibition, operant conditioning), sensory perception (vision), secretion (saliva), tissue development, and bacterial cell wall remodeling. With no edges or coherent shared function tying these terms together, there is no clear common theme for the cluster.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":21},{"id":"GO:0035106","count":21},{"id":"GO:0046541","count":21},{"id":"GO:0009253","count":21},{"id":"GO:0014829","count":21}]},{"hash":"986428886222478674","title":"Developmental transcription and chromatin regulation","description":"The dominant terms point to DNA-templated transcription and multicellular development, with histone modifications and imprinting-related regulation suggesting epigenetic control of gene expression during development. Neuron projection development and spindle assembly hint at broader developmental and cell cycle roles, supporting a cohesive theme of developmental gene regulation and chromatin state.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0006349","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0051567","count":4}]},{"hash":"264687039358663295","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901998","count":2},{"id":"GO:0009395","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0008344","count":2},{"id":"GO:2001022","count":1}]},{"hash":"1987206413989881347","title":"Ubiquitin-Dependent Protein Degradation","description":"Based on the Top Terms, the cluster is dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, protein ubiquitination) and protein modification (poly-ADP-ribosylation), suggesting a core theme of protein turnover and post-translational modification. While there are other terms related to differentiation and sensory processes, they appear ancillary to the primary ubiquitin/turnover signal, and the ReCIPE re-additions support a cohesive functional group around protein degradation pathways.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0051260","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0050966","count":7},{"id":"GO:0045444","count":6}]},{"hash":"1411520885701784693","title":"Inflammatory xenobiotic stress response","description":"The cluster\u2019s enriched terms center on inflammatory signaling (interleukin-1\u2013mediated signaling, NF-kappaB-related regulation) and cellular response to xenobiotic stimulus, with supporting hints from peroxisome autophagy and stress responses. This suggests a theme of immune/inflammatory reaction coupled with detoxification or adaptation to xenobiotic stress, rather than a single tight molecular function, hence the label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0070498","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0051092","count":2}]},{"hash":"1819417158650983328","title":"Brain Synapse Development and Neurotransmitter Release","description":"The cluster shows strong representation of GO terms related to brain development, synaptic vesicle maturation, presynaptic dense core vesicle exocytosis, and neurotransmitter secretion, along with long-term synaptic potentiation, indicating a coherent theme of neuronal synapse formation and signaling; a few transcription-related terms are present but less central.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0043087","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0099525","count":3}]},{"hash":"1029183982352034650","title":"Immune signaling and actin remodeling","description":"The terms show strong enrichment for immune signaling (B cell receptor signaling, IL-2 production) and for cytoskeletal dynamics (actin filament organization, lamellipodium assembly, raft distribution), suggesting a cluster of proteins involved in immune cell activation coupled to actin-driven movement. Some terms are broader or cross-domain (neurotrophin signaling, uterus development), but the dominant theme appears to be immune signaling linked with cytoskeletal remodeling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0007015","count":4},{"id":"GO:0048011","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0006915","count":4}]},{"hash":"2112769776806993131","title":"Unknown","description":"Top GO terms are diverse, spanning necroptotic signaling, B cell apoptosis, cytokine production, transcription regulation, cytoskeletal organization, receptor trafficking, and metabolism, with no single dominant functional theme emerging for the 21 proteins.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901026","count":2},{"id":"GO:0072661","count":2},{"id":"GO:0051798","count":2},{"id":"GO:0001783","count":2},{"id":"GO:0032747","count":2}]},{"hash":"1592976188647823527","title":"Embryonic development and morphogenesis","description":"The terms lean strongly toward early development and tissue formation, including neural tube closure, somite and organ induction, pharyngeal system development, and morphogenesis of skeletal muscle and epithelia, with related guidance and regulation processes. This suggests a cohesive theme of embryogenesis and organ morphogenesis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":3},{"id":"GO:0001757","count":3},{"id":"GO:0060037","count":3},{"id":"GO:0045617","count":3},{"id":"GO:0031290","count":3}]},{"hash":"909356740103992918","title":"Actin Cytoskeleton Remodeling and Cell Migration","description":"The cluster is dominated by terms tied to actin dynamics and cell movement: positive regulation of GTPase activity, negative regulation of Arp2/3-mediated actin nucleation, podosome assembly, and cell migration. Calcium-dependent exocytosis and apoptotic processes appear as related signaling pathways that can intersect with cytoskeletal remodeling, while defense responses may reflect actin-associated immune roles. Overall, the core theme centers on actin remodeling driving motility and related signaling.","confidence":"High","size":20,"edges":10,"triangles":3,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0034316","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0035264","count":5},{"id":"GO:0050830","count":5}]},{"hash":"898778759407228565","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":182,"triangles":1024,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":20},{"id":"GO:1990120","count":19},{"id":"GO:0042255","count":19},{"id":"GO:0043629","count":19},{"id":"GO:0000467","count":19}]},{"hash":"1208814651793845521","title":"Vesicle trafficking and tight junction assembly","description":"The cluster centers on endomembrane transport (ER-to-Golgi, intralumenal vesicle formation), tight junction assembly, and cytoskeletal dynamics (actin branching, small GTPase signaling) with adhesion and signaling components (ephrin signaling, neuron development) suggesting a module that coordinates membrane trafficking with junction formation and cytoskeletal remodeling. These GO terms together support a cohesive theme of vesicle trafficking coupled to junctional and cytoskeletal processes.","confidence":"Medium","size":20,"edges":11,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070830","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0048013","count":4},{"id":"GO:0070676","count":3},{"id":"GO:0048666","count":3}]},{"hash":"410471877076461630","title":"Growth signaling and ER-Golgi trafficking","description":"The cluster shows a convergence of growth-related processes: TORC1 signaling and GTPase regulation point to nutrient-sensing growth control, while multiple terms describe ER-Golgi vesicle transport and retrograde trafficking, all coupled with cell proliferation and transcription. This suggests a cohesive module coordinating growth signaling with intracellular trafficking to support cell division.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0051028","count":4},{"id":"GO:0038202","count":4},{"id":"GO:0006890","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1232365577254691311","title":"Neural Development and Signaling Regulation","description":"The top GO terms point to neural development themes, with brain development, retina development, and neural tube closure indicating a focus on neural/eye formation. Supporting signaling context comes from positive regulation of GTPase activity and phosphatidylinositol dephosphorylation, while some histone H4 acetylation terms hint at epigenetic regulation. The presence of unrelated terms like phagocytosis and the lack of interactions (Edges: 0) suggest a broad, loosely connected set rather than a tightly cohesive pathway, hence a cautious, development-centric label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050766","count":2},{"id":"GO:0060770","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1107648589171589076","title":"Brain development and genome maintenance","description":"This cluster combines neural development terms (cerebral cortex development, brain development, cell differentiation) with chromatin dynamics and DNA repair processes (nucleosome disassembly, chromatin remodeling, DNA replication, regulation of HR repair, translesion synthesis). The co-occurrence suggests proteins involved in neurodevelopment that also coordinate genome stability and chromatin state. ","confidence":"Medium","size":20,"edges":18,"triangles":3,"max_degree":6,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0030154","count":4},{"id":"GO:0006260","count":3},{"id":"GO:0043518","count":3},{"id":"GO:0006337","count":3},{"id":"GO:0043044","count":3}]},{"hash":"668983778847018513","title":"Neural signaling and vesicle trafficking","description":"This cluster centers on neuronal signaling and development (Roundabout pathway, nerve branching morphogenesis, Rap signaling) together with intracellular transport processes (ER-to-Golgi and endosome-to-Golgi retrograde transport) and adhesion-related remodeling. While immune-related terms appear, the dominant theme ties neuronal morphogenesis to vesicle trafficking and adhesion dynamics, suggesting a coordinated neural signaling/trafficking module.","confidence":"Medium","size":20,"edges":42,"triangles":22,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:1900026","count":7},{"id":"GO:1902499","count":7},{"id":"GO:1902953","count":6},{"id":"GO:0035385","count":6},{"id":"GO:1905279","count":6}]},{"hash":"562392482203378260","title":"Cardiac actin cytoskeleton and myofibril assembly","description":"The cluster's top GO terms center on actin cytoskeleton organization and cardiac muscle development (cardiac myofibril assembly, heart development, actin nucleation, actin filament network formation, regulation of cell shape, and regulation of Rho signaling), indicating a module focused on actin-driven remodeling and assembly of the cardiac cytoskeleton and myofibrils. While a couple terms touch broader cytoskeletal processes (centrosome localization, spermatid differentiation), the dominant signal is heart-specific cytoskeletal organization.","confidence":"High","size":20,"edges":19,"triangles":0,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0055003","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0008360","count":3},{"id":"GO:0090140","count":3}]},{"hash":"92395302440944973","title":"ER Stress and Cell Cycle Machinery","description":"The top GO terms point to a combination of endoplasmic reticulum stress response and various aspects of cell cycle and division (mitosis, division, septum assembly, polarity maintenance), with additional support from ribosomal export and protein interactions. This suggests the cluster represents proteins involved in proliferative/division processes that are modulated by ER stress, hence the label focusing on both themes.","confidence":"Medium","size":20,"edges":84,"triangles":201,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034976","count":10},{"id":"GO:1903206","count":10},{"id":"GO:0007049","count":8},{"id":"GO:0030011","count":8},{"id":"GO:0051301","count":8}]},{"hash":"1717574716100072048","title":"B cell activation and antigen presentation","description":"Top terms indicate B cell receptor signaling and activation, plus antigen processing and presentation via MHC I and II, along with phagocytosis and complement-driven innate responses. This cluster appears to capture B cell\u2013driven adaptive immunity with concurrent antigen presentation and some innate immune activities.","confidence":"High","size":20,"edges":64,"triangles":88,"max_degree":18,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":15},{"id":"GO:0006911","count":15},{"id":"GO:0006910","count":14},{"id":"GO:0006958","count":14},{"id":"GO:0050871","count":14}]},{"hash":"2137564253429303122","title":"Immune cell chemotaxis and MAPK/PI3K signaling","description":"The cluster is dominated by GO terms related to immune cell movement (neutrophil and mast cell chemotaxis) and signaling cascades such as ERK/MAPK, PI3K activity, calcium release, and STAT phosphorylation, with PDGF-related stimulus responses, suggesting a cohesive module centered on leukocyte migration and its signaling networks.","confidence":"Medium","size":20,"edges":131,"triangles":546,"max_degree":17,"top_function":"cytoskeleton organization","top_go_terms":[{"id":"GO:0070374","count":18},{"id":"GO:0043552","count":18},{"id":"GO:2000502","count":17},{"id":"GO:0014911","count":17},{"id":"GO:0035690","count":17}]},{"hash":"883858233100875809","title":"GTPase-driven cytoskeleton remodeling and mechanotransduction","description":"This cluster centers on GTPase signaling (activation and positive regulation), actin cytoskeleton dynamics (filopodium assembly, cell spreading), and responses to mechanical and immune stimuli, all of which point to coordinated cytoskeletal remodeling and mechanotransduction in developmental and signaling contexts (including ERK pathways and inflammatory cues). The combination of developmental, cytoskeletal, and signaling terms supports a cohesive theme around cytoskeleton-driven signal transduction rather than disparate processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0090630","count":3},{"id":"GO:1900026","count":3}]},{"hash":"706780926745328291","title":"Neuronal vesicle trafficking and CNS development","description":"The top GO terms point to neuronal processes: synaptic vesicle budding, ER-to-Golgi and Golgi-to-transport pathways, and lysosomal membrane organization, along with formation of radial glial scaffolds and sensory perception of sound, all suggesting roles in neural vesicle trafficking and CNS architecture. Some terms like positive regulation of GTPase activity and cell cycle appear more general, but the cluster largely aligns with neuronal transport and CNS development themes. Confidence: Medium","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0097284","count":2},{"id":"GO:1902307","count":2}]},{"hash":"1626075931405095743","title":"Proteasome-Dependent Oocyte Meiosis Regulation","description":"The cluster is dominated by ubiquitin-proteasome\u2013related processes (ubiquitin-dependent protein catabolic processes, SCF-dependent degradation, ERAD) and meiosis/oocyte maturation signals (spindle assembly in female meiosis I, oocyte maturation), with supporting themes of microtubule dynamics and cell-cycle transcriptional regulation. This points to a cohesive role for regulated proteolysis in driving meiosis and oocyte development, aided by circadian cues and proliferation control.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0042752","count":9},{"id":"GO:0030433","count":7},{"id":"GO:0031146","count":7},{"id":"GO:0001556","count":6}]},{"hash":"637320103734669053","title":"Rho GTPase\u2013driven filopodia and adhesion remodeling","description":"This cluster centers on actin cytoskeleton remodeling and mechanotransduction, highlighted by filopodium assembly, adhesion-dependent cell spreading, and regulation of Rho GTPase signaling. The inclusion of synaptic transmission (GABAergic) and ubiquitination hints at neuronal cytoskeletal and synapse-associated remodeling, while mitochondrial fission may relate to actin-mediated organelle dynamics.","confidence":"Medium","size":20,"edges":28,"triangles":1,"max_degree":12,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":12},{"id":"GO:0046847","count":12},{"id":"GO:0051489","count":11},{"id":"GO:0051932","count":11},{"id":"GO:0007264","count":11}]},{"hash":"2058520953569318736","title":"MAPK signaling and cell cycle regulation","description":"The top terms center on negative regulation of T cell receptor signaling and ERK/MAPK cascades, including negative regulation of MAPK activity, along with regulation of the cell cycle and CDK activity. Supporting terms touch on kinetochore localization, focal adhesion dynamics, and macroautophagy, which are all connected to cell cycle control and cellular remodeling during division. Together, they point to a cohesive theme of controlling signaling pathways in concert with cell cycle progression.","confidence":"High","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":18},{"id":"GO:0070373","count":18},{"id":"GO:0000200","count":18},{"id":"GO:0034501","count":16},{"id":"GO:0045736","count":16}]},{"hash":"1822294258038459742","title":"Developmental ECM remodeling with immune signaling","description":"This cluster centers on extracellular matrix and cartilage-related processes (cartilage condensation, hyaluronan metabolism) plus cell movement and neural development (cell migration, branchiomotor neuron axon guidance), with additional immune and vascular signaling (complement activation, T cell activation, vasoconstriction, platelet activation). The GO terms together suggest a broad theme of development involving ECM remodeling and immune-vascular interactions, rather than a single precise function, hence the chosen label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0001502","count":7},{"id":"GO:0001867","count":7},{"id":"GO:0045907","count":7},{"id":"GO:0016477","count":6},{"id":"GO:0007205","count":6}]},{"hash":"863209159257749836","title":"Immune activation and cell adhesion cluster","description":"This cluster centers on immune signaling terms (IL-2 production, NF-kappaB activity) and cell\u2013cell adhesion (homophilic/heterophilic adhesion), with supporting terms for inflammation, coagulation, and basement membrane aspects. The presence of synapse assembly and sodium channel clustering hints at neural signaling components, but the dominant themes are immune activation and cell adhesion, making an immune-adhesion label appropriate.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071639","count":4},{"id":"GO:0032836","count":4},{"id":"GO:0007156","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0007157","count":4}]},{"hash":"539945261026593192","title":"Neural Signaling and Sensory Function","description":"The top GO terms are dominated by neural/sensory roles\u2014locomotory behavior, myelination, neuromuscular balance, and rhodopsin biosynthesis\u2014along with calcium homeostasis, all pointing to nervous system signaling and sensory processing. A few terms related to extracellular matrix remodeling and reproduction appear as outliers, but they do not override the central neural theme.","confidence":"Medium","size":20,"edges":38,"triangles":27,"max_degree":13,"top_function":"lysosome organization","top_go_terms":[{"id":"GO:0007626","count":5},{"id":"GO:0042552","count":4},{"id":"GO:0008049","count":4},{"id":"GO:0042340","count":4},{"id":"GO:0007341","count":4}]},{"hash":"2210021919721741682","title":"Adaptive immune cell signaling and development","description":"The dominant GO terms point to T and B cell activation and development (positive regulation of alpha-beta T cell proliferation, gamma-delta T cell differentiation, B cell receptor signaling, beta selection). The presence of terms related to cell cycle regulation and protein processing suggests involvement in signaling networks coordinating immune maturation and activation, with additional terms reflecting broader cellular processes (calcium signaling, matrix remodeling). Overall, the cluster seems to reflect adaptive immune signaling and development.","confidence":"Medium","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":20},{"id":"GO:0010765","count":20},{"id":"GO:0010571","count":20},{"id":"GO:0010954","count":20},{"id":"GO:0045588","count":20}]},{"hash":"835312305922709902","title":"Placental Development and Trophoblast Migration","description":"The top GO terms cluster around placental development (maternal placenta development, labyrinthine layer development, glycogen cell differentiation in embryonic placenta) and related cellular movement and signaling (cell migration, positive regulation of fibroblast migration, PI3K/AKT signaling, GPCR desensitization). An immune-modulatory term (interleukin-4 production) fits with placental immune dynamics. Overall, these terms point to a cohesive role in placental development and trophoblast/migratory signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010765","count":12},{"id":"GO:0060716","count":12},{"id":"GO:0002029","count":12},{"id":"GO:0018107","count":12},{"id":"GO:0010763","count":12}]},{"hash":"1171445761261632427","title":"Embryonic organogenesis and transcriptional regulation","description":"These proteins cluster around embryonic organ development and tissue morphogenesis across multiple organs (endocrine pancreas, digestive tract, ureteric bud branching, neural crest migration, lens proliferation, atrial septum formation). They also center on transcriptional control and chromatin remodeling (RNA polymerase II activity, DNA-templated transcription, chromatin remodeling, Wnt signaling modulation). The combination suggests a module of developmental regulators coordinating lineage specification and morphogenesis via transcriptional regulation.","confidence":"Medium","size":20,"edges":96,"triangles":245,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0031018","count":13},{"id":"GO:0048557","count":12},{"id":"GO:0090190","count":12},{"id":"GO:0001755","count":12}]},{"hash":"1536456745747345020","title":"Photoreceptor signaling and light-responsive transcription","description":"The cluster is dominated by terms connecting light sensing (red light signaling, chromophore/tetrapyrrole linkage) with transcriptional regulation (DNA-templated transcription). This points to photoreceptor-driven control of gene expression as the core theme, with a few outlier/obsolete terms likely representing annotation noise. ","confidence":"Medium","size":20,"edges":186,"triangles":1072,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1904017","count":20},{"id":"GO:0010161","count":20},{"id":"GO:0061419","count":20},{"id":"GO:0060713","count":20},{"id":"GO:0018298","count":20}]},{"hash":"1500693260389292903","title":"T cell development and adaptive immune signaling","description":"These GO terms cluster around T cell proliferation regulation (alpha-beta and gamma-delta), T cell differentiation (beta selection), B cell receptor signaling, interleukin-12 response, and general immune signaling, with additional associations to extracellular matrix remodeling and angiogenesis. Together they point to a module of adaptive immune activation and lymphocyte signaling, with some angiogenesis-related context. ","confidence":"High","size":20,"edges":18,"triangles":1,"max_degree":16,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0001525","count":20},{"id":"GO:0046641","count":19},{"id":"GO:0010954","count":19},{"id":"GO:0045588","count":19},{"id":"GO:0050853","count":19}]},{"hash":"965867625385600934","title":"Mitochondrial Metabolite and Ion Transporters","description":"The top GO terms are dominated by various mitochondrial transmembrane transport activities (deoxynucleotides, NAD, Mn, thiamine pyrophosphate, ATP, ornithine, iron), indicating these proteins likely function as mitochondrial transporters. An outlier term (female pregnancy) appears unrelated and may reflect annotation noise. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":19},{"id":"GO:0060546","count":19},{"id":"GO:0035352","count":19},{"id":"GO:0006828","count":19},{"id":"GO:0030974","count":19}]},{"hash":"1011251398484380904","title":"Ubiquitination-Driven Protein Degradation and TNF Signaling","description":"This cluster is dominated by GO terms related to ubiquitin-dependent protein catabolic processes, protein ubiquitination (including autoubiquitination and K6-linked ubiquitination), and components of TNF-mediated signaling and NF-\u03baB pathways. The combination suggests a cohesive theme around ubiquitin-proteasome regulation and inflammatory signaling, with some chromatin turnover aspects reflected by histone-related terms. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0016567","count":11},{"id":"GO:1903265","count":10},{"id":"GO:0036205","count":10},{"id":"GO:0085020","count":10}]},{"hash":"2111643114706596163","title":"Unknown","description":"The top GO terms are highly diverse, spanning nervous system processes (myelination, associative learning), immune/migration (T cell migration), reproduction (single fertilization), and bacterial biosynthesis (lipopolysaccharide, O antigen, rhamnose) with antibiotic response and lung development. There is no coherent common function linking the 20 proteins; the mix suggests an Unknown cluster rather than a single biological theme.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":3},{"id":"GO:2000406","count":3},{"id":"GO:0008306","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0009244","count":2}]},{"hash":"178544853441561475","title":"Oxidative Detoxification and Stress Response","description":"This cluster is dominated by GO terms for detoxification of reactive species (cellular oxidant detoxification, glutathione metabolism), and responses to starvation and toxic substances (response to starvation, response to toxic substance, toxin catabolic process), along with DNA repair (nucleotide-excision repair). These together indicate a core theme of cellular defense and metabolic adjustment under oxidative and chemical stress. A few calcium-signaling terms appear, but they are likely secondary to the primary detox/stress programs. ","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":20},{"id":"GO:0042594","count":19},{"id":"GO:0006749","count":19},{"id":"GO:0040008","count":19},{"id":"GO:0009636","count":19}]},{"hash":"495666173890333796","title":"Transcriptional Repression and Developmental/Immune-Vascular Regulation","description":"The dominant signal is negative regulation of transcription by RNA polymerase II (13 proteins), suggesting a core transcriptional repression function. Additional enrichment in developmental terms (midbrain and exocrine pancreas development) and immune-vascular contexts (response to yeast; neutrophil-mediated killing of fungus; blood coagulation and endothelial barrier regulation) implies these proteins participate in broader regulatory roles linking transcription control to developmental and immune-vascular processes. Thus the label reflects a transcriptional repression theme with downstream developmental and immune-vascular regulation, rather than a single cohesive pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0030901","count":11},{"id":"GO:0001878","count":10},{"id":"GO:0070947","count":10},{"id":"GO:0031017","count":10}]},{"hash":"2081186118467722197","title":"Unknown","description":"The top GO terms are highly diverse, including transcriptional regulation, complement activation, Wnt signaling, various developmental processes, inflammation, biomineral/tissue development, coagulation, and visual perception. This lack of a cohesive, single-function theme suggests the proteins in this cluster do not share a common biological role, making an interpretable, specific label difficult.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0001867","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0016055","count":6},{"id":"GO:0030901","count":5}]},{"hash":"981007058288907141","title":"Neural lineage specification and organogenesis","description":"The top terms center on neural differentiation (cerebral cortex GABAergic interneuron differentiation, spinal cord motor neuron fate specification, subpallium neuron fate commitment, oligodendrocyte fate) while also spanning other organogenesis processes (bronchiole development, endocrine pancreas development, heart valve formation). This suggests a cluster of genes involved in developmental programs across tissues, with a prominent neural differentiation theme.","confidence":"Medium","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060435","count":20},{"id":"GO:0006366","count":20},{"id":"GO:0031018","count":20},{"id":"GO:0021892","count":20},{"id":"GO:0021520","count":20}]},{"hash":"752660410663738722","title":"Neuronal development and synapse assembly","description":"The Top Terms show strong enrichment for nervous system development, presynaptic active zone assembly, and postsynaptic density (PSD95) clustering, pointing to roles in neuronal maturation and synaptic organization. While some terms touch on adhesion and planar polarity that can occur in other tissues, the dominant neural-specific signals support a label centered on neural development and synapse architecture.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003273","count":20},{"id":"GO:0070445","count":20},{"id":"GO:0090675","count":20},{"id":"GO:1904071","count":20},{"id":"GO:0072006","count":20}]},{"hash":"647932889112606858","title":"Developmental signaling with innate immunity","description":"This cluster shows enrichment for both developmental processes (heart and nervous system development, myoblast fusion) and innate immune responses, along with signaling pathway terms (ERK cascade, NF-kappaB). The proteins likely participate in coordinated signaling that links tissue development with immune signaling across muscle, heart, and nervous system contexts, justifying a label around developmental signaling integrated with innate immunity.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0007520","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0050830","count":7}]},{"hash":"1693328557511100083","title":"ECM-Driven Angiogenesis and Morphogenesis","description":"The GO terms emphasize collagen fibril organization, integrin signaling, BMP and VEGF pathways, and endothelial tube morphogenesis, pointing to a cohesive theme of ECM remodeling guiding vascular development and tissue morphogenesis. Related terms for chondrocyte differentiation, melanocyte differentiation, and ovulation also reflect developmental morphogenesis tied to ECM and signaling cues.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:1901509","count":6},{"id":"GO:0030199","count":6},{"id":"GO:2001113","count":6},{"id":"GO:0032331","count":6}]},{"hash":"2045822097972140755","title":"Tooth enamel formation and biomineralization","description":"The dominant GO terms center on enamel formation (amelogenesis), biomineral tissue development, collagen remodeling, and Wnt signaling, all hallmark features of mineralized tissue formation during development. The presence of post-embryonic development and multicellular growth further supports a developmental tissue-building theme rather than purely metabolic signals. While Factor XII activation and glucose response appear, they are secondary to the enamel/mineralization signal.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030194","count":6},{"id":"GO:0035264","count":6},{"id":"GO:0071333","count":6},{"id":"GO:0009791","count":6},{"id":"GO:0031214","count":5}]},{"hash":"1920298030740328944","title":"NF-\u03baB\u2013driven inflammation and vascular regulation","description":"The top terms cluster around canonical NF-\u03baB signaling, including its positive regulation, together with vascular-related processes such as negative regulation of angiogenesis and endothelial cell survival. Additional terms touch on placental morphogenesis and membrane repair, suggesting a role in coordinating inflammatory signaling with endothelial/vascular homeostasis. Overall, this cluster seems to reflect NF-\u03baB\u2013mediated immune responses linked to vascular regulation rather than a single narrowly defined function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0007249","count":3},{"id":"GO:2000352","count":3},{"id":"GO:0045869","count":2}]},{"hash":"728114168095807829","title":"ER-Golgi Vesicle Transport and Recycling","description":"The top terms point to intracellular vesicle trafficking, especially ER-to-Golgi transport, recycling endosome to Golgi, and regulation of vesicle fusion, supporting a cohesive theme around vesicle transport within the secretory pathway. A few terms related to cell cycle or virus interaction appear, but they do not override the main trafficking signal. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:1902953","count":2},{"id":"GO:0031578","count":2},{"id":"GO:0031338","count":2},{"id":"GO:0046726","count":2}]},{"hash":"782137312884357763","title":"B cell signaling and cytoskeletal remodeling","description":"This cluster is dominated by GO terms related to B cell receptor signaling and adaptive immune response, along with actin cytoskeleton organization and regulation of Rho/GTPase signaling and tyrosine phosphorylation. The common thread is signaling events in immune cells that drive cytoskeletal rearrangements, fitting a label focused on immune signaling with cytoskeletal dynamics.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0010765","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0050731","count":3}]},{"hash":"2047775094799379758","title":"Synaptic vesicle trafficking and receptor localization","description":"This cluster centers on synaptic function and vesicle trafficking, including positive regulation of excitatory postsynaptic potential, long-term potentiation, and exocytic insertion of neurotransmitter receptors at the postsynaptic membrane. It also covers ER-Golgi andGolgi-to-vacuole transport and synaptic vesicle docking, consistent with vesicle trafficking and receptor localization at synapses; a few terms reflect generic vesicle exocytosis mechanisms in other cell types, but the dominant theme is synaptic organization and function.","confidence":"High","size":20,"edges":50,"triangles":43,"max_degree":15,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:2000463","count":9},{"id":"GO:0060291","count":9},{"id":"GO:0006888","count":9},{"id":"GO:0098967","count":8},{"id":"GO:0007340","count":8}]},{"hash":"881149106285393695","title":"Neural GPCR signaling and energy metabolism","description":"The top GO terms cluster around GPCR-mediated adenylate cyclase activation, neuropeptide signaling, sensory perception (pain), visual learning, temperature response/thermogenesis, and even blood pressure regulation, all pointing to neural signaling intertwined with metabolic and energetic processes (electron transport chain). This suggests a coherent theme of neural signaling coordinating energy metabolism and physiological regulation.","confidence":"Medium","size":20,"edges":6,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":11},{"id":"GO:0022900","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0007190","count":11}]},{"hash":"1793073238977743704","title":"Dopaminergic Neuropeptide Signaling","description":"This cluster centers on neuropeptide and dopamine receptor\u2013mediated signaling, with terms for operant conditioning and prepulse inhibition indicating neural/behavioral functions. Additional terms reflect autonomic/neuroendocrine outputs (saliva secretion, vascular smooth muscle contraction) and prostaglandin responses, suggesting a cohesive neural signaling module with dopaminergic modulation. A few outliers (peptidoglycan catabolic process) may be annotation noise.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007218","count":12},{"id":"GO:0008283","count":12},{"id":"GO:0007191","count":12},{"id":"GO:0071380","count":12},{"id":"GO:0002882","count":11}]},{"hash":"1074470432784135805","title":"Calcium-Driven Inflammatory Signaling","description":"The prominent GO terms point to calcium release into the cytosol, monocyte chemotaxis, and various inflammatory and xenobiotic responses, suggesting a theme where calcium signaling modulates immune activation and inflammatory processes (including LPS response). Some terms (saliva secretion, operant conditioning, peptidoglycan catabolism, vascular smooth muscle contraction) are peripheral or context-specific, but the core pattern centers on calcium-mediated inflammatory signaling and immune cell behavior.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":15},{"id":"GO:0090026","count":15},{"id":"GO:0008284","count":15},{"id":"GO:0042493","count":15},{"id":"GO:0032496","count":15}]},{"hash":"769690829328763267","title":"Embryonic Morphogenesis and Insulin Signaling Regulation","description":"This cluster is enriched for developmental processes such as embryonic digit morphogenesis, skeletal muscle differentiation, and neural patterning (midbrain-hindbrain boundary development, maternal axis specification). It also includes signaling modulation terms (negative regulation of PI3K/AKT and insulin receptor signaling) and transcription (DNA-templated transcription), suggesting a group of proteins that coordinate development with regulation of signaling and transcription.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042733","count":3},{"id":"GO:0051898","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0007084","count":2}]},{"hash":"2226098260858637302","title":"Calcium signaling and vascular inflammation","description":"The top GO terms cluster around calcium release into the cytosol, vascular smooth muscle contraction and vasoconstriction, eosinophil chemotaxis, and inflammatory regulation. This points to a calcium-dependent signaling module coordinating immune cell recruitment and vascular tone, rather than a single enzymatic pathway, with a few outlier terms present but not redefining the core theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":19},{"id":"GO:0035625","count":18},{"id":"GO:0002882","count":17},{"id":"GO:0035106","count":17},{"id":"GO:0046541","count":17}]},{"hash":"275717053563148093","title":"Transmembrane transporters of ions and small molecules","description":"This cluster is dominated by GO terms for transporting ions and small molecules across membranes (phosphate, potassium, nitrate, sialic acid, xenobiotics, etc.) and vesicular neurotransmitter loading, indicating a transporter-focused group. A single outlier (protein catabolic process) is less aligned, but overall theme is membrane transport.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044257","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0098700","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0071805","count":2}]},{"hash":"1462290265563779417","title":"Neural development and synaptic signaling","description":"The terms point to development and neural processes: gastrulation and pattern formation indicate developmental roles, while regulation of synaptic plasticity and ephrin signaling point to neural connectivity and signaling. Some terms also touch on cell-cycle/ubiquitin turnover, suggesting active cellular remodeling in development. Overall, the cluster seems driven by developmental and neural signaling themes rather than a single focused molecular function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007099","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0035264","count":3},{"id":"GO:1900383","count":2},{"id":"GO:1901187","count":2}]},{"hash":"592514873483105359","title":"Developmental signaling and cytoskeletal regulation","description":"This cluster features GO terms spanning developmental processes (bone and heart development) as well as cytoskeletal dynamics (actin crosslinking, stress fiber regulation), signaling (protein phosphorylation, GTPase activity), and regulatory processes like ubiquitination. The mix suggests proteins involved in broadly coordinating signaling and cytoskeletal remodeling during development, rather than a single isolated function. The lack of strong, cohesive connectivity in the top terms keeps the interpretation at a general regulatory level rather than a specific pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0051497","count":3},{"id":"GO:0002250","count":3}]},{"hash":"2163074529891183820","title":"Developmental chromatin remodeling and transcription control","description":"The cluster centers on transcription initiation (RNA Pol II promoter) and chromatin-related processes (nucleosome mobilization, histone modification), tied to developmental patterning terms (cell morphogenesis, segment specification) and signaling pathways (insulin signaling, Wnt PCP). This suggests a cohesive theme of gene-expression regulation via chromatin state during development, despite some obsolete GO terms. ","confidence":"Medium","size":19,"edges":19,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006367","count":3},{"id":"GO:0042766","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0000902","count":3},{"id":"GO:1901407","count":2}]},{"hash":"1998629328117262182","title":"Autonomic Neurovascular Signaling and Secretory Responses","description":"This cluster centers on neuromodulatory GPCR-cAMP signaling that regulates vascular tone, blood pressure, and secretory outputs (e.g., saliva), as well as neural processes like prepulse inhibition and immune cell trafficking (eosinophil chemotaxis). While a few terms (e.g., peptidoglycan catabolism) are unrelated, the dominant theme ties neural control to autonomic cardiovascular and secretory functions, with an immunomodulatory component.","confidence":"Medium","size":19,"edges":151,"triangles":677,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0045777","count":13},{"id":"GO:0002882","count":12},{"id":"GO:0035106","count":12}]},{"hash":"1016863683539603989","title":"mRNA processing and translation control","description":"This cluster is enriched for terms related to mRNA splicing (spliceosome, splice site recognition), poly(A) tail regulation, and translation initiation/reinitiation (including IRES-dependent and viral contexts), indicating a cohesive group involved in post-transcriptional gene expression control.","confidence":"High","size":19,"edges":124,"triangles":451,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1903586","count":14},{"id":"GO:1902625","count":14},{"id":"GO:0060211","count":14},{"id":"GO:0002188","count":14},{"id":"GO:0048026","count":14}]},{"hash":"285820959047390082","title":"Nuclear RNA Splicing and Processing","description":"Dominant terms relate to nuclear RNA processing and spliceosome assembly (mRNA splicing, snRNP assembly), plus maturation steps for tRNA, rRNA, and histone mRNA. This pattern strongly indicates proteins functioning in RNA processing and splicing within the nucleus.","confidence":"High","size":19,"edges":169,"triangles":936,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":19},{"id":"GO:0051170","count":16},{"id":"GO:0000290","count":16},{"id":"GO:0008033","count":16},{"id":"GO:0030490","count":16}]},{"hash":"1107848715164522882","title":"Ribosome biogenesis and translation regulation","description":"The top GO terms cluster around ribosome production and function: ribosomal small subunit assembly, maturation of SSU rRNA, and translation. Additional terms such as mRNA capping and methylation hint at broader RNA processing linked to protein synthesis; deubiquitination and apoptotic regulation may reflect quality control connected to translation. Overall, the core theme is ribosome biogenesis coupled with translation control.","confidence":"Medium","size":19,"edges":16,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042981","count":2},{"id":"GO:0016579","count":2},{"id":"GO:0043392","count":2},{"id":"GO:0006370","count":2}]},{"hash":"1120071774913877600","title":"Synapse Organization and Plasticity","description":"The top GO terms cluster strongly around neuronal synapses\u2014synapse organization, dendritic spine morphogenesis, long-term potentiation/depression, excitatory postsynaptic potential regulation, and protein localization to the synapse\u2014pointing to a group of proteins involved in synapse formation and activity modulation. An outlier term about myoblast fusion may reflect incidental annotation noise rather than a shared function. ","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050808","count":11},{"id":"GO:0060997","count":10},{"id":"GO:0060291","count":9},{"id":"GO:0008285","count":9},{"id":"GO:2000463","count":9}]},{"hash":"1161130470719317016","title":"Transcription and Translation Machinery with Ciliogenesis","description":"This cluster features strong transcription-related terms (elongation by RNA Pol II, DNA-templated transcription) and translation-related terms (cytoplasmic translation, translation initiation), plus cilium assembly. The combination points to a core of gene-expression machinery with ciliogenesis involvement. Some terms are broader or context-specific (protein degradation, immune response) but do not override the main theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006368","count":3},{"id":"GO:0032968","count":3},{"id":"GO:0031146","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060271","count":2}]},{"hash":"2200238181240456028","title":"Mitochondrial Metabolite Transport","description":"The top GO terms are centered on transport across the mitochondrial membrane for a variety of metabolites and ions (deoxynucleotides, NAD, thiamine pyrophosphate, manganese, iron, ATP, ornithine, etc.), suggesting a cohesive group of mitochondrial transport proteins. Some unrelated terms (necroptotic regulation, pregnancy) may reflect annotation noise, but the prevailing pattern points to mitochondrial metabolite/ion transport.","confidence":"High","size":19,"edges":111,"triangles":273,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":14},{"id":"GO:0060546","count":14},{"id":"GO:0035352","count":14},{"id":"GO:0006828","count":14},{"id":"GO:0030974","count":14}]},{"hash":"1922673344218600620","title":"Negative regulation of development and differentiation","description":"Many GO terms here describe suppression of differentiation across multiple lineages (osteoblast, astrocyte, pro-B cell, paraxial mesoderm) and developmental morphogenesis (hindbrain), plus broader regulatory roles in transcription and signaling. This suggests the cluster centers on inhibitors of developmental differentiation and related regulatory processes.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060766","count":18},{"id":"GO:0045668","count":18},{"id":"GO:2001038","count":18},{"id":"GO:0048712","count":18},{"id":"GO:2000820","count":17}]},{"hash":"2006858090746673247","title":"Vertebrate Embryonic Development and Morphogenesis","description":"Top GO terms indicate neural and cardiac morphogenesis (floor plate development, hindbrain morphogenesis, endocardial cushion EMT) and lineage differentiation (amacrine cell differentiation), with a pervasive link to transcription by RNA polymerase II. Together, these suggest a cluster of proteins coordinating vertebrate embryogenesis through transcriptional regulation and tissue morphogenesis.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":18},{"id":"GO:0033504","count":14},{"id":"GO:0035881","count":14},{"id":"GO:0001756","count":14},{"id":"GO:0060426","count":14}]},{"hash":"468971323784315927","title":"Meiosis and Oocyte Development","description":"The cluster\u2019s top GO terms converge on meiotic processes and oogenesis, including homologous chromosome pairing at meiosis, oocyte maturation, ovarian follicle development, and meiotic recombination with associated DNA repair. Related developmental terms such as blastocyst growth and anterior/posterior axis polarity suggest downstream consequences of meiotic programs, while response-to-DNA-damage terms (X-ray, toxic substances) align with meiotic double-strand break repair. Taken together, these proteins likely function in meiotic progression and oocyte development.","confidence":"High","size":19,"edges":118,"triangles":443,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009636","count":8},{"id":"GO:0001832","count":7},{"id":"GO:0007129","count":7},{"id":"GO:0001556","count":7},{"id":"GO:1990918","count":7}]},{"hash":"19225399098389899","title":"Hair Keratinization and Hair Cycle","description":"The cluster\u2019s top GO terms are keratinization and hair cycle, indicating involvement in hair follicle biology and keratin protein networks; proteins are likely structural keratins and related factors tied to hair formation and cycling.","confidence":"High","size":19,"edges":143,"triangles":610,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":19},{"id":"GO:0042633","count":19}]},{"hash":"800190868776234779","title":"RNA Splicing by Spliceosome","description":"Most top GO terms point to RNA splicing and spliceosome-mediated processing (cis splicing, RNA splicing, regulation of alternative splicing via spliceosome, etc.), suggesting these proteins function as spliceosome components or splicing factors. A few terms about lipopolysaccharide response and cellular differentiation appear less connected and may reflect broader regulatory links or annotation noise. Overall, the cluster is best described as RNA splicing machinery.","confidence":"High","size":19,"edges":97,"triangles":240,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0045292","count":4},{"id":"GO:0008380","count":4},{"id":"GO:0000381","count":4},{"id":"GO:0000380","count":4}]},{"hash":"719344670298813294","title":"Neural development and synapse formation","description":"This cluster is dominated by GO terms related to neural development and synaptic connectivity\u2014positive regulation of synapse assembly, axonal fasciculation, CNS development, neuron differentiation, and neuron projection extension\u2014indicating a cohesive theme of nervous system development, despite one immune-related term that may be incidental.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":8},{"id":"GO:0006958","count":8},{"id":"GO:0001501","count":8},{"id":"GO:0007413","count":8},{"id":"GO:0007417","count":8}]},{"hash":"1120386806466058689","title":"B cell receptor and integrin signaling","description":"These GO terms cluster around immune signaling mediated by B cells and cell-matrix interactions. The top terms include integrin-mediated signaling and regulation of B cell receptor signaling, along with follicular B cell differentiation, indicating B cell\u2013specific activation pathways. Additional terms such as regulation of phagocytosis, Rho and Ras pathway modulation, IP3 biosynthesis, and collagen-activated tyrosine kinase receptor signaling reflect cytoskeletal dynamics and receptor cross-talk during immune cell migration and activation. Overall, the cluster centers on B cell signaling integrated with integrin- and matrix-related signaling.","confidence":"High","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007229","count":14},{"id":"GO:0050764","count":14},{"id":"GO:0050861","count":14},{"id":"GO:0035023","count":14},{"id":"GO:0038028","count":14}]},{"hash":"2174997311476524775","title":"T Cell Activation and Cytotoxic Response","description":"The proteins cluster around immune signaling and cytotoxic functions: positive regulation of IL-2 production, susceptibility to T cell\u2013mediated cytotoxicity, and regulation of CTL degranulation and CD8+ T cell apoptosis, plus cell adhesion and actin cytoskeleton remodeling at immune synapses. Some GO terms relate to host-pathogen interactions, but the dominant theme is T cell activation, cytotoxic effector readiness, and immune cell interactions.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900042","count":4},{"id":"GO:0060370","count":4},{"id":"GO:0043318","count":4},{"id":"GO:1905404","count":4},{"id":"GO:0046718","count":4}]},{"hash":"249913923444056415","title":"Th1 immune signaling and T cell differentiation","description":"Based on GO terms such as positive regulation of type II interferon production, cellular response to xenobiotic stimulus, and, notably, the T-helper 1 immune response and positive regulation of T cell differentiation, the cluster appears to group proteins involved in Th1-type immune activation and T cell maturation, with supporting signals through JNK, PI3K/AKT, and STAT pathways. Some terms are ancillary or context-specific but do not override the core immune signaling theme.","confidence":"Medium","size":19,"edges":67,"triangles":75,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0032729","count":4},{"id":"GO:0035690","count":3},{"id":"GO:0042088","count":3},{"id":"GO:0000060","count":3},{"id":"GO:0071260","count":3}]},{"hash":"399255228895480763","title":"Transcription regulation and chromatin remodeling in development","description":"The top terms are dominated by DNA-templated transcription (GO:0006351), negative regulation of RNAP II transcription (GO:0017055; GO:0000122), and chromatin remodeling (GO:0043044), indicating a cluster of proteins that regulate transcription initiation and chromatin state. The presence of multiple development-related morphogenesis terms (gonad, trachea cartilage, semicircular canal, digestive tract, ureteric bud) suggests these regulators influence diverse developmental processes rather than a single tissue-specific function. Overall, this cluster appears to reflect transcriptional control machinery involved in developmental regulation.","confidence":"High","size":19,"edges":88,"triangles":179,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0017055","count":10},{"id":"GO:2000020","count":10},{"id":"GO:0070384","count":10},{"id":"GO:0060534","count":10}]},{"hash":"828460224959368213","title":"Core cellular maintenance and energy metabolism","description":"The top GO terms point to essential housekeeping processes: RNA modification (tRNA wobble uridine modification), DNA repair, NAD+ biosynthesis, proteasome regulatory particle assembly, mitochondrial inner membrane protein insertion, and cell growth. Together these reflect genome and RNA maintenance, protein quality control, and core energy metabolism, suggesting a cluster of fundamental cellular maintenance functions. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0002098","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0043046","count":3},{"id":"GO:0007568","count":3}]},{"hash":"1012256456276003778","title":"DNA repair and oxidative stress response","description":"The proteins cluster centers on base-excision repair and DNA recombination, with supporting signals from cellular responses to hydrogen peroxide and redox homeostasis, plus apoptotic processes, indicating a core role in DNA damage response linked to oxidative stress. Some terms are obsolete or peripheral, but the dominant theme ties DNA maintenance to oxidative stress signaling.","confidence":"High","size":19,"edges":7,"triangles":0,"max_degree":6,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006284","count":11},{"id":"GO:0007568","count":10},{"id":"GO:0006310","count":9},{"id":"GO:0070301","count":7},{"id":"GO:2000327","count":6}]},{"hash":"1929413809575428525","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042245","count":4},{"id":"GO:0015969","count":4},{"id":"GO:0006808","count":4},{"id":"GO:0001680","count":4},{"id":"GO:0006402","count":4}]},{"hash":"1937978061482886844","title":"Unknown","description":"The top GO terms cover a mix of lipid/metabolic processes (fatty acid biosynthesis, long-chain fatty-acyl-CoA metabolism, malonate catabolism, fatty acid import), secondary metabolism (phenylpropanoid metabolism), development (seed coat development), and other unrelated processes (bioluminescence, siderophore biosynthesis, bile acid metabolism). The absence of a coherent, single biological theme tying these terms together suggests there is no clear, concerted function defining this cluster. ","confidence":"","size":19,"edges":95,"triangles":270,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006633","count":7},{"id":"GO:0008218","count":6},{"id":"GO:0009698","count":6},{"id":"GO:0036112","count":6},{"id":"GO:0090410","count":6}]},{"hash":"866538693939088419","title":"Developmental morphogenesis and differentiation","description":"This cluster shows a convergence on embryonic/tissue development across species: ectoderm formation, anterior head development, spinal cord neuron differentiation, atrial cardiac muscle development, and plant ovule morphogenesis dominate the terms. Additional cellular processes such as actin regulation and exocytosis underpin morphogenesis and differentiation. The cross-kingdom mix suggests a broad developmental theme rather than a single pathway, so a development/morphogenesis label fits well.","confidence":"Medium","size":19,"edges":42,"triangles":14,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0030835","count":11},{"id":"GO:0019417","count":11},{"id":"GO:0006887","count":11},{"id":"GO:0001705","count":11},{"id":"GO:2000744","count":11}]},{"hash":"1631934708479420206","title":"Transcriptional Regulation in Development and Immunity","description":"The top terms cluster around regulation of transcription by RNA polymerase II (both positive and negative), with clear developmental signals (midbrain development, pancreas morphogenesis) and additional processes tied to tissue remodeling and innate immunity (collagen catabolic process, blood coagulation, complement activation). This suggests a group of proteins that regulate gene expression during development and modulate remodeling/immune pathways. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0030901","count":6},{"id":"GO:0045944","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0044130","count":5}]},{"hash":"823983128597953241","title":"Neural signaling and ion transport","description":"The dominant GO terms describe GABA signaling, acetylcholine response, and sodium/potassium ion transport, which together point to neural signaling and synaptic activity; the presence of excitatory postsynaptic potential and locomotory/behavioral terms supports a neural function theme, with a few outliers related to muscle contraction and amyloid-beta regulation.","confidence":"High","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007214","count":17},{"id":"GO:0071805","count":17},{"id":"GO:0060079","count":17},{"id":"GO:0007626","count":17},{"id":"GO:0001661","count":17}]},{"hash":"1382691172662218114","title":"Embryonic Organogenesis","description":"The GO terms are dominated by embryonic development and formation of various organs (pancreas, heart, cranial skeleton, pharyngeal/mouth regions, kidneys, gonads), with some notes on transcriptional regulation. This pattern suggests proteins involved in coordinating organogenesis during development, rather than a single tissue-specific function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":4},{"id":"GO:0060707","count":4},{"id":"GO:0060021","count":4},{"id":"GO:0072107","count":4},{"id":"GO:0060037","count":4}]},{"hash":"1921525811534335606","title":"Ubiquitin-Mediated Antiviral Defense","description":"This cluster centers on host antiviral activity linked to the ubiquitin-proteasome system: ubiquitin-dependent protein catabolic processes, protein polyubiquitination, and an ERAD pathway, combined with innate immune responses and defense against viruses (including suppression of viral release and regulation of viral material transport). Additional terms point to innate signaling (LPS) and circadian regulation, which can modulate immunity. A minor term about synapse assembly is less connected but may reflect broader cellular roles. Overall, the dominant theme is ubiquitin-driven antiviral defense.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0051607","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0000209","count":8},{"id":"GO:0030433","count":7}]},{"hash":"58901847121147491","title":"B cell signaling and immune activation","description":"The cluster is dominated by terms related to B cell receptor signaling, adaptive and innate immune responses, and cytokine-related regulation (e.g., IL-2 production and tyrosine phosphorylation), indicating a core role in immune activation signaling. Supporting terms on actin capping, cell migration, polarity, and TGF-\u03b2 responses suggest processes tied to immune cell movement and tissue interactions, collectively pointing to a cohesive B cell\u2013centered immune activation module.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050731","count":4},{"id":"GO:1900042","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0051016","count":3},{"id":"GO:0016477","count":3}]},{"hash":"1793254368658041981","title":"Neuronal migration and cytoskeletal remodeling","description":"This cluster shows strong signals for cytoskeletal dynamics and adhesion (lamellipodium and stress fiber assembly, Rho signaling, substrate adhesion-dependent spreading) and regulation of neuron migration, suggesting a role in neuronal movement and neuron\u2013glia interactions in the peripheral nervous system. Microvillus organization and regulation of cell-matrix adhesion further support a membrane\u2013cytoskeleton remodeling theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0051496","count":2},{"id":"GO:2001223","count":2},{"id":"GO:0032528","count":2}]},{"hash":"1520361417680898600","title":"Unknown","description":"Top terms span megakaryocyte and heart development, sensory perception of sound, histamine response, synapse organization, Rho signaling, calcium-regulated muscle contraction, and histone modification. There is no single cohesive biological function that links all proteins; the terms reflect multiple, diverse processes rather than one theme. Therefore the cluster is Unknown.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035855","count":3},{"id":"GO:0050910","count":2},{"id":"GO:0071420","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0007507","count":2}]},{"hash":"811015770799557040","title":"Unknown","description":"The top terms are scattered across sensory, developmental, immune, neural, and cell-proliferation processes (eye morphogenesis, perception of sound, ephrin signaling, excitatory potential, keratinocyte proliferation, B cell homeostasis, etc.), and there is no dominant shared function or pathway given the data (no edges/triangles). Hence there is no clear theme to name the cluster.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0051262","count":3},{"id":"GO:0001782","count":2},{"id":"GO:1903895","count":2}]},{"hash":"53500332752343984","title":"GPCR-cAMP-ERK Neuronal Signaling","description":"This cluster centers on GPCR signaling that activates adenylate cyclase and cAMP, with downstream ERK1/ERK2 activation and neuropeptide signaling, suggesting neuronal GPCR-mediated signal transduction as the shared theme. Some terms like saliva secretion and peptidoglycan catabolic process are less connected and likely incidental.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":12},{"id":"GO:0022900","count":11},{"id":"GO:0045777","count":11},{"id":"GO:0070374","count":11},{"id":"GO:0007190","count":11}]},{"hash":"412313975860747084","title":"Systemic Physiological Regulation","description":"The top GO terms cover a broad set of bodily processes across tissues, including sensory perception (pain, vision), secretion (saliva), vascular and smooth muscle control (vasoconstriction, smooth muscle contraction), heart development, inflammatory response, and metabolic/thermogenic responses. This diversity points to general homeostatic and stress-response roles rather than a single pathway, suggesting a systemic regulatory function for this cluster.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0046541","count":14},{"id":"GO:0045907","count":14},{"id":"GO:0007601","count":14},{"id":"GO:0007507","count":14}]},{"hash":"1846883278698344165","title":"Thermal and sensory stimulus response","description":"The top GO terms cluster around responses to temperature and thermal stress (diet-induced thermogenesis, cellular response to temperature stimulus) and nociceptive signaling (sensory perception of pain), with calcium release linked to muscle and neuronal signaling. Additional terms touch on vascular smooth muscle function, saliva secretion, and sensory gating processes, suggesting a broader physiological response to environmental and sensory stimuli. Overall, the cluster seems to group proteins involved in sensing and responding to thermal and sensory cues via calcium-mediated pathways.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0051209","count":8},{"id":"GO:0002882","count":7}]},{"hash":"317651877580255802","title":"Telomere maintenance and chromosome stability","description":"Based on the top GO terms, several entries relate to telomere maintenance and telomerase-regulated telomere capping, including positive regulation of telomere maintenance via telomerase and positive regulation of telomere capping, alongside related processes such as spindle assembly. Even though some terms are obsolete or ancillary (e.g., calcium release and poly-ADP-ribosylation), the dominant signal points to telomere biology and chromosome stability during cell division, justifying a concise label.","confidence":"Medium","size":19,"edges":18,"triangles":0,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0007498","count":2},{"id":"GO:1904357","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0007205","count":2}]},{"hash":"1837020892565267060","title":"Unknown","description":"The top GO terms span eye development, cell proliferation, calcium release, GTPase regulation, GPCR-related signaling, chronic inflammatory response, learning, saliva secretion, peptidoglycan catabolism, and vascular smooth muscle contraction, with no clear single function linking them. This mixed set suggests no cohesive theme for the cluster, so an Unknown label with no confidence is most appropriate.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":11},{"id":"GO:0008283","count":11},{"id":"GO:0051209","count":11},{"id":"GO:0043547","count":11},{"id":"GO:0035625","count":11}]},{"hash":"1471868343376941080","title":"Ubiquitin-Dependent Antiviral Response","description":"These proteins show strong enrichment for ubiquitin-related processes (ubiquitin-dependent proteolysis, protein ubiquitination, ERAD pathway) alongside antiviral innate immunity terms (defense response to virus, innate immune response, TNF signaling). Vitamin D response and skin development terms may reflect tissue context but do not dominate the signal. Hence the cluster can be described as a ubiquitin-mediated antiviral immune response.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:1901253","count":6},{"id":"GO:0016567","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0043588","count":6}]},{"hash":"453046341871088878","title":"Ubiquitin-Proteasome\u2013Mediated Turnover","description":"The top GO terms cluster around ubiquitination and proteasome function (ubiquitin-dependent protein catabolic process, protein ubiquitination, proteasome regulatory particle assembly), indicating a shared role in tagging proteins for degradation and assembling proteasomes. Other terms like cell migration, B cell receptor signaling, and cerebellar differentiation may reflect broader regulatory roles of ubiquitin signaling, but the dominant signal is protein turnover via the ubiquitin-proteasome system.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0016567","count":6},{"id":"GO:0033280","count":6}]},{"hash":"403030283277728800","title":"Neural Eye Development and Synaptic Signaling","description":"The terms cluster around nervous system development (corticospinal tract morphogenesis) and eye development (camera-type eye morphogenesis, cone cell differentiation) as well as synaptic communication (ephrin signaling, trans-synaptic signaling, excitatory postsynaptic potential), suggesting a shared theme of neural/visual system development with intercellular signaling pathways.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021957","count":5},{"id":"GO:1903895","count":4},{"id":"GO:0048593","count":4},{"id":"GO:0043616","count":4},{"id":"GO:0007140","count":4}]},{"hash":"508442553872688219","title":"Glutamatergic Synaptic Signaling and Plasticity","description":"Proteins in this cluster are dominated by GO terms related to excitatory synaptic transmission, postsynaptic potential regulation, and long-term synaptic plasticity, along with ephrin signaling and synapse organization. The presence of social behavior and affect terms suggests circuit-level behavioral outcomes linked to these synapses. Collectively, the data point to a theme of glutamatergic neuronal communication and plasticity, with ubiquitination-related regulation potentially modulating synaptic components.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048013","count":5},{"id":"GO:2000463","count":5},{"id":"GO:0051968","count":5},{"id":"GO:1900044","count":5},{"id":"GO:0035176","count":5}]},{"hash":"1638940401734062581","title":"RNA processing and translation initiation machinery","description":"The cluster centers on RNA maturation and translation initiation, with GO terms for mRNA processing, splicing, nonsense-mediated decay, ribosomal subunit export, and formation/regulation of translation initiation complexes, suggesting proteins that coordinate RNA processing with the start of translation (pole plasm localization is a related but secondary cue).","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0032298","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0001731","count":2}]},{"hash":"1615889003599679981","title":"Keratinocyte differentiation via Hippo-Wnt signaling","description":"This cluster is dominated by GO terms linking epidermal biology and signaling networks: keratinocyte differentiation, hippo signaling, and positive regulation of canonical Wnt signaling. The presence of negative regulation of TGF-beta receptor signaling and regulation of GTPase activity supports a coordinated control of proliferation and differentiation, fitting an epidermal differentiation module governed by Hippo-Wnt axes. Some terms like apoptotic process and dendrite extension may reflect broader, context-specific roles of these proteins.","confidence":"High","size":18,"edges":79,"triangles":143,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030216","count":9},{"id":"GO:0060044","count":9},{"id":"GO:0006915","count":9},{"id":"GO:0035329","count":9},{"id":"GO:0090263","count":9}]},{"hash":"1780376640205590639","title":"Endosomal TLR9 signaling and innate immunity with autophagy","description":"The cluster is enriched for innate immune and toll-like receptor\u2013related terms (innate immune response, Toll signaling, TLR9 signaling), plus regulation of IL-18 production and autophagy, and even endosome-to-Golgi transport, which together point to endosomal TLR-mediated immune signaling and its coordination with autophagy. Bone and lung connective tissue development terms appear as contextual tissue-related associations rather than core functions. Overall, the proteins seem connected to endosomal innate immune signaling and autophagy.","confidence":"Medium","size":18,"edges":6,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060348","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0034162","count":6},{"id":"GO:0032741","count":6},{"id":"GO:0060427","count":6}]},{"hash":"446331310198031751","title":"Cardiac muscle development and signaling","description":"The top terms center on ventricular cardiac muscle tissue morphogenesis, cardiac myofibril assembly, and cardiac muscle contraction, complemented by signaling pathways such as calcineurin-NFAT and phosphatidylinositol-mediated signaling. The presence of protein dephosphorylation and negative regulation of protein kinase activity reinforces a theme of cardiac signaling regulation. Although visual perception and long-term memory appear, they are likely incidental and not core to the cluster; the dominant theme remains heart muscle development and function. ","confidence":"High","size":18,"edges":123,"triangles":561,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":17},{"id":"GO:0014883","count":16},{"id":"GO:0006470","count":16},{"id":"GO:0055010","count":16},{"id":"GO:0055003","count":16}]},{"hash":"1926154778213879430","title":"Mitotic spindle assembly and chromosome alignment","description":"The cluster is dominated by mitosis- and microtubule-related terms (spindle assembly, centrosome separation, kinetochore-microtubule attachment, chromosome alignment, and microtubule regulation), indicating proteins primarily involved in mitotic spindle organization and chromosome segregation. Some non-mitosis terms appear (stress granule disassembly, chloroplast movement), but they are less representative of the main function. Confidence: High","confidence":"","size":18,"edges":7,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035617","count":13},{"id":"GO:0001560","count":12},{"id":"GO:0090307","count":12},{"id":"GO:0007100","count":12},{"id":"GO:0032886","count":12}]},{"hash":"571209521204442838","title":"Spliceosome-Mediated mRNA Splicing and Processing","description":"The top GO terms cluster around spliceosome-driven mRNA processing and regulation: regulation of mRNA splicing (including alternative splicing), cis splicing via the spliceosome, and processes affecting mRNA stability and polyadenylation in response to stress. This consistent theme suggests the proteins function in nuclear mRNA maturation and post-transcriptional control. ","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":13},{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0045292","count":11},{"id":"GO:0000381","count":10}]},{"hash":"1116545538075570569","title":"GPCR-driven thermosensory and cardiovascular signaling","description":"This cluster centers on GO terms for nociception and temperature response (sensory pain, cellular response to temperature, diet-induced thermogenesis) and GPCR-adenylate cyclase signaling, with downstream ERK activation and cardiovascular roles (blood pressure regulation, heart development). The inclusion of electron transport and visual perception suggests a broader metabolic and sensory signaling context, but the core theme ties GPCR signaling to thermosensation and cardiovascular regulation. Confidence: Medium","confidence":"","size":18,"edges":5,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":15},{"id":"GO:0002024","count":14},{"id":"GO:0071502","count":14},{"id":"GO:0010579","count":13},{"id":"GO:0022900","count":13}]},{"hash":"1961717769032734036","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":147,"triangles":725,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0000467","count":6},{"id":"GO:0071035","count":6},{"id":"GO:0071049","count":6}]},{"hash":"1427006947470397054","title":"Developmental transcriptional regulation","description":"The cluster shows prominent transcription-related GO terms (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) alongside a variety of tissue- and lineage-specific developmental terms (heart, lens, inner ear, nervous system, erythrocytes, granulocytes, primitive streak), suggesting proteins that regulate gene expression during development across multiple lineages.","confidence":"High","size":18,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0006351","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0003148","count":4},{"id":"GO:0070306","count":4}]},{"hash":"1267039939219068750","title":"Aminoacyl-tRNA Synthetases & Translation","description":"This cluster is dominated by GO terms for charging tRNAs with amino acids (methionyl-, leucyl-, cysteinyl-tRNA aminoacylation) and the translation process, indicating a core theme around aminoacylation enzymes and protein synthesis. Additional terms like mycothiol biosynthesis and redox/homeostasis appear but are secondary to the central translation machinery signal. Overall, the cluster likely represents components of the protein synthesis apparatus, possibly with organism-specific redox-related annotations.","confidence":"High","size":18,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006431","count":4},{"id":"GO:0010125","count":4},{"id":"GO:0006429","count":4},{"id":"GO:0006423","count":4},{"id":"GO:1901097","count":3}]},{"hash":"1344970963527450692","title":"GPCR-cAMP-MAPK signaling and prostaglandin responses","description":"These proteins cluster around GPCR-mediated signaling that activates adenylate cyclase and cAMP production, feeding into ERK/MAPK signaling and modulation by prostaglandin stimuli, with downstream links to vascular regulation and sensory responses (pain, vision). The electron transport chain term appears secondary, but the dominant theme is GPCR-cAMP-MAPK signaling and prostaglandin response.","confidence":"High","size":18,"edges":6,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0045777","count":13},{"id":"GO:0071380","count":13},{"id":"GO:0007190","count":12}]},{"hash":"1958638664341528178","title":"Developmental signaling regulators","description":"The proteins show a pattern of regulating signaling pathways and developmental processes across multiple tissues (e.g., regulation of SA node action potential, skin development, cerebellar granule cell differentiation, multicellular organismal process) and include modulation of protein turnover (proteasome regulatory particle assembly). This suggests a broad role in controlling development and signaling rather than a single, cohesive pathway, hence a label of developmental signaling regulators.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":4},{"id":"GO:0097284","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0043588","count":3}]},{"hash":"2103166052844407051","title":"Multisensory perception and synaptic signaling","description":"The cluster centers on multiple sensory modalities (vision, smell/taste, olfactory learning) and sensory-system development, alongside synaptic processes like receptor clustering and presynaptic vesicle fusion regulation, plus sensorimotor gating (prepulse inhibition). This combination points to proteins involved in sensory perception and neural communication, supporting a label around multisensory perception and synaptic signaling.","confidence":"Medium","size":18,"edges":30,"triangles":21,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0065009","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0050908","count":3},{"id":"GO:0043113","count":3},{"id":"GO:0050907","count":3}]},{"hash":"1859881993951391539","title":"Neuroimmune Development and Signaling","description":"The cluster centers on signaling pathways common to neural development and immune regulation: neurogenesis, STAT tyrosine phosphorylation, IL-27 signaling, TH2 cytokine production, PI3K\u2013AKT signaling, and ROBO (Roundabout) pathway, with concurrent apoptosis and proliferation control. This suggests proteins involved in coordinated development and immune signaling, rather than a single classic pathway. The presence of a development term for reproductive tissue alongside neural and immune terms indicates a broader developmental regulatory theme.","confidence":"Medium","size":18,"edges":137,"triangles":595,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0022008","count":7},{"id":"GO:0042517","count":6},{"id":"GO:0042511","count":6},{"id":"GO:0035745","count":6},{"id":"GO:0070106","count":6}]},{"hash":"560719696631657281","title":"Cytoskeletal remodeling and protrusion formation","description":"This cluster centers on actin cytoskeleton dynamics and the formation of protrusive structures, as indicated by GO terms for filopodium assembly, ruffle assembly, and actin filament branching. It also includes signaling pathways (EGFR and ephrin receptor) that regulate cytoskeletal remodeling and cell polarity, consistent with positive regulation of stress fiber/podosome assembly and maintenance of cell shape. Together, these terms point to coordinated actin-driven morphogenesis and cell migration.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046847","count":8},{"id":"GO:0007173","count":7},{"id":"GO:0090135","count":7},{"id":"GO:0051496","count":7},{"id":"GO:0043552","count":7}]},{"hash":"99994064262699474","title":"Neural Ion Transport and Brain Development","description":"This cluster is dominated by ion transport terms (K+ and Na+), plus neural development signals (forebrain development, sensory perception of sound, stem cell differentiation). This suggests proteins involved in neuronal excitability and brain formation. Some obsolete histone modification terms seem like annotation noise and don't define the cluster.","confidence":"Medium","size":18,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":5},{"id":"GO:0007605","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0030900","count":3},{"id":"GO:1901726","count":3}]},{"hash":"1034256050019747589","title":"TLR4-driven innate immune signaling and inflammation","description":"This cluster is dominated by GO terms related to innate immunity and inflammatory signaling, especially Toll-like receptor 4 signaling, innate immune response, and positive regulation of inflammatory response, indicating a core function in recognizing pathogens and mounting inflammation. Additional terms like cellular response to calcium and axonogenesis may reflect broader regulatory roles or incidental associations, but the strongest signal centers on TLR4-mediated innate immune signaling and inflammation.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":5},{"id":"GO:0006469","count":4},{"id":"GO:0034142","count":4},{"id":"GO:0007409","count":4},{"id":"GO:0050729","count":4}]},{"hash":"648897135868152989","title":"Neuronal plasticity and RNA processing","description":"This cluster centers on neuronal function (synaptic plasticity, sensory perception of sound) and gene expression regulation through RNA processing and protein ubiquitination/deubiquitination, suggesting a theme of neural regulation at transcriptional/post-transcriptional levels.","confidence":"Medium","size":18,"edges":12,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0048172","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0007205","count":2}]},{"hash":"1279295505095677167","title":"Developmental transcription and stress response cluster","description":"These proteins are enriched for developmental processes (forebrain development, neural tube closure, multicellular organism development) and transcriptional regulation (DNA-templated transcription, regulation of gene expression). The presence of stress-related terms (intrinsic apoptotic signaling in response to endoplasmic reticulum stress, cellular response to cadmium ion, defense response to Gram-positive bacterium) suggests a group involved in coordinating development with cellular stress signaling, rather than a single narrow pathway. Some general terms like mitotic cell cycle also appear, consistent with broad regulatory roles during development. ","confidence":"Medium","size":18,"edges":35,"triangles":17,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0006349","count":13},{"id":"GO:0001403","count":13},{"id":"GO:0030900","count":13},{"id":"GO:0007275","count":13}]},{"hash":"1423580642855138396","title":"Cell growth and protein synthesis","description":"The top GO terms emphasize core cellular processes like cell cycle, translation, and growth, suggesting these proteins group around basic housekeeping functions. Some terms point to metabolic regulation and stress responses, but overall the cluster centers on biosynthetic and proliferative machinery rather than a specific pathway or tissue, justifying a concise label focused on growth and protein synthesis.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0070682","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0001300","count":2},{"id":"GO:0016049","count":2}]},{"hash":"1433350863169017494","title":"Embryonic organ morphogenesis","description":"The top GO terms cluster around morphogenesis and development of multiple organs (eye/retina, inner ear, lung, ureteric bud) with accompanying transcriptional regulation, indicating capture of broad embryonic development programs rather than a single pathway.","confidence":"High","size":18,"edges":117,"triangles":361,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":7},{"id":"GO:0060441","count":5},{"id":"GO:0048048","count":5},{"id":"GO:0043010","count":5},{"id":"GO:0021902","count":5}]},{"hash":"707202751565411669","title":"Cell cycle regulators and developmental morphogenesis","description":"The cluster\u2019s prominent GO terms center on promoting cell division and cell-cycle progression (mitotic cell cycle, cell division, regulation of cell cycle) alongside transcriptional control (DNA-templated transcription). Additional terms point to developmental processes and differentiation (oligodendrocyte differentiation, hair follicle morphogenesis, morphogenesis-related epithelial proliferation in lung), all suggesting regulatory proteins that coordinate proliferation with tissue development. Signals like positive regulation of GTPase activity and ATP-dependent activity imply broader regulatory and signaling roles. The presence of varied but related developmental and proliferative terms supports a theme of proliferation-linked developmental regulation, though some terms are more peripheral (e.g., sodium transport). Overall, it seems to capture regulators of growth and morphogenesis. ","confidence":"Medium","size":18,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0032781","count":4},{"id":"GO:0010765","count":3},{"id":"GO:0048709","count":3},{"id":"GO:0000278","count":3}]},{"hash":"222152122373946220","title":"LPS-driven innate immune signaling","description":"This cluster is dominated by GO terms related to lipopolysaccharide response and signaling (LPS-mediated pathways, cellular response to LPS), plus links to NF-kappaB and ERK/MAPK cascades and GPCR signaling, together with defense against viruses and modulation of chemokine signaling and angiogenesis. The common thread is innate immune activation in response to LPS with downstream NF-kB/MAPK signaling and related cross-talk.","confidence":"High","size":18,"edges":25,"triangles":2,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0042346","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0031663","count":5},{"id":"GO:0051770","count":4},{"id":"GO:0070374","count":4}]},{"hash":"2076426851146421320","title":"Xenobiotic detoxification and amino-acid catabolism","description":"The top terms point to detoxification mechanisms (xenobiotic catabolic process, glutathione metabolism, antibiotic response) and catabolic pathways for amino acids like tyrosine and phenylalanine, with some mitochondrial assembly terms suggesting metabolic involvement. A transcription regulation term is present but appears outlierish, so the core theme centers on detoxification and amino-acid catabolism rather than a single, cohesive transcriptional program. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006357","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0019243","count":2},{"id":"GO:0042178","count":2},{"id":"GO:0006749","count":2}]},{"hash":"1536577317450629249","title":"Lipid and Steroid Biosynthesis","description":"This cluster is dominated by GO terms about biosynthesis of lipids and steroid-related compounds (fatty acids, very long-chain fatty acids, mycolic acids, retinol metabolism, estrogen and glucocorticoid biosynthesis), with additional hints of related isoprenoid-derived metabolites (phylloquinone). The common theme is production of lipid- and steroid-based molecules, suggesting the proteins are involved in lipid/steroid biosynthetic pathways.","confidence":"High","size":18,"edges":115,"triangles":383,"max_degree":16,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030497","count":17},{"id":"GO:0031427","count":17},{"id":"GO:0042376","count":17},{"id":"GO:0006703","count":17},{"id":"GO:0042761","count":17}]},{"hash":"408205769727102811","title":"Embryonic eye and brain morphogenesis","description":"The top GO terms cluster around early embryonic development of ocular and neural tissues, including eye formation (embryonic eye morphogenesis; camera-type eye development) and neural patterning (brain segmentation; peripheral nervous system neuron development; rhombomere development). Also present are gastrulation-related terms (primitive streak formation) and broad transcriptional regulation terms (transcription by RNA polymerase II), suggesting a cohesive program of early developmental morphogenesis for these tissues. Confidence is high that this label captures the cluster\u2019s core theme.","confidence":"High","size":18,"edges":81,"triangles":119,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":9},{"id":"GO:0006366","count":9},{"id":"GO:0000122","count":9},{"id":"GO:0035284","count":8},{"id":"GO:0060441","count":8}]},{"hash":"762566937773579204","title":"Embryonic organ development and neural differentiation","description":"The cluster is enriched for developmental processes across multiple tissues, including bronchiole development, endocrine pancreas development, heart valve formation, and various neural lineage specifications (cerebral cortex interneuron differentiation, spinal cord motor neuron and oligodendrocyte fate decisions, subpallium neuron fate commitment). The prominence of transcription by RNA polymerase II suggests coordinated transcriptional regulation underlying these fate decisions, pointing to a shared theme of embryonic organogenesis with neural differentiation rather than a single tissue-specific function.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0060435","count":18},{"id":"GO:0006366","count":18},{"id":"GO:0031018","count":18},{"id":"GO:0021892","count":18},{"id":"GO:0021520","count":18}]},{"hash":"1319366909148593415","title":"Vascular development and coagulation","description":"Predominant GO terms cluster around blood coagulation, complement activation, angiogenesis, and endothelial barrier establishment, which together point to vascular development and immune-vascular interactions. Wnt signaling supports angiogenesis/vessel stability, reinforcing this theme. A few terms about midbrain/pancreas development are less connected to the core vascular/coagulation functions, but the dominant signal reflects vascular biology and coagulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0006958","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0016055","count":5}]},{"hash":"2083213459894722287","title":"Vascular and Neural Development","description":"This cluster centers on developmental processes spanning the vascular system (angiogenesis, vasoconstriction regulation, heart development) and the nervous system (central nervous system and neuron projection development), with supporting signaling (ERK/MAPK cascade) and broader multicellular development terms. While an immune term appears, the dominant theme is development of cardiovascular and neural tissues, consistent with coordinated organogenesis. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045907","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0010765","count":2}]},{"hash":"2012491890997157619","title":"Neural signaling and sensory response","description":"The cluster is enriched for neural and sensory signaling terms, especially temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus) and sensory modalities (pain perception, phototransduction). Also present are GPCR-mediated signaling and downstream pathways (dopamine uptake regulation, ERK cascade, GTPase activity), with a few terms touching on heart development, suggesting a broader signaling network in neural/sensory contexts. Confidence: Medium","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":16},{"id":"GO:0071502","count":16},{"id":"GO:0019233","count":16},{"id":"GO:0051586","count":13},{"id":"GO:0070374","count":13}]},{"hash":"1989504085194955763","title":"Endothelial Immune-Inflammatory Signaling","description":"Top GO terms center on adaptive and general immune responses, interleukin-1 signaling, apoptosis, and endothelial/vascular remodeling with hypoxia. This points to inflammatory signaling affecting endothelial cells and blood vessel remodeling, rather than a single metabolic function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0006955","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0043552","count":3},{"id":"GO:2000352","count":2}]},{"hash":"973069414511004070","title":"Innate Immune Signaling and Autophagy","description":"The GO terms cluster around Toll-like receptor signaling (TLR9), Toll signaling, and IL-18 production, along with positive regulation of macroautophagy and GTPase activity, pointing to innate immune recognition and autophagic processes. Some tissue development terms appear as context, but the core theme is innate immune response and autophagy.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0034162","count":3},{"id":"GO:0032741","count":3},{"id":"GO:0060427","count":3}]},{"hash":"1648600794442956367","title":"Unknown","description":"The GO terms are extremely diverse (nervous-system processing like operant conditioning, prepulse inhibition, and visual perception; inflammatory regulation; secretion and vascular functions; tissue development; and even peptidoglycan catabolism), with no clear single theme linking them, so a concise specific cluster name cannot be confidently chosen.","confidence":"","size":18,"edges":33,"triangles":4,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":17},{"id":"GO:0035106","count":17},{"id":"GO:0046541","count":17},{"id":"GO:0009253","count":17},{"id":"GO:0014829","count":17}]},{"hash":"1456570625154772248","title":"Neuro-immune-vascular regulation","description":"This cluster is dominated by terms tying together immune/inflammatory activity (e.g., positive regulation of chronic inflammatory response, eosinophil chemotaxis), vascular control (vasoconstriction, smooth muscle contraction, lung connective tissue development), and CNS-related processes (prepulse inhibition, operant conditioning, visual perception), with some secretion-related activity (saliva secretion). The mix suggests proteins involved in cross-talk between nervous, immune, and vascular systems rather than a single narrow function, possibly affecting tissue remodeling and secretory responses. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":18},{"id":"GO:0035106","count":18},{"id":"GO:0046541","count":18},{"id":"GO:0009253","count":18},{"id":"GO:0014829","count":18}]},{"hash":"67611390600929877","title":"Unknown","description":"The top GO terms describe inflammation regulation, nervous-system-related processes (operant conditioning, prepulse inhibition, visual perception), physiological secretions (saliva), and tissue development, with no single, coherent function linking all proteins.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":16},{"id":"GO:0035106","count":16},{"id":"GO:0046541","count":16},{"id":"GO:0009253","count":16},{"id":"GO:0014829","count":16}]},{"hash":"1032936256663659106","title":"Neural development and RNA processing","description":"This cluster combines neural-development-related terms (dendrite morphogenesis, visual perception, apoptotic process) with RNA metabolism and translation terms (mRNA splicing, processing, initiation, polyadenylation). The co-occurrence suggests proteins involved in neural development that are also tied to RNA processing/translation, with growth signaling (insulin receptor pathway) contributing context. Confidence: Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0048813","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0000398","count":3}]},{"hash":"641753360320650472","title":"Unknown","description":"The top GO terms mix immune system processes (germinal center formation, B cell receptor signaling, dendritic cell differentiation, mast cell cytokine regulation) with developmental and morphogenesis terms (phototropism, gravitropism, distal tubule morphogenesis, skeletal muscle fiber development) and ubiquitin-related catabolic processes. There isn\u2019t a single cohesive theme linking all proteins, so a concise, representative label cannot be defined.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0002467","count":6},{"id":"GO:0050853","count":5},{"id":"GO:1990390","count":5},{"id":"GO:0009958","count":5}]},{"hash":"2222982270762709965","title":"Epigenetic Chromatin Regulation under Stress","description":"The top GO terms point to histone methylation and chromatin organization (H3-K4 and H3-K79 methylation) and DNA-templated transcription, indicating epigenetic regulation of gene expression. Additional terms reflect stress-related responses (hypoxia, ER-stress\u2013driven apoptosis) and development processes, suggesting a cluster focused on chromatin-mediated transcription that interfaces with stress signaling and developmental regulation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0051568","count":3},{"id":"GO:0071456","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0031497","count":3},{"id":"GO:0001501","count":3}]},{"hash":"193556447473331681","title":"TNF/NF-kB signaling and ubiquitin regulation","description":"The cluster centers on ubiquitin-dependent proteolysis and TNF-mediated NF-kB signaling, with links to I-kappaB phosphorylation and adaptive immune response. Additional GO terms hint at chromatin-related regulation (histone turnover and modifications), suggesting a cohesive theme where protein turnover and inflammatory signaling intersect to shape immune transcriptional responses.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0033209","count":5},{"id":"GO:2000620","count":5},{"id":"GO:1903265","count":5},{"id":"GO:0090073","count":5}]},{"hash":"10299071990395096","title":"Unknown","description":"The terms are highly mixed (lipid catabolism, nucleotide catabolism, biosynthesis of plant hormones and antibiotics, vascular development, muscle differentiation regulation), with no clear, single function tying the proteins together. There are no edges to support a cohesive pathway, so a specific shared role cannot be inferred from the GO terms.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":6},{"id":"GO:0017000","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0001570","count":4},{"id":"GO:0010832","count":4}]},{"hash":"726496841503501242","title":"Unknown","description":"The GO terms are highly diverse (transcription regulation, mRNA processing, neural and immune differentiation, sensory perception, vitamin D response, multicellular processes), with no single dominant function tying the proteins together. Because there is no clear common theme, the cluster is best labeled Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000083","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0006397","count":5},{"id":"GO:0050966","count":5},{"id":"GO:0033280","count":5}]},{"hash":"1246005983611670698","title":"Actin-driven protrusions and cell motility","description":"This cluster is enriched for GO terms describing actin cytoskeleton\u2013driven membrane protrusions (lamellipodium, filopodium, microspike) and related processes like cell spreading and polarity establishment, together supporting dynamic cell movement and shape changes. The presence of GTPase activation/regulation terms further links signaling to actin remodeling, giving a cohesive theme despite some peripheral terms.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904424","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0002408","count":2},{"id":"GO:0030032","count":2},{"id":"GO:1900026","count":2}]},{"hash":"1747220267829511259","title":"Innate Immune Response and ECM Remodeling","description":"The terms cluster around innate immune activation (innate immune response, acute-phase response, defense against Gram-positive bacteria) and reactive oxygen/nitric oxide signaling (superoxide generation, NO biosynthesis), alongside collagen fibril organization and endothelial/migration regulation. This suggests a coherent module where inflammatory signaling is linked to extracellular matrix remodeling and vascular responses, rather than a single isolated pathway.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045429","count":3},{"id":"GO:0030199","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0050830","count":2}]},{"hash":"543360428363370892","title":"Neural development and craniofacial morphogenesis","description":"The proteins in this cluster are associated predominantly with neural development and embryonic craniofacial patterning, including neuron development, neural tube closure, corpus callosum development, face development, and embryonic cranial skeleton morphogenesis, as well as establishment of planar polarity and synapse assembly. While a single term mentions NLRP3 inflammasome regulation, the overwhelming signal centers on neural and craniofacial formation, suggesting a coherent developmental role rather than immune signaling. Confidence in this thematic link is high.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900227","count":3},{"id":"GO:0048666","count":3},{"id":"GO:0022038","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0036089","count":3}]},{"hash":"444365104901197729","title":"Cardiac development and endocardial EMT","description":"Most prominent GO terms point to heart development (GO:0007507) and processes driving endocardial cushion formation via epithelial-to-mesenchymal transition (GO:0003198). Additional terms about cell-matrix adhesion, calcium signaling, and related trafficking support cardiac development and valve formation contexts. While some terms touch on general cellular processes (lysosome localization, membrane invagination, cAMP response), the core signal is cardiac development and endocardial EMT.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0071320","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0061462","count":2},{"id":"GO:0030913","count":2}]},{"hash":"2254785262546084315","title":"Embryonic Development and Morphogenesis","description":"The GO terms are centered on developmental processes across embryogenesis and tissue formation, including endocrine system development, pancreatic cell development, left/right patterning, placental/trophoblast differentiation, cartilage morphogenesis, EMT in heart cushion formation, and roof of mouth development, indicating a cohesive theme of embryonic development and morphogenesis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035270","count":13},{"id":"GO:0003323","count":13},{"id":"GO:0060972","count":13},{"id":"GO:0060707","count":13},{"id":"GO:0060536","count":13}]},{"hash":"1937069435114191526","title":"Stress-Responsive Membrane Transporters","description":"This cluster's top GO terms indicate transport across the plasma membrane for diverse substrates (xenobiotics, sugars like trehalose and fructose, selenite, organic anions) and cellular responses to osmotic and nutrient stress, with only ancillary signaling terms (TNF/NF-kB). The strongest common theme is membrane transport linked to stress, suggesting a group of stress-responsive transporters.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":3},{"id":"GO:0033209","count":2},{"id":"GO:0042908","count":2},{"id":"GO:0042149","count":2},{"id":"GO:0097080","count":2}]},{"hash":"696703721214502488","title":"TGF-beta signaling in developmental morphogenesis","description":"This cluster shows enrichment for positive regulation of TGF-beta receptor signaling, neural tube closure, forebrain development, vasculogenesis, and cardiac muscle differentiation, along with Rho signaling and extracellular-growth regulation. The combination points to developmental signaling that drives morphogenesis across neural, vascular, and cardiac lineages, with cytoskeletal dynamics likely linked to TGF-beta\u2013dependent processes. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030511","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0030900","count":3},{"id":"GO:2000727","count":2},{"id":"GO:0001560","count":2}]},{"hash":"1080702756094652471","title":"Dopamine Synthesis and Synaptic Vesicle Trafficking","description":"This cluster is characterized by GO terms indicating dopamine production and vesicle trafficking at synapses, such as dopamine biosynthetic process, regulation of synaptic vesicle recycling, receptor internalization, and exocytosis regulation, suggesting a dopamine-focused neurotransmission module; a few stress-related terms are present but do not dominate.","confidence":"High","size":17,"edges":10,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0010040","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0051612","count":2}]},{"hash":"102635221525279829","title":"Ribosome biogenesis and mitotic regulation","description":"The cluster centers on ribosome maturation (rRNA processing and methylation) and translation initiation/remodeling, coupled with mitotic cell cycle processes (microtubule severing, cell proliferation). This suggests a cohesive theme around the assembly of the protein synthesis machinery and division-related cellular machinery, linking RNA processing with mitotic control.","confidence":"Medium","size":17,"edges":14,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1851905732653056341","title":"Neuronal signaling and drug-response pathways","description":"The terms cluster around neural communication (GABAergic transmission, dopamine secretion), responses to psychoactive substances (cocaine, morphine), and signaling cascades (ERK). Additional terms like saliva secretion and prostaglandin signaling reflect autonomic/secretion processes linked to neural activity, suggesting the proteins collectively relate to neuronal signaling, neurotransmitter regulation, and pharmacologic responsiveness with some secretion/development context.","confidence":"Medium","size":17,"edges":133,"triangles":637,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046541","count":16},{"id":"GO:0007601","count":16},{"id":"GO:0007507","count":16},{"id":"GO:0032228","count":16},{"id":"GO:0070374","count":16}]},{"hash":"913023754488281473","title":"Proteasome-driven developmental regulation","description":"This cluster centers on ubiquitin-proteasome\u2013mediated protein catabolic processes (SCF-dependent) and a broad set of developmental and proliferative terms. It includes cell division and proliferation and tissue development (lens fiber, skeletal system, prostate epithelium) along with TGF-beta\u2013related responses, suggesting proteins that couple growth and differentiation to controlled protein turnover. A neuron projection development term hints at broader neurodevelopmental roles as part of the same regulatory network.","confidence":"Medium","size":17,"edges":20,"triangles":4,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":9},{"id":"GO:0008283","count":9},{"id":"GO:0051301","count":9},{"id":"GO:0031175","count":9},{"id":"GO:0070306","count":9}]},{"hash":"1948576546747729192","title":"Neuronal development and synaptic plasticity","description":"Most terms center on neural development and synaptic function (dendritic spine morphogenesis, long-term potentiation, neural tube closure, multicellular organism development) with supporting transcriptional regulation signals; a few terms are less directly related (immune development, glycogen metabolism), but the dominant theme is neuronal development and synaptic maturation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0071560","count":4},{"id":"GO:0060997","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0001843","count":3}]},{"hash":"1122538398785240331","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":11},{"id":"GO:0042254","count":4},{"id":"GO:0006407","count":3},{"id":"GO:0045903","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1082885219337506308","title":"Developmental Transcription and Stress Response","description":"This cluster centers on DNA-templated transcription and multicellular development (forebrain, skeletal), with notable signals of stress and immune response (cadmium ion response, ER stress-induced apoptosis, defense against Gram-positive bacteria). The mix suggests genes that regulate development while also mediating cellular stress responses, giving a cohesive but broad developmental-stress regulatory theme.","confidence":"Medium","size":17,"edges":77,"triangles":158,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":15},{"id":"GO:0007275","count":15},{"id":"GO:0071276","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0006349","count":14}]},{"hash":"1684894874669986194","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045588","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0030866","count":3},{"id":"GO:0000472","count":2},{"id":"GO:0042274","count":2}]},{"hash":"1439379005862597632","title":"Central carbon metabolism and starvation response","description":"The cluster\u2019s top GO terms cluster around core energy-producing pathways (glycolysis, TCA cycle, gluconeogenesis) and amino acid catabolism, together with a starvation response, indicating proteins involved in central carbon metabolism and nutrient limitation response.","confidence":"High","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":10},{"id":"GO:0006096","count":7},{"id":"GO:0019878","count":5},{"id":"GO:0006552","count":5},{"id":"GO:0006103","count":5}]},{"hash":"2021299455570557601","title":"Neuronal plasticity with stress-immune signaling","description":"The top terms point to neural plasticity (long-term potentiation, memory, calcium channel regulation) combined with stress and immune pathways (glucocorticoid response, NF-kappaB signaling, innate immune response). Additional terms for toxin and xenobiotic responses (methylmercury, xenobiotic stimulus) suggest a module where synaptic adaptation is modulated by stress and immune signals, possibly reflecting neuroinflammatory or toxin-response contexts. ","confidence":"Medium","size":17,"edges":6,"triangles":1,"max_degree":4,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0060291","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0051597","count":6},{"id":"GO:0007613","count":6},{"id":"GO:0008284","count":6}]},{"hash":"1459778819205131836","title":"Post-transcriptional RNA processing and translation control","description":"This cluster centers on post-transcriptional RNA processing and translation control, with GO terms spanning mRNA splicing and splice-site recognition, polyadenylation and poly(A) tail regulation, and translation initiation, including IRES-dependent initiation and translation reinitiation.","confidence":"Medium","size":17,"edges":41,"triangles":35,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1901407","count":10},{"id":"GO:0006378","count":10},{"id":"GO:1903586","count":9},{"id":"GO:1902625","count":9},{"id":"GO:0060211","count":9}]},{"hash":"1928700648129037576","title":"Regulation of signaling and membrane trafficking","description":"This cluster centers on GO terms related to regulation of signaling pathways (notably EGFR signaling and epidermal growth factor\u2013related regulation), membrane-associated processes (transcytosis, GPI-anchor attachment), and extracellular interactions (response to heparin, chylomicron remnant clearance). While there are outliers touching transcriptional regulation or ribosomal processing (positive regulation of DNA binding; rRNA processing), the dominant theme is regulatory mechanisms governing signaling and trafficking at or near the cell surface. Confidence: Medium","confidence":"","size":17,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043388","count":4},{"id":"GO:0000448","count":3},{"id":"GO:0090200","count":3},{"id":"GO:0045056","count":3},{"id":"GO:0090321","count":3}]},{"hash":"1283369550369386935","title":"Vesicle trafficking and exocytosis","description":"The top GO terms cluster around intracellular transport within the secretory pathway\u2014ER to Golgi, endosome trafficking, Cvt pathway to vacuole, vesicle fusion with Golgi, and exocytosis including receptor insertion\u2014indicating a cohesive set of proteins involved in vesicle trafficking and membrane fusion. A few terms (like LDL particle assembly and cell proliferation) are less central but do not override the dominant trafficking theme.","confidence":"High","size":17,"edges":50,"triangles":49,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0045022","count":5},{"id":"GO:0032258","count":5},{"id":"GO:1903078","count":5},{"id":"GO:0034498","count":5}]},{"hash":"1643310770709764035","title":"Fungal sterol and sphingolipid metabolism","description":"This cluster is dominated by lipid-related GO terms: ergosterol biosynthesis (fungal sterols), MIPC metabolic process (a sphingolipid), unsaturated fatty acid biosynthetic process, and related lipid metabolism/transport activities, suggesting a focus on membrane lipid biosynthesis. Some terms (e.g., CNS myelin maintenance, sebaceous gland differentiation) are not aligned and may be noise, but the cytomembrane lipid theme is strong overall.","confidence":"Medium","size":17,"edges":30,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":5},{"id":"GO:0042128","count":5},{"id":"GO:0032443","count":5},{"id":"GO:0006809","count":5},{"id":"GO:0001949","count":5}]},{"hash":"351688994040956436","title":"Developmental transcriptional regulation and morphogenesis","description":"This cluster centers on gene expression regulation (DNA-templated transcription, chromatin organization) and multiple morphogenetic developmental processes (skeletal system and limb/valve morphogenesis, retina development, neural tube closure). Presence of signals like GTPase activity and phosphorylation suggests regulatory pathways guiding these developmental events, including hypoxia-responsive regulation during organogenesis.","confidence":"Medium","size":17,"edges":15,"triangles":0,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0048705","count":8},{"id":"GO:0060041","count":6},{"id":"GO:0001501","count":6},{"id":"GO:0001843","count":6}]},{"hash":"861519403978122409","title":"RNA Splicing and mRNA Processing Regulators","description":"The cluster is dominated by spliceosome- and mRNA processing-related terms (splicing, polyadenylation/poly(A) tail regulation) with additional signals for ncRNA-mediated silencing and translation initiation, suggesting a group of proteins that coordinate RNA maturation and post-transcriptional control of gene expression.","confidence":"High","size":17,"edges":56,"triangles":43,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0045292","count":11},{"id":"GO:0006378","count":11},{"id":"GO:1903586","count":10}]},{"hash":"1221977039859038005","title":"RNA processing and translational regulation","description":"Top terms cluster around RNA metabolism and control of translation, including splicing regulation via the spliceosome, regulatory ncRNA-mediated gene silencing, stress-related mRNA stability, mRNA polyadenylation regulation, and translation initiation (including IRES-dependent initiation). This combination suggests a cohesive role in RNA processing and translation control.","confidence":"High","size":17,"edges":134,"triangles":651,"max_degree":16,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0010610","count":10},{"id":"GO:0006378","count":10},{"id":"GO:1903586","count":9}]},{"hash":"1299952199721002535","title":"Dopaminergic neuron metabolism and xenobiotic response","description":"This cluster is enriched for terms related to dopamine metabolism and substantia nigra development, indicating involvement in dopaminergic neuron function. The concurrent response to xenobiotics and ethanol, along with redox homeostasis and thiamine-related biosynthetic processes, suggests a coherent theme of neural metabolic and chemical-stress responses in brain tissue.","confidence":"Medium","size":17,"edges":36,"triangles":43,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021762","count":7},{"id":"GO:0009228","count":7},{"id":"GO:0010044","count":7},{"id":"GO:0045454","count":7},{"id":"GO:0042493","count":7}]},{"hash":"1411606195406063120","title":"Rho GTPase signaling and lamellipodium assembly","description":"These proteins are enriched for GO terms centered on regulation and activation of Rho family GTPases (Rho, Rac) and actin-based structures like lamellipodia, indicating roles in cytoskeletal remodeling and cell migration. Although there are a few terms related to ion transport and development, the dominant theme ties to GTPase-regulated actin dynamics, supporting this label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0035021","count":4},{"id":"GO:0010765","count":3},{"id":"GO:0015758","count":3}]},{"hash":"1511421819652507824","title":"B cell signaling and cytoskeletal remodeling","description":"It clusters around B cell receptor signaling and differentiation, with strong ties to integrin signaling and cortical actin cytoskeleton organization, pointing to immune signaling intertwined with cytoskeletal dynamics. Related growth factor signaling and developmental terms appear, but the core theme is immune cell signaling linked to actin remodeling.","confidence":"Medium","size":17,"edges":54,"triangles":50,"max_degree":12,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0010954","count":17},{"id":"GO:0050853","count":17},{"id":"GO:0030866","count":17},{"id":"GO:0007229","count":17},{"id":"GO:0036120","count":17}]},{"hash":"259053422153005812","title":"Immune adhesion and complement activation","description":"The cluster centers on immune processes, with strong representations of heterophilic cell-cell adhesion, classical complement activation, complement receptor signaling, and leukocyte tethering/rolling, indicating immune cell recruitment and activation; additional terms on T cell apoptosis, IL-2 production, and Rho signaling reflect downstream immune signaling and cytoskeletal changes during responses, while symbiont entry underscores host-microbe interactions.","confidence":"High","size":17,"edges":9,"triangles":1,"max_degree":4,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0007157","count":11},{"id":"GO:0006958","count":8},{"id":"GO:0002430","count":7},{"id":"GO:0050901","count":7},{"id":"GO:0046718","count":6}]},{"hash":"1211023531807407752","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms for ribosome biogenesis and translation (including cytoplasmic translation and rRNA/snRNA pseudouridine synthesis), pointing to ribosome assembly and protein synthesis as the core function. Other signaling-related terms appear less central and may reflect ancillary interactions, but the ribosome-focused terms strongly tie the proteins together.","confidence":"High","size":17,"edges":9,"triangles":0,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0006412","count":6},{"id":"GO:0031120","count":4},{"id":"GO:0048013","count":4},{"id":"GO:0045071","count":4}]},{"hash":"1678246862810704646","title":"Neuronal signaling and ion transport","description":"This cluster is dominated by GO terms tied to neural activity and signaling, including locomotory behavior, sensory perception of sound, acetylcholine response, and excitatory postsynaptic potentials. The presence of sodium and potassium ion transmembrane transport and membrane depolarization supports a core theme of ion-channel\u2013driven neuronal excitability and synaptic transmission. While there are notes about acrosome reaction and amyloid-beta regulation, the strongest signal is neuronal signaling via ion flux and cholinergic pathways.","confidence":"High","size":17,"edges":111,"triangles":383,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":12},{"id":"GO:0007605","count":12},{"id":"GO:0071805","count":10},{"id":"GO:0060079","count":10},{"id":"GO:0051899","count":10}]},{"hash":"686531352382850784","title":"Neural development and brain region specification","description":"Most enriched GO terms describe neural development and patterning: brain segmentation, rhombomere development, subpallium neuron fate commitment, spinal cord motor neuron cell fate specification, interneuron differentiation, and oligodendrocyte fate specification. A transcription-related term is present, supporting broad regulatory programs for neuronal development. Although a couple terms pertain to other organs (endocrine pancreas development, bronchiole development), the dominant signal is nervous system development and regional specification, justifying this label.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0031018","count":9},{"id":"GO:0060435","count":8},{"id":"GO:0021892","count":8},{"id":"GO:0021520","count":8}]},{"hash":"212707282468948243","title":"mRNA Processing and Translation Initiation","description":"The top GO terms center on translation initiation (translation reinitiation, preinitiation complex formation, IRES-dependent initiation) and on mRNA processing steps (splicing, splice site recognition, poly(A) tail regulation). Together they suggest a cluster of proteins involved in both initiating translation and coordinating mRNA maturation, from processing to translation. Some terms are marked obsolete, but the core signal points to this combined role.","confidence":"High","size":17,"edges":25,"triangles":2,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":9},{"id":"GO:0006378","count":9},{"id":"GO:0001731","count":9},{"id":"GO:1903586","count":8},{"id":"GO:1902625","count":8}]},{"hash":"57026657841537767","title":"Interferon-driven cytokine production and secretory pathway","description":"The proteins show a cohesive theme around immune signaling and cytokine regulation, with GO terms for cellular response to type II interferon (IFN-\u03b3), production of IL-1\u03b2, regulation of IL-2, and positive regulation of cytokine production in inflammatory responses. Additional ER/Golgi terms (ER membrane fusion, Golgi organization) imply engagement of the secretory pathway necessary for cytokine trafficking, supporting a role in interferon-mediated cytokine secretion. While there are some cell cycle-related terms, the dominant signal is IFN/cytokine\u2013related functions.","confidence":"High","size":17,"edges":27,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0016320","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0000281","count":2},{"id":"GO:0071346","count":2},{"id":"GO:0071158","count":2}]},{"hash":"1809817728488978186","title":"Neuropeptide Signaling and Neural Development","description":"This cluster centers on nervous system development and neuropeptide signaling, with terms like neuron projection development, CNS/cerebral cortex development, and eating/appetite regulation, suggesting proteins involved in neural signaling that controls feeding behavior.","confidence":"Medium","size":17,"edges":25,"triangles":8,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007218","count":3},{"id":"GO:0042147","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0031175","count":2}]},{"hash":"732448476090504042","title":"Neural and retinal development","description":"Based on the top GO terms, the proteins in this cluster are enriched for neural development processes: myelination; neuron projection development; Roundabout signaling (axonal guidance); BMP signaling regulation; and post-embryonic retina morphogenesis, indicating roles in neural circuit formation and eye development. While a few terms touch on other processes (e.g., muscle contraction, immune activation), the dominant theme is neural/retinal development.","confidence":"High","size":17,"edges":15,"triangles":0,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042552","count":5},{"id":"GO:0030513","count":4},{"id":"GO:0035385","count":4},{"id":"GO:0060060","count":4},{"id":"GO:0035260","count":4}]},{"hash":"1988480527342886309","title":"Lens Development and Eye Morphogenesis","description":"The GO terms are dominated by lens- and eye-related processes (lens fiber cell differentiation, lens morphogenesis, camera-type eye development, and visual perception), indicating these proteins cluster around lens/eye formation and function; a few terms on transcription regulation appear incidental.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0043010","count":4},{"id":"GO:0070306","count":4},{"id":"GO:0070307","count":4},{"id":"GO:0002009","count":4}]},{"hash":"562833531389487564","title":"Developmental transcriptional regulation","description":"The GO terms point to transcriptional control (RNA polymerase II) combined with a broad set of developmental processes across multiple tissues (retina, brain regions, spinal cord neurons, bronchioles, bone, and endocrine pancreas). This suggests a cluster of proteins involved in regulating gene expression during development across diverse organs, rather than a single tissue-specific function.","confidence":"High","size":17,"edges":133,"triangles":638,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0060041","count":6},{"id":"GO:0060435","count":6},{"id":"GO:0035284","count":6},{"id":"GO:0002087","count":6}]},{"hash":"1931263092600422299","title":"Embryonic development and organ morphogenesis","description":"This cluster\u2019s GO terms center on embryonic development, organogenesis, and tissue patterning (placental development, palate formation, cartilage morphogenesis, pancreas development, left-right patterning, EMT in heart development) with transcriptional regulation as a recurring theme, suggesting a developmental/morphogenetic role. A few immune-related terms are present but do not define the overall theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060972","count":4}]},{"hash":"473371029201884261","title":"Coagulation and vascular remodeling","description":"This cluster centers on processes such as blood coagulation (blood coagulation, Factor XII activation, regulation of circulating fibrinogen levels), plasminogen activation, and complement pathways, alongside angiogenesis and smooth muscle cell migration. The inclusion of response to lipopolysaccharide and inflammatory pathways suggests an inflammatory vascular context. Overall, the proteins likely participate in coagulation, fibrinolysis, and vascular remodeling/inflammation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044537","count":6},{"id":"GO:0045766","count":6},{"id":"GO:0014909","count":6},{"id":"GO:0002542","count":6},{"id":"GO:0007596","count":6}]},{"hash":"1146583024712320312","title":"Embryonic and placental development","description":"This cluster shows multiple GO terms tied to embryogenesis and tissue patterning (endodermal/mesoderm development, palate formation) plus placental-related processes (trophoblast differentiation, pregnancy), suggesting a cohesive theme around embryonic development and pregnancy-associated tissues. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0003323","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0035987","count":4},{"id":"GO:0007565","count":4},{"id":"GO:0060686","count":4}]},{"hash":"451783431451043625","title":"Antiviral innate defense via NF-\u03baB and autophagy","description":"The GO terms cluster around host antiviral defense: defense response to virus, suppression and regulation of viral processes, autophagy, and ubiquitin-dependent pathways, including K63-linked ubiquitination and NF-\u03baB signaling. A LPS-related innate immune signaling term also appears, but the common thread is innate antiviral defense and associated regulatory mechanisms.","confidence":"High","size":17,"edges":16,"triangles":0,"max_degree":16,"top_function":"autophagy","top_go_terms":[{"id":"GO:0031664","count":3},{"id":"GO:1902187","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0046597","count":3},{"id":"GO:0043123","count":3}]},{"hash":"1058591130407134588","title":"Embryonic craniofacial and mesoderm development","description":"The terms point to developmental processes, especially craniofacial/palatal formation, cartilage morphogenesis, mesoderm development, and left-right patterning, indicating a cohesive theme of embryonic tissue development and patterning; some transcriptional regulation terms likely reflect developmental gene regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":13},{"id":"GO:0060806","count":11},{"id":"GO:0010729","count":11},{"id":"GO:0046022","count":11},{"id":"GO:0060536","count":11}]},{"hash":"1141496392331010117","title":"Hair Keratinization and Hair Cycle","description":"The top GO terms are keratinization and hair cycle, each with strong representation (17), indicating the proteins cluster around epidermal differentiation and hair follicle biology. This suggests the set comprises structural or regulatory factors involved in hair-related keratinization and cyclical hair growth processes.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":17},{"id":"GO:0042633","count":17}]},{"hash":"708691535495449440","title":"Mitotic spindle assembly and chromosome segregation","description":"This cluster is dominated by mitosis-related terms: centrosome cycle, spindle assembly, chromosome segregation, cell division, and spindle attachment to meiosis I kinetochore, suggesting a coherent focus on mitotic machinery. Some immune signaling terms appear, but the strongest, most specific theme is mitotic regulation and chromosome segregation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000584","count":2},{"id":"GO:0034115","count":2},{"id":"GO:0071639","count":2},{"id":"GO:0032757","count":2},{"id":"GO:0007098","count":2}]},{"hash":"262870682378741649","title":"Developmental and Cellular Process Regulators","description":"The cluster's top GO terms include negative regulation of transcription by RNA polymerase II, protein ubiquitination, and negative regulation of endocytosis, alongside development-related terms such as neuron development, lens fiber cell differentiation, spleen development, and germinal center formation. This spread suggests proteins that regulate multiple cellular and developmental pathways rather than a single, unified function. Therefore a concise label focusing on their regulatory role across development and cellular processes best captures the cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0046847","count":3},{"id":"GO:0048666","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0045806","count":2}]},{"hash":"6314982679084474","title":"Brain metabolism and glycinergic signaling","description":"The top GO terms include brain-related processes (thalamus development; glycinergic synaptic transmission; dopamine catabolic process) plus metabolic activities (TCA cycle; amino acid transport), suggesting a theme of neural metabolism and neurotransmission, despite lack of direct edges in the cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021794","count":4},{"id":"GO:0006099","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006146","count":3},{"id":"GO:0042420","count":2}]},{"hash":"603904947451365726","title":"Autonomic GPCR signaling and physiology","description":"The cluster centers on GPCR\u2013cAMP signaling (adenylate cyclase activation) with outputs relevant to autonomic control\u2014blood pressure, saliva secretion, and temperature-related physiology\u2014alongside related sensory and metabolic processes (pain perception, thermogenesis, electron transport). This points to a cohesive theme of neuroendocrine/autonomic regulation of physiological functions, with metabolic coupling.","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":10},{"id":"GO:0022900","count":10},{"id":"GO:0045777","count":10},{"id":"GO:0007190","count":10},{"id":"GO:0002024","count":10}]},{"hash":"2262693496695342976","title":"Dopaminergic GPCR Signaling and Thermoregulation","description":"The top GO terms center on dopamine/GPCR signaling activating adenylate cyclase, with links to thermogenesis, temperature response, prostaglandin signaling, and cardiovascular/metabolic regulation, suggesting a coherent theme of dopaminergic GPCR-mediated control of energy expenditure and physiological state.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":8},{"id":"GO:0022900","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0035025","count":7},{"id":"GO:0008283","count":7}]},{"hash":"1549357614485834727","title":"Ubiquitin-Dependent Proteolysis","description":"Most top GO terms describe ubiquitin tagging and proteasome-mediated degradation (ubiquitin-dependent protein catabolic process, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, protein polyubiquitination, and K48/K6-linked ubiquitination). This points to a cohesive cluster of proteins involved in ubiquitin signaling and proteolysis; other terms such as histone catabolic process and neuron apoptotic signaling appear but likely reflect related regulatory contexts rather than distinct pathways.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0031146","count":8},{"id":"GO:0000209","count":7},{"id":"GO:0070936","count":7},{"id":"GO:1903265","count":6}]},{"hash":"2202718334158156601","title":"Histone Modification-Driven Epigenetic Regulation","description":"The top GO terms cluster around epigenetic programming and histone modification (acetylation, methylation, and histone exchange), indicating a shared role in chromatin regulation and transcriptional control. While some terms are obsolete, the overarching theme ties proteins to epigenetic gene expression regulation via histone modifications.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043045","count":2},{"id":"GO:0043970","count":2},{"id":"GO:0031496","count":2},{"id":"GO:1900051","count":2},{"id":"GO:0016446","count":2}]},{"hash":"1690188130036575905","title":"Signaling and Cytoskeletal Dynamics","description":"This cluster links cytoskeletal activities (mitotic spindle assembly, microtubule-based movement, cell spreading) with multiple signaling responses (EGF, GM-CSF, thrombin receptor pathways). Developmental and immune terms (spinal cord development, osteoblast differentiation, B cell homeostasis) suggest broader roles in regulating cell behavior during growth and immunity, unified by signaling that interfaces with the cytoskeleton.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:1900026","count":4},{"id":"GO:0021510","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0007018","count":3},{"id":"GO:0001649","count":3}]},{"hash":"1234568288179081506","title":"Vesicle trafficking and intracellular transport","description":"The cluster is dominated by GO terms related to moving proteins/vesicles inside cells, including intracellular protein transport, anterograde synaptic vesicle transport, and Golgi to vacuole transport. While there are additional terms touching on development and immune responses, the strongest common theme is vesicle trafficking and intracellular transport, supporting a cohesive functional label.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0001701","count":3},{"id":"GO:0007155","count":2},{"id":"GO:0033089","count":2},{"id":"GO:0046061","count":2}]},{"hash":"601512983736032289","title":"PI3K-AKT Signaling and Angiogenesis","description":"The cluster shows multiple GO terms centered on positive regulation of PI3K/AKT signal transduction, including PI3K signaling itself and angiogenesis, with additional linked processes like insulin secretion regulation and NOS activity. A neural context term (paranode localization) exists but the dominant theme is regulation of PI3K-AKT\u2013related signaling and its role in angiogenesis and metabolic signaling.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":7},{"id":"GO:0051897","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0002175","count":4}]},{"hash":"947971417680976786","title":"Neurodevelopmental signaling and organ morphogenesis","description":"These proteins cluster around key developmental signaling pathways (Roundabout/Slit-Robo, Smoothened/Hedgehog, BMP signaling) and are enriched for nervous system development, retina morphogenesis, kidney development, and trans-synaptic communication. The mix of neural development, organ differentiation, and morphogenesis terms suggests a cohesive role in coordinating signaling for neurodevelopment and organ patterning across tissues, rather than a single tissue-specific function. ","confidence":"High","size":16,"edges":103,"triangles":352,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035385","count":7},{"id":"GO:0007224","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0001822","count":7},{"id":"GO:0050852","count":7}]},{"hash":"270749139779001018","title":"STAT-driven Cytokine Signaling (Th2)","description":"Based on the GO terms, the cluster is enriched for positive regulation of tyrosine phosphorylation of STAT proteins, interleukin-27 signaling, and Th2 cytokine production, all highlighting JAK-STAT\u2013driven cytokine signaling and Th2 immune responses. Other terms like Rho signaling and morphogenesis are present but seem less central, so the dominant theme is STAT activation and cytokine-mediated signaling.","confidence":"High","size":16,"edges":105,"triangles":385,"max_degree":15,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042523","count":6},{"id":"GO:0042517","count":6},{"id":"GO:0042511","count":6},{"id":"GO:0035745","count":6},{"id":"GO:0048661","count":6}]},{"hash":"491357669062982525","title":"Mitochondrial Apoptosis and Innate Immune Signaling","description":"Top GO terms include apoptotic process and regulation of cytochrome c release from mitochondria, plus positive regulation of mitochondrial fusion, indicating mitochondria-centered cell death with dynamic remodeling. The presence of response to type I interferon and defense response to protozoan suggests concurrent innate immune signaling. While protein oligomerization and Golgi organization terms are broader, the core theme ties mitochondrial apoptosis to immune response.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":13},{"id":"GO:1903358","count":8},{"id":"GO:0042832","count":7},{"id":"GO:0051262","count":7},{"id":"GO:0034340","count":7}]},{"hash":"939769037038074958","title":"APC/C-Mediated Mitosis Control","description":"The cluster is dominated by mitotic cell cycle terms and APC/C/ubiquitin-related processes (K11-linked ubiquitination, anaphase-promoting complex\u2013dependent catabolic process, and mitotic metaphase/anaphase transition), pointing to tight regulation of chromosome segregation via targeted proteolysis. Additional terms like mRNA export, translation reinitiation, and chromatin-related histone methylation hint at coordinated gene expression and chromatin dynamics during cell division. Stress-response terms to cadmium and hypoxia appear secondary but do not define the core function of this cluster.","confidence":"High","size":16,"edges":11,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0061087","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0045842","count":4}]},{"hash":"380944267256188965","title":"Protein synthesis and translational control","description":"The top GO terms converge on translation and its regulation (translation, prolyl-tRNA aminoacylation, regulation of translational fidelity), pointing to a core cluster of protein synthesis control. Other terms (phosphorylation, transcription, calcium transport, interferon response, and cell proliferation regulation) likely reflect broader signaling contexts linked to gene expression rather than core function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0016310","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0070588","count":3},{"id":"GO:0008285","count":3}]},{"hash":"1698760113900825185","title":"Unknown","description":"The GO terms are highly diverse, spanning immune defense, development (male gonad), synapse assembly, ion channel clustering, hypoxia response, and general signaling regulation (autophosphorylation, GTPase activity, PI3K-related). With no edges or coherent clustering signal, there isn\u2019t a single clear function tying these proteins together. Therefore a confident, specific label cannot be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0008584","count":3}]},{"hash":"348897368096892025","title":"RNA Pol II Transcription Regulation and RNA Processing","description":"This cluster is enriched for transcriptional regulation by RNA polymerase II (both negative and positive regulation) and RNA processing/modification (rRNA methylation, miRNA silencing), with additional signals related to cellular stress, development, and cytoskeletal signaling, suggesting a coordinated role in gene expression control and RNA maturation.","confidence":"Medium","size":16,"edges":14,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0090398","count":3},{"id":"GO:0032968","count":2},{"id":"GO:0030835","count":2}]},{"hash":"2288757020541713458","title":"Unknown","description":"The top GO terms mix cell adhesion and synapse-related processes with ribosome biogenesis and RNA modification (rRNA/tRNA methylation, preribosome assembly). There isn\u2019t a single cohesive function that ties all proteins together based on these terms, suggesting multiple functional modules or diverse roles; hence a single clear label cannot be confidently assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":5},{"id":"GO:0051965","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0070475","count":3},{"id":"GO:0002127","count":3}]},{"hash":"653855511994700313","title":"Organelle transcription and ribosome assembly","description":"This cluster centers on organelle gene expression, with GO terms for mitochondrial transcription and its termination, plastid rRNA transcription, chloroplast organization, and mitochondrial ribosome assembly, plus RNA splicing. These collectively point to a shared function in organelle gene expression machinery and ribosome biogenesis in mitochondria and plastids, with some ancillary stress-related terms. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003009","count":2},{"id":"GO:0009658","count":1},{"id":"GO:1903108","count":1},{"id":"GO:0006390","count":1},{"id":"GO:0042794","count":1}]},{"hash":"2124601826857880772","title":"Developmental cell proliferation and morphogenesis","description":"This cluster centers on processes linked to development, including cell division and cytokinesis, cell migration, and developmental outcomes (blastocyst and cranial skeletal development). It also includes protein quality control and trafficking cues (ubiquitination, mitochondrial import, chaperone assembly, vesicle formation) that support cellular remodeling during development. Overall, the common theme is how cells proliferate, migrate, and shape tissues during development and morphogenesis.","confidence":"Medium","size":16,"edges":61,"triangles":77,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0045041","count":2},{"id":"GO:0051131","count":2},{"id":"GO:0070676","count":2}]},{"hash":"1265591593033723778","title":"Cellular Stress and Immune Signaling","description":"These terms cluster around stress and immune signaling\u2014extrinsic apoptotic signaling, xenobiotic response, acute-phase/inflammatory regulation, and phagocytosis\u2014suggesting the proteins function in stress- and immune-related pathways. Reproductive terms are present but less central; the overall theme aligns best with cellular stress/immune signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097192","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0042747","count":2},{"id":"GO:0007339","count":2},{"id":"GO:0006888","count":2}]},{"hash":"283362782063487014","title":"Ubiquitin-Proteasome Proteostasis and Stress Signaling","description":"The cluster is dominated by GO terms tied to ubiquitin-dependent protein degradation (SCF complex, K11-linked ubiquitination) and cytoplasmic proteostasis, along with stress-related signaling pathways (JNK cascade and NF-kappaB). This suggests a cohesive theme around proteasome-mediated protein turnover and its role in stress signaling, with some genome stability associations (meiotic DSB formation, telomere maintenance) as related functions.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":16},{"id":"GO:0070979","count":16},{"id":"GO:0007254","count":16},{"id":"GO:0071629","count":16},{"id":"GO:0042138","count":16}]},{"hash":"1423330770347729563","title":"Immune Signaling and Cell-Cell Adhesion","description":"This cluster centers on immune functions: complement activation (classical pathway), B and T cell signaling, phagocytosis recognition/engulfment, and innate immune responses, all tied to cell\u2013cell adhesion (paranodal junctions). A neural term like neurogenesis appears less consistent with the dominant immune/adhesion signals. ","confidence":"Medium","size":16,"edges":37,"triangles":22,"max_degree":11,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0030913","count":9},{"id":"GO:0050853","count":7},{"id":"GO:0016337","count":7},{"id":"GO:0006910","count":7}]},{"hash":"530666257331894829","title":"Adaptive Immune Activation and Phagocytosis","description":"These proteins show a coherent mix of adaptive immune signaling (B cell receptor signaling, T cell costimulation, and positive regulation of B cell activation) along with innate effector functions (complement activation and phagocytosis/engulfment; innate immune response). This suggests a module coordinating adaptive immune activation with phagocytic and innate responses.","confidence":"High","size":16,"edges":82,"triangles":187,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0050853","count":5},{"id":"GO:0006911","count":5},{"id":"GO:0006910","count":5}]},{"hash":"269691591448258990","title":"APC/C-Driven Proteolysis During Mitosis","description":"Dominant terms are cell division and mitotic progression (mitotic cell cycle, APC/C-dependent catabolic process) linked with K11-linked ubiquitination, indicating APC/C-regulated proteolysis during mitosis. Some immune and ciliary terms appear but are less central to the cluster\u2019s core function.","confidence":"Medium","size":16,"edges":8,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0031145","count":4},{"id":"GO:0051607","count":4}]},{"hash":"217598843684021938","title":"Actin Remodeling and Epithelial Polarity","description":"The dominant GO terms cluster around actin cytoskeleton organization, filopodium and microvillus assembly, Rho GTPase signaling, and processes establishing epithelial cell polarity and tight junctions, suggesting a module coordinating actin-driven membrane protrusions with epithelial polarity and junction formation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0046847","count":4},{"id":"GO:0051660","count":4},{"id":"GO:0030033","count":4}]},{"hash":"1585642159828867058","title":"Synapse organization and dendritic spine morphogenesis","description":"The cluster is enriched for GO terms related to synapse development and spine morphology, with Rho signaling, short-term potentiation, and neurotransmitter regulation, highlighting neuronal connectivity and cytoskeletal dynamics; a few terms about morphogenesis and angiogenesis appear but are less core.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050808","count":9},{"id":"GO:0035023","count":8},{"id":"GO:0060997","count":7},{"id":"GO:0090557","count":7},{"id":"GO:0048701","count":7}]},{"hash":"1491517895669102525","title":"DNA Replication, Transcription, and Repair","description":"This cluster is dominated by nuclear genome maintenance activities: DNA replication, transcription initiation and regulation by RNA polymerase II, and DNA repair/recombination. While a couple of terms hint at stress responses (innate immunity, antibiotic response), the core signal centers on genome integrity and transcriptional control.","confidence":"Medium","size":16,"edges":24,"triangles":15,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006367","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0042795","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0006281","count":2}]},{"hash":"697515302005691786","title":"Actin Cytoskeleton Remodeling and Membrane Dynamics","description":"This cluster is dominated by GO terms tied to actin organization and membrane remodeling (actin crosslinking, cleavage furrow formation, podosome assembly, plasma membrane tubulation) and regulation of GTPase activity, indicating roles in cytoskeletal dynamics, cytokinesis, and membrane-driven shape changes. While development-related terms appear, the shared theme centers on structural remodeling and signaling associated with the actin cytoskeleton, justifying the chosen label.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0051764","count":6},{"id":"GO:0060378","count":5},{"id":"GO:1900042","count":5}]},{"hash":"1097152189878873137","title":"Neural and Muscular Signaling and Development","description":"This cluster shows enrichment for neural signaling terms (receptor localization to synapse, light detection) and cardiac/muscle excitability (membrane depolarization in atrial/AV node cells) together with muscle development and tissue organization (striated muscle contraction in embryogenesis, zonula adherens assembly, spleen development). The common thread is signaling and excitability in neural and muscular contexts, often regulated by phosphorylation, with development-related terms indicating broader tissue patterning.","confidence":"Medium","size":16,"edges":33,"triangles":7,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":7},{"id":"GO:0050908","count":3},{"id":"GO:0061199","count":3},{"id":"GO:0007628","count":3},{"id":"GO:0098912","count":3}]},{"hash":"1763134681327395053","title":"Unknown","description":"The GO terms span bone development and mineralization, immune signaling, endosome-to-plasma membrane transport, and neural functions like synaptic vesicle clustering and neuromuscular posture control, with little overlap suggesting a single coherent function. This heterogeneity implies no reliable, unified label for the cluster.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060349","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0009607","count":2},{"id":"GO:0099638","count":2},{"id":"GO:0035456","count":2}]},{"hash":"2053799227862970700","title":"Unknown","description":"These GO terms cover highly divergent processes across organisms\u2014actin cytoskeleton regulation, exocytosis, various developmental programs (ectoderm, spinal cord/neural differentiation, atrial muscle development) and even plant ovule morphogenesis and sulfur metabolism. The terms do not point to a single, shared function or pathway for the cluster, making a coherent label impossible. ","confidence":"","size":16,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030835","count":15},{"id":"GO:0019417","count":15},{"id":"GO:0006887","count":15},{"id":"GO:0001705","count":15},{"id":"GO:2000744","count":15}]},{"hash":"669551028040496641","title":"Fatty acid and lipid metabolism","description":"The cluster is dominated by GO terms for fatty acid biosynthesis and processing, including fatty acid biosynthetic process, medium-chain fatty-acyl-CoA metabolic process, long-chain fatty acid import into cell, and bile acid metabolic process, signaling a cohesive focus on lipid metabolism. Some outliers (phenylpropanoid metabolism, seed coat development, siderophore biosynthesis, and bioluminescence) may reflect plant secondary metabolism or microbial-associated pathways that intersect with lipid-related processes, but the central theme remains lipid synthesis and utilization.","confidence":"Medium","size":16,"edges":92,"triangles":364,"max_degree":14,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006633","count":7},{"id":"GO:0008218","count":5},{"id":"GO:0009698","count":5},{"id":"GO:0036112","count":5},{"id":"GO:0090410","count":5}]},{"hash":"132159645740098386","title":"Renal oxidative stress and apoptotic response","description":"The GO terms point to oxidative/redox processes, heat and hypoxic stress responses, and detoxification, along with apoptosis, DNA repair, and regulation of proliferation. The inclusion of proximal tubule development and blood pressure regulation suggests a kidney-specific context, indicating proteins involved in renal stress signaling, damage response, and maintenance of renal homeostasis.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0043065","count":2},{"id":"GO:0008217","count":2},{"id":"GO:0072014","count":2},{"id":"GO:0034605","count":2}]},{"hash":"1183923840360546578","title":"Embryonic organ morphogenesis and transcriptional regulation","description":"The cluster\u2019s top GO terms point to development and morphogenesis across multiple organs (eye, inner ear, heart, skeletal muscle, pituitary, lung) and include transcription by RNA polymerase II and its negative regulation, suggesting these proteins jointly participate in regulating gene expression during embryonic organogenesis. This combination supports a coherent theme of developmental morphogenesis governed by transcriptional control, rather than a single tissue-specific function.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043010","count":7},{"id":"GO:0048839","count":6},{"id":"GO:0060441","count":6},{"id":"GO:0006366","count":6},{"id":"GO:0048048","count":6}]},{"hash":"2296679607504417267","title":"Coagulation and Complement Activation","description":"The top terms are dominated by blood coagulation and complement activation (classical and lectin pathways), pointing to proteins involved in the coagulation cascade and innate immune response. Additional terms include collagen catabolism (extracellular matrix remodeling) and defense against Gram-positive bacteria or responses to LPS, suggesting a set of extracellular or secreted factors connected to inflammation and tissue remodeling. Some terms like midbrain development or transcription regulation appear less central, likely reflecting broad or contextual annotations. Overall, the cluster seems best characterized by coagulation and complement/immune activity.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0030574","count":6},{"id":"GO:0001867","count":6},{"id":"GO:0035264","count":5}]},{"hash":"1081207422066982960","title":"Hormone-responsive transcription and chromatin regulation","description":"The top GO terms cluster around nuclear gene expression control and chromatin dynamics (DNA-templated transcription, nucleosome assembly, histone H2A deubiquitination, heterochromatin formation) with signals of hormone responsiveness (estradiol stimulus, endocrine system development, vitamin D biosynthesis regulation). This suggests a group of nuclear regulators\u2014likely transcription factors and chromatin modifiers\u2014that respond to hormonal cues to regulate transcription.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050900","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0035522","count":2},{"id":"GO:0030433","count":2}]},{"hash":"747521256895862031","title":"DNA replication and developmental signaling","description":"Dominant terms center on DNA replication, centrosome cycle, and transcription, indicating a core cell-cycle/genome maintenance role. Developmental signaling terms (Wnt, cranial morphogenesis) point to involvement in differentiation and embryonic patterning; some immune-related terms may reflect signaling cross-talk. Overall, this cluster appears to coordinate cell-cycle control with developmental signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010571","count":14},{"id":"GO:0007098","count":14},{"id":"GO:0006260","count":14},{"id":"GO:0048701","count":14},{"id":"GO:0006351","count":14}]},{"hash":"406325188170945132","title":"Ubiquitin-Mediated Protein Regulation","description":"Top GO terms are dominated by ubiquitination-related processes (ubiquitin-dependent protein catabolic process and protein ubiquitination), suggesting these proteins function primarily in tagging proteins for turnover. The remaining terms touch on immune signaling, germinal center formation, tissue morphogenesis, and phototropism, which may reflect broader regulatory roles or diverse annotations of ubiquitin pathway components rather than a single coherent function. Overall, the cluster most plausibly represents ubiquitin-mediated protein regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0016567","count":7},{"id":"GO:0050853","count":5},{"id":"GO:1990390","count":5},{"id":"GO:0009958","count":5}]},{"hash":"793589102006321696","title":"TLR/NF-kappaB signaling with actin remodeling","description":"The top GO terms cluster around innate immune signaling (TLR/NF-kappaB pathways) and cytoskeletal reorganization (actin filament organization). Several entries reference NF-kappaB regulation (including MyD88-independent signaling) and a term about symbiont-mediated perturbation of host NF-kappaB, suggesting proteins involved in coordinating immune signaling with cytoskeletal changes during receptor signaling and host-microbe interactions.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0007015","count":2},{"id":"GO:0097320","count":2},{"id":"GO:0034162","count":1}]},{"hash":"846528565897435453","title":"GPCR-Driven Visual and Pain Perception Signaling","description":"The top GO terms cluster around GPCR signaling and sensory processes: visual perception (opsin-related), sensory perception of pain, behavioral response to cocaine, GPCR internalization, regulation of opsin-mediated signaling, and downstream ERK/MAPK and GTPase activities. This points to a coherent theme of G protein-coupled receptor\u2013mediated signaling governing sensory and neural responses, with pleiotropic links to prostaglandin signaling, macrophage chemotaxis, and heart development, but the central motif remains GPCR-driven sensory signaling.","confidence":"High","size":16,"edges":40,"triangles":23,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":12},{"id":"GO:0007601","count":11},{"id":"GO:0048148","count":11},{"id":"GO:0002031","count":11},{"id":"GO:0022400","count":11}]},{"hash":"1925661593089296121","title":"cAMP GPCR Signaling and Metabolic Regulation","description":"The terms show strong enrichment for GPCR signaling that activates adenylate cyclase (cAMP pathway), along with metabolic and energy-related processes (electron transport chain, thermogenesis, blood pressure regulation). While a few terms touch on pain or inflammation, the dominant theme centers on GPCR/cAMP signaling coordinating metabolism and energy expenditure.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0045777","count":13},{"id":"GO:0007190","count":13},{"id":"GO:0002024","count":11}]},{"hash":"1351819690052666123","title":"Unknown","description":"The GO terms here span inflammation, nervous system function, secretion, bacterial metabolism, vascular regulation, sensory perception, and development, with no clear single theme tying them together. Terms like operant conditioning and prepulse inhibition point to behavior and neural processing, while others touch on saliva secretion, peptidoglycan catabolism, and lung/connective tissue development. Because there isn\u2019t a cohesive functional core, the cluster cannot be confidently labeled with a specific biological theme.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":15},{"id":"GO:0035106","count":15},{"id":"GO:0046541","count":15},{"id":"GO:0009253","count":15},{"id":"GO:0014829","count":15}]},{"hash":"1430447767009933576","title":"Translation initiation and RNA processing","description":"The top terms cluster around translation initiation (translation reinitiation; formation of translation preinitiation complex; IRES-dependent initiation) and RNA processing/methylation, suggesting a functional grouping in RNA metabolism and control of translation, with additional links to protein turnover and signaling as broader regulatory context.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0075522","count":4},{"id":"GO:0032933","count":3},{"id":"GO:0006397","count":3}]},{"hash":"316836873550412484","title":"Unknown","description":"The top GO terms span calcium signaling, blood coagulation, immune response to bacteria, bacterial cell wall turnover, locomotion and peristalsis, energy metabolism, cytolysis, and ERK signaling, which do not point to a single coherent functional theme. With no clear shared function among the terms and no edges connecting proteins, a specific, interpretable cluster label cannot be confidently assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051281","count":7},{"id":"GO:0007596","count":7},{"id":"GO:0032496","count":7},{"id":"GO:0009253","count":6},{"id":"GO:0007626","count":6}]},{"hash":"2015152480309236591","title":"Phagocytosis and adaptive immune activity","description":"Enriched terms point to immune cell function: phagocytosis, adaptive immune response, IL-2 production regulation, and mast cell proliferation, complemented by lysosome localization and actin cytoskeleton remodeling. This combination suggests a cluster of proteins involved in immune activation, phagocytic processing, and vesicular trafficking, with cytoskeletal changes enabling phagocytosis and transcytosis. A few outlier terms exist, but the dominant signal is clearly immune-related.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006909","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0045056","count":3},{"id":"GO:0060378","count":3},{"id":"GO:1900042","count":3}]},{"hash":"1500113573685323871","title":"Angiogenesis and vascular development","description":"The top GO terms cluster around vascular biology\u2014blood vessel maturation, angiogenesis regulation, and blood coagulation\u2014with supporting signals from embryo implantation and related developmental processes. While some terms hint at broader development pathways, the strongest theme tying these proteins together is vascular development and its regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001955","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0043252","count":2},{"id":"GO:0016525","count":2}]},{"hash":"734715406122156824","title":"Embryonic morphogenesis and signaling","description":"The cluster centers on developmental morphogenesis (cranial skeleton, cochlea) and tissue remodeling (wound healing), with supporting signaling activities (GTPase/Rac signaling, thrombin receptor signaling, and extrinsic apoptotic signaling). This combination points to a module of proteins involved in embryonic development and morphogenesis rather than a single metabolic process. Hence, the label Embryonic morphogenesis and signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008625","count":2},{"id":"GO:0045671","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0070493","count":2},{"id":"GO:0035021","count":2}]},{"hash":"2295591958034427846","title":"Telomere maintenance and telomeric chromosome dynamics","description":"The top GO terms cluster around telomere biology: maintenance via telomerase and length regulation, telomere capping, telomeric DNA binding and localization to telomeric regions, plus mitotic/cohesion-related telomere regulation and PARP-mediated ADP-ribosylation. Together these indicate a protein set focused on telomere maintenance and chromosome-telomere regulation, with some links to mitotic chromosome dynamics. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048745","count":4},{"id":"GO:1904357","count":4},{"id":"GO:0070212","count":4},{"id":"GO:1904355","count":4},{"id":"GO:1904743","count":4}]},{"hash":"1839061841998123873","title":"Ribosome Biogenesis and Translation","description":"The top GO terms cluster tightly around ribosome production and function\u2014translation (GO:0006412), ribosome biogenesis (GO:0042254), maturation of SSU-rRNA, and ribosomal subunit assembly\u2014indicating a cohesive group of proteins involved in ribosome biogenesis and protein synthesis. Some related terms touch on antibiotic response and DNA damage\u2013related translation regulation, but the dominant signal is ribosome-related processes.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0042254","count":5},{"id":"GO:0000462","count":4},{"id":"GO:0042273","count":3},{"id":"GO:0046677","count":3}]},{"hash":"748583946111340938","title":"RNA splicing and translation regulation","description":"The top terms cluster around spliceosome-mediated mRNA processing (cis splicing, splicing regulation) and related maturation steps (polyadenylation and poly(A) tail regulation), with additional signals of translational control (translation reinitiation, IRES-dependent initiation). This combination suggests proteins that participate in RNA processing and regulate translation, rather than a single enzymatic function.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":9},{"id":"GO:0048025","count":8},{"id":"GO:0006378","count":7},{"id":"GO:1903586","count":6},{"id":"GO:1902625","count":6}]},{"hash":"1628089227697672863","title":"Ribosome Biogenesis and Translation","description":"Predominant GO terms are centered on translation and ribosome assembly/biogenesis, including cytosolic and mitochondrial translation, ribosomal large subunit biogenesis, and translational termination. This suggests the cluster comprises ribosomal proteins and translation machinery components, with later terms reflecting regulation under stress or antibiotic exposure.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0000027","count":4},{"id":"GO:0006415","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0015968","count":2}]},{"hash":"989491056907668259","title":"Mitochondrial lipid remodeling and energy metabolism","description":"Top GO terms indicate lipid remodeling (phosphatidylcholine and cardiolipin), triglyceride biosynthesis, and mitochondrial ATP synthesis, suggesting a cohesive theme of mitochondrial lipid metabolism and energy production. Some other terms (development, immune signaling) may reflect broader multifunctionality or annotation noise, but the core connection is mitochondrial lipid remodeling and energy generation.","confidence":"Medium","size":15,"edges":33,"triangles":31,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":7},{"id":"GO:0002071","count":7},{"id":"GO:0010143","count":7},{"id":"GO:2001246","count":7},{"id":"GO:0021587","count":7}]},{"hash":"1475360747655182501","title":"Lipid and isoprenoid metabolism","description":"These proteins show a strong enrichment for lipid and isoprenoid-related pathways, including fatty acid elongation, very long-chain fatty acid and mycolic acid biosynthesis, phylloquinone catabolic and retinol metabolic processes, and related steroid biosynthesis (estrogen). Although antibiotic response terms appear, the dominant theme is lipid/isoprenoid metabolism, suggesting this label best captures the cluster\u2019s shared function.","confidence":"High","size":15,"edges":27,"triangles":18,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0046677","count":9},{"id":"GO:0030497","count":8},{"id":"GO:0031427","count":8},{"id":"GO:0042376","count":8},{"id":"GO:0006703","count":8}]},{"hash":"1594627330381711867","title":"RNA processing and translational regulation","description":"The proteins show a cohesive theme around RNA metabolism: regulatory ncRNA-mediated silencing, mRNA splicing and spliceosome regulation, mRNA tail processing, and translation control including reinitiation and IRES-dependent initiation, with connections to viral translation. This points to a cluster specialized in post-transcriptional gene expression control.","confidence":"High","size":15,"edges":41,"triangles":68,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":8},{"id":"GO:1903586","count":7},{"id":"GO:1902625","count":7},{"id":"GO:0060211","count":7},{"id":"GO:0002188","count":7}]},{"hash":"1523732911068220293","title":"Cardiometabolic Signaling and Thermogenesis","description":"This cluster centers on signaling and energy metabolism. The top GO terms include GPCR-mediated adenylate cyclase activation and signaling, suggesting cAMP-based hormonal signaling; electron transport chain activity pointing to mitochondrial energy production; and diet-induced thermogenesis and blood pressure regulation, linking metabolism with cardiovascular responses. Temperature response and pain perception imply broader physiological stress and sensory processing, while saliva secretion and inflammatory regulation indicate additional, less central roles. Overall, the core theme is metabolic signaling coupled to thermogenic and cardiometabolic regulation.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":13},{"id":"GO:0022900","count":13},{"id":"GO:0045777","count":13},{"id":"GO:0002024","count":11},{"id":"GO:0007190","count":11}]},{"hash":"424951922991901416","title":"Immune signaling with development cues","description":"The top GO terms are dominated by innate and adaptive immune responses and interferon signaling, suggesting the cluster mainly centers on immune signaling. While several development-related terms (axonogenesis, hair follicle morphogenesis, bone development) appear, they may reflect pleiotropic roles of immune-related proteins or broader regulatory functions. Overall, the immune signaling theme is strongest.","confidence":"Medium","size":15,"edges":14,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0007409","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0046328","count":2}]},{"hash":"738800879572439140","title":"Developmental Transcription and Cell Cycle Regulation","description":"This cluster centers on transcriptional control and cell cycle processes tied to development across diverse tissues, including mammary gland and gonadal differentiation, as well as meiosis-related chromosome pairing. The GO terms indicate DNA-templated transcription, regulation of transcription by RNA polymerase II, positive regulation of cyclin-dependent kinase activity, and cell division, suggesting a cohesive theme of transcriptional regulation coupled to proliferation and tissue differentiation.","confidence":"High","size":15,"edges":90,"triangles":283,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0045737","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0060749","count":6}]},{"hash":"885845696940892084","title":"ER-Golgi trafficking and actin dynamics","description":"Top terms emphasize ER\u2013Golgi tethering, ER-to-Golgi vesicle transport, retrograde transport, and actin filament branching, indicating a cohesive module of membrane trafficking coupled to cytoskeletal remodeling, with some neuronal context terms that align with trafficking and synaptic remodeling.","confidence":"High","size":15,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1990456","count":14},{"id":"GO:0043366","count":14},{"id":"GO:1902953","count":14},{"id":"GO:0035385","count":14},{"id":"GO:0051519","count":14}]},{"hash":"734716626898052319","title":"Ubiquitin-Proteasome Regulation of Mitosis","description":"These proteins cluster around ubiquitin-mediated protein degradation that governs mitosis: SCF-dependent and K11-linked ubiquitination, G2/M transition, exit from mitosis, and chromosome segregation. The dominant theme is proteolysis-driven cell-cycle control, with some peripheral terms (viral process, embryonic development) but overall it points to mitotic regulation via the ubiquitin-proteasome system.","confidence":"High","size":15,"edges":91,"triangles":312,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":15},{"id":"GO:0000086","count":15},{"id":"GO:0070979","count":13},{"id":"GO:0001701","count":13},{"id":"GO:0000278","count":13}]},{"hash":"1849885099035744764","title":"B cell receptor signaling and antibody production","description":"The top GO terms cluster around B cell receptor signaling, Fc receptor signaling, immunoglobulin production, and adaptive/innate immune responses, indicating a cohesive cluster of B cell\u2013driven immune activation and antibody production.","confidence":"High","size":15,"edges":79,"triangles":229,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900042","count":15},{"id":"GO:0050853","count":15},{"id":"GO:0038095","count":15},{"id":"GO:0002250","count":15},{"id":"GO:0045087","count":15}]},{"hash":"1385691258543126338","title":"Neural and glial development","description":"The top GO terms converge on development and differentiation of neural elements\u2014glial cells (astrocytes, Bergmann glia), nerve morphogenesis, and PNS axon regeneration\u2014supported by a regulatory (transcription) term. Some items like keratinocyte activation, muscle contraction, and hepatocyte apoptosis appear as broader or mixed signals, but the dominant theme is nervous system lineage specification and glial differentiation.","confidence":"Medium","size":15,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0021615","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0032980","count":2},{"id":"GO:0060020","count":2}]},{"hash":"618521924794290830","title":"Adaptive T/B cell signaling","description":"This cluster is dominated by GO terms tied to adaptive immune responses, including positive regulation of alpha-beta T cell proliferation, positive regulation of gamma-delta T cell differentiation, B cell receptor signaling pathway, and beta selection, indicating coordinated signaling and development of T and B cells. While a few terms like visual perception are present, the strong T/B cell activation and differentiation signals define the core theme.","confidence":"High","size":15,"edges":93,"triangles":326,"max_degree":14,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":15},{"id":"GO:0010765","count":15},{"id":"GO:0010571","count":15},{"id":"GO:0010954","count":15},{"id":"GO:0045588","count":15}]},{"hash":"391009208446349954","title":"Differentiation and Cytoskeletal Remodeling","description":"The top GO terms span several differentiation processes (keratinization, megakaryocyte and fat cell differentiation, neuron development) alongside cytoskeletal dynamics (lamellipodium morphogenesis, microtubule polymerization) and signaling (intracellular signal transduction, calcium release), suggesting a theme of lineage differentiation coupled with cytoskeletal remodeling and signal regulation.","confidence":"Medium","size":15,"edges":25,"triangles":11,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":4},{"id":"GO:0031175","count":3},{"id":"GO:0031116","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0035855","count":2}]},{"hash":"39040457562475288","title":"Telomere maintenance and PARP signaling","description":"The terms point to regulation of telomere maintenance (telomerase-driven maintenance, telomere capping, and telomere length regulation) combined with ADP-ribosylation processes (auto- and poly-ADP-ribosylation), i.e., PARP-related signaling pathways. While there are broader signaling terms present, the recurring theme centers on how PARP-mediated modifications influence telomere maintenance, suggesting a cohesive functional cluster around telomere regulation via PARP signaling.","confidence":"Medium","size":15,"edges":16,"triangles":2,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":2},{"id":"GO:1904908","count":2},{"id":"GO:0070213","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0070212","count":2}]},{"hash":"2169988305591567711","title":"Cardiac Valve Development and Transcription Regulation","description":"The cluster shows strong signals for heart valve formation (pulmonary valve morphogenesis; endocardial cushion to mesenchymal transition) along with broad transcriptional activity (RNA polymerase II transcription; DNA-templated transcription), suggesting a cohesive role in cardiac valve development driven by transcriptional control and associated mesodermal differentiation pathways.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0003184","count":7},{"id":"GO:0006351","count":6},{"id":"GO:0060766","count":6},{"id":"GO:2000820","count":6}]},{"hash":"2192813835154348676","title":"Cross-Species Hormone Biosynthesis and Development","description":"This cluster centers on hormone biosynthesis and related developmental processes, with terms like brassinosteroid homeostasis, ent-kaurene oxidation (a diterpenoid biosynthetic step), and cortisol biosynthesis, plus development terms (female gonad and mammary gland development). A few metabolic or stress-related terms appear, but the core theme is hormone production/regulation linked to development across species.","confidence":"Medium","size":15,"edges":23,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":4},{"id":"GO:0008585","count":3},{"id":"GO:0010241","count":3},{"id":"GO:0030879","count":3},{"id":"GO:0032259","count":3}]},{"hash":"2300030550368726584","title":"Membrane organization and signaling","description":"This cluster centers on membrane-related processes: lipid droplet organization, membrane raft polarization, tight junction assembly, and transcytosis all point to membrane organization and trafficking. Additional terms involve regulation of signaling (PKC pathway) and surface-dependent apoptosis, with some context in nervous system plasticity and immune cell differentiation. The proteins likely participate in membrane-associated signaling and trafficking across diverse cell types, rather than a single specific pathway.","confidence":"Medium","size":15,"edges":14,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0034389","count":2},{"id":"GO:0090038","count":1},{"id":"GO:1902043","count":1},{"id":"GO:0045056","count":1}]},{"hash":"1055392162006550287","title":"Unknown","description":"The top terms are diverse, spanning ER-stress\u2013related translation initiation, redox homeostasis, nuclear export, DNA replication, and tRNA import, with several items obsolete, offering no single cohesive function to bind the cluster. This heterogeneity makes a specific, representative label unlikely.","confidence":"","size":15,"edges":11,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0097428","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0046825","count":2},{"id":"GO:0036494","count":2}]},{"hash":"510618846355234086","title":"T cell Activation and Adaptive Immunity","description":"The cluster\u2019s top GO terms are dominated by adaptive immune functions: adaptive immune response, positive regulation of T cell proliferation, and T cell costimulation, indicating a core theme of T cell activation and adaptive immune signaling. Supporting terms like defense response to bacterium and peptidoglycan catabolic process suggest antimicrobial context, while other terms (ion transport, excitatory postsynaptic potential) may reflect broader or mixed annotations. Overall, the strongest signal is immune activation related to T cells, justifying the label. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":3},{"id":"GO:2000649","count":3},{"id":"GO:0042102","count":3},{"id":"GO:0031295","count":3},{"id":"GO:0002250","count":3}]},{"hash":"1741825862610044353","title":"Cardiac and skeletal muscle signaling and development","description":"These proteins cluster around muscle biology and calcium\u2011dependent signaling: skeletal and cardiac muscle development, ventricular morphogenesis, regulation of cardiac muscle contraction via calcium release, calcium detection, and phosphorylation/dephosphorylation control of signaling pathways. A single outlier term for visual perception is likely noise; overall, the theme is muscle contraction regulation and development through calcium signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006469","count":9},{"id":"GO:0007601","count":8},{"id":"GO:0048741","count":8},{"id":"GO:0043388","count":8},{"id":"GO:0005513","count":8}]},{"hash":"1463282745727498329","title":"Cytoskeletal organization with centrosome and cilium assembly","description":"The cluster\u2019s top GO terms cluster around actin regulation (barbed-end capping, filopodium dynamics), cilium assembly, centrosome maintenance, and mitotic cytokinesis, pointing to a cytoskeleton-centric role in cell shape, movement, and division. Immune terms are present but less central, suggesting the core theme is cytoskeletal organization with links to cell division and ciliogenesis.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051016","count":2},{"id":"GO:0090286","count":2},{"id":"GO:1905515","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0051661","count":2}]},{"hash":"2264030890471312571","title":"Developmental Processes and Cell Cycle","description":"The top GO terms cover organ development (liver, kidney), signaling (androgen receptor pathway), and core cell-cycle processes (cell division, mitotic cell cycle), plus neuronal morphology and cytoskeleton-related changes. This mix suggests a broad theme of developmental regulation intertwined with cell proliferation and cellular organization, rather than a single precise function. Confidence: Medium","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000171","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0030521","count":3},{"id":"GO:0001889","count":3},{"id":"GO:0000278","count":3}]},{"hash":"618360444138354575","title":"Adaptive immune receptor signaling and T cell development","description":"The top GO terms point to adaptive immune signaling and lymphocyte development: positive regulation of T cell proliferation, gamma-delta T cell differentiation, beta selection, and B cell receptor signaling. These together suggest a cluster enriched for T/B cell receptor signaling and development processes, with accompanying cell-cycle and protein-processing regulation. The lone visual perception term appears as an outlier rather than a defining feature. ","confidence":"High","size":15,"edges":67,"triangles":142,"max_degree":13,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":15},{"id":"GO:0010765","count":15},{"id":"GO:0010571","count":15},{"id":"GO:0010954","count":15},{"id":"GO:0045588","count":15}]},{"hash":"119515102580865525","title":"Hormone biosynthesis and development","description":"The top GO terms cluster around hormone production (cortisol biosynthetic process; brassinosteroid homeostasis; ent-kaurene oxidation to kaurenoic acid) and developmental programs (female gonad development; mammary gland development; hepatocyte differentiation). Additional terms on methylation and stress/inflammatory regulation suggest broader regulatory roles, but the dominant theme is hormone-related biosynthesis linked to developmental processes, spanning multiple species. ","confidence":"Medium","size":15,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":7},{"id":"GO:0010241","count":7},{"id":"GO:0030879","count":7},{"id":"GO:0032259","count":7},{"id":"GO:0035902","count":7}]},{"hash":"1591565186114768091","title":"Actin Remodeling and Cell Migration","description":"These proteins converge on actin cytoskeleton dynamics, with strong representation of actin organization, lamellipodium and filopodium assembly, cell migration, and adhesion-dependent spreading, all governed by small GTPase signaling. A few immune-development terms appear but do not outweigh the core theme of actin-driven motility and adhesion processes that likely coordinate movement and morphogenesis.","confidence":"High","size":15,"edges":14,"triangles":0,"max_degree":14,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030036","count":13},{"id":"GO:0007507","count":13},{"id":"GO:0001865","count":13},{"id":"GO:0016477","count":13},{"id":"GO:0002344","count":13}]},{"hash":"1799874816309407257","title":"Embryonic Development and Organ Morphogenesis","description":"These proteins are enriched for GO terms related to embryogenesis and tissue/organ morphogenesis, including palate development, placenta and pancreatic lineage development, cartilage formation, left-right patterning, and heart-related EMT in endocardial cushion formation. The inclusion of transcriptional regulation and mRNA splicing terms suggests these proteins participate in the regulatory programs that drive development. Overall, the cluster points to embryonic development and organ morphogenesis as the core theme.","confidence":"High","size":15,"edges":19,"triangles":10,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":8},{"id":"GO:0000122","count":8},{"id":"GO:0060806","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0035270","count":7}]},{"hash":"1883457479704836462","title":"Neurotransmitter Biosynthesis and Circadian Signaling","description":"This cluster's GO terms cluster around neural chemistry and signaling: taurine, glutamate, serotonin and dopamine biosynthesis, and calcium-mediated signaling, all central to neuronal communication. The inclusion of circadian rhythm and anesthesia-resistant memory points to links between neural signaling and timing/plasticity. Alkaloid-related metabolism and cellular response to alkaloids may reflect broader neuroactive compound processing, rather than non-neural metabolism. Overall, the proteins likely participate in neurotransmitter biosynthesis, calcium signaling, and circadian-regulated neural processes.","confidence":"Medium","size":15,"edges":99,"triangles":382,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042412","count":6},{"id":"GO:0006538","count":6},{"id":"GO:0006587","count":6},{"id":"GO:0071312","count":6},{"id":"GO:0006585","count":6}]},{"hash":"1716940637101458930","title":"Actin cytoskeleton remodeling and lamellipodium formation","description":"The top terms are dominated by actin-related processes: actin crosslink formation, lamellipodium assembly, actin filament network formation, and actin filament-based movement, indicating a theme of actin remodeling driving cell motility and neurite projection. A few immune signaling terms appear but are subordinate to the strong cytoskeletal motif, suggesting the cluster centers on actin-driven motility and neuron projection development.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051764","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0051639","count":2},{"id":"GO:0030048","count":2}]},{"hash":"2021654017769739072","title":"Vacuolar amino acid transport","description":"Proteins here are strongly linked to importing amino acids into the vacuole (proline, serine, arginine, glutamate, tyrosine, lysine, asparagine) and related export processes, suggesting a cohesive role as vacuolar amino acid transporters in plants. The single outlier term for root cap development likely reflects tissue specificity rather than function, but the core signal points to vacuolar amino acid transport. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015824","count":4},{"id":"GO:0090516","count":3},{"id":"GO:0090518","count":3},{"id":"GO:0048829","count":3},{"id":"GO:0006867","count":3}]},{"hash":"1880574176619832829","title":"Ubiquitin-Proteasome Regulation of Cell Cycle and Circadian Rhythm","description":"Dominant GO terms point to ubiquitin-dependent proteolysis (including SCF-mediated degradation) and cell-cycle control, with a clear nod to circadian rhythm regulation. Microtubule dynamics and developmental processes like oocyte maturation appear related, and stress-response terms are present, but the core theme is proteostasis linked to cell-cycle and circadian regulation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0042752","count":9},{"id":"GO:0060386","count":7},{"id":"GO:0001556","count":6},{"id":"GO:0031146","count":6}]},{"hash":"784934580390761711","title":"Mammary development and lactation signaling","description":"These proteins show recurring GO terms tied to hormone response and lactation (response to progesterone, lactation) along with signals of tissue remodeling (extrinsic apoptotic signaling, regulation of proliferation). While some terms are general cellular processes (mRNA capping, GTPase activity, mitotic nuclear membrane events), the strongest shared theme appears to be hormone-driven mammary gland development and lactation-related signaling. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006370","count":2},{"id":"GO:0048820","count":2},{"id":"GO:0007084","count":2},{"id":"GO:0048147","count":2},{"id":"GO:0006915","count":2}]},{"hash":"106083825436834072","title":"Pollen tube vesicle trafficking and polarity","description":"The top GO terms cluster around vesicle transport between the Golgi and plasma membrane, exocyst assembly, and maintenance of cell polarity, with pollen-related terms (acceptance of pollen and pollen tube growth) indicating a plant reproductive context. While a few terms are less connected (spliceosomal assembly, cytokinesis), the dominant theme is secretory trafficking and polarity in plant cells, particularly related to pollen tube growth. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035024","count":2},{"id":"GO:0045199","count":1},{"id":"GO:0060321","count":1},{"id":"GO:0006891","count":1},{"id":"GO:0032258","count":1}]},{"hash":"1877819590593802921","title":"Pancreatic beta-cell development and insulin secretion","description":"The cluster\u2019s top GO terms converge on endocrine pancreas development, beta-cell differentiation/maturation, and regulation of insulin secretion in response to glucose, suggesting a cohesive theme around pancreatic beta-cell lineage and function. Some neural development and cilium-related terms are present but appear less central to the cluster\u2019s core signal.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021516","count":1},{"id":"GO:0021537","count":1},{"id":"GO:0003309","count":1},{"id":"GO:0060287","count":1},{"id":"GO:0072560","count":1}]},{"hash":"1230852250670299725","title":"Actin Cytoskeleton and Endocytosis","description":"This cluster is defined by actin-related processes: actin filament polymerization, cortical patch assembly/localization, and regulation of endocytosis, which together drive phagocytosis, cell shape, and polarity. While a few terms (developmental and chromatin-related) are less connected, the dominant theme is actin-driven cytoskeleton remodeling and membrane trafficking.","confidence":"High","size":14,"edges":53,"triangles":118,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":8},{"id":"GO:0021762","count":8},{"id":"GO:0006909","count":7},{"id":"GO:0071963","count":7},{"id":"GO:0006348","count":7}]},{"hash":"2055592504830144781","title":"Kinase signaling and vesicle trafficking","description":"This cluster shows multiple signals of phosphorylation-dependent regulation (protein autophosphorylation) and vesicle trafficking control (endocytosis and negative regulation of exocytosis), pointing to a core role in phosphorylation-driven signaling that governs membrane trafficking. Developmental terms like nervous system development and spermatid differentiation suggest broader signaling roles in development, while nucleotide biosynthesis and redox terms may reflect metabolic support for these processes. Overall, the prevalent theme is kinase-mediated signaling linked to vesicle transport.","confidence":"Medium","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006241","count":4},{"id":"GO:0006183","count":4},{"id":"GO:0046777","count":4},{"id":"GO:0007399","count":4}]},{"hash":"1925534741540442939","title":"Telomere maintenance and cell-cycle regulation","description":"The strongest signals are telomere maintenance via telomerase and positive regulation of telomerase activity, plus positive regulation of nuclear cell cycle DNA replication, suggesting a module focused on genome stability and replication control. Peptidyl-threonine phosphorylation indicates kinase-driven regulation, while cellular responses to nitric oxide reflect broader signaling; some terms appear unrelated (e.g., salvage pathways) and may be noise. Overall, the cluster centers on telomere maintenance and cell-cycle regulation with connected signaling. ","confidence":"Medium","size":14,"edges":63,"triangles":149,"max_degree":13,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0051973","count":4},{"id":"GO:0032212","count":4},{"id":"GO:0018107","count":4},{"id":"GO:0071732","count":4},{"id":"GO:0019284","count":4}]},{"hash":"1830960247571503245","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":78,"triangles":250,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0000462","count":5},{"id":"GO:0042254","count":3},{"id":"GO:0042273","count":3},{"id":"GO:0031564","count":3}]},{"hash":"1185924806265600314","title":"Actin Cytoskeleton Remodeling and Signaling in Development","description":"The cluster is driven by actin cytoskeleton organization and associated signaling (Rho, JNK, kinase regulation) with supporting links to innate immunity and developmental processes (bone and uterus development) as well as synaptic signaling, suggesting a cohesive role for cytoskeleton-mediated signal transduction across development and immune contexts.","confidence":"Medium","size":14,"edges":16,"triangles":3,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060348","count":7},{"id":"GO:0014068","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0035023","count":5},{"id":"GO:0006469","count":5}]},{"hash":"2265505009564284073","title":"Embryogenesis and tissue morphogenesis","description":"The top GO terms cluster around developmental and morphogenetic processes: embryonic body morphogenesis, neural plate development, endodermal fate commitment, and anisotropic cell growth, along with cell migration and organ identity maintenance. While there are some general cell division terms, the dominant theme is embryonic development and tissue shaping, suggesting proteins involved in patterning and morphogenesis rather than a single metabolic or signaling pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":5},{"id":"GO:0000011","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0051754","count":5},{"id":"GO:0048496","count":5}]},{"hash":"478061601134309227","title":"Neural development and cell-cycle regulation","description":"This cluster is enriched for nervous system development and neuron-related processes (nervous system development; positive regulation of neuron apoptotic process) alongside core cell-division activities (cell division; mitotic cell cycle; mitotic spindle assembly; cell population proliferation). The presence of growth and MAPK signaling (positive regulation of ERK1/ERK2 cascade) and vesicle trafficking steps (COPII-coated vesicle budding; retrograde transport from Golgi to ER) suggests a coordinated program linking neuronal development and proliferation with secretory pathway dynamics.","confidence":"Medium","size":14,"edges":57,"triangles":96,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0007399","count":10},{"id":"GO:0000278","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0043525","count":9}]},{"hash":"1653619244808918002","title":"Cytokinesis and Cytoskeleton Dynamics","description":"This cluster\u2019s top GO terms center on cell division and cytoskeletal remodeling\u2014mitotic cytokinesis, meiotic chromosome movement toward the spindle pole, maintenance of cell polarity, and actin-dependent processes like phagocytosis and platelet aggregation\u2014pointing to regulation of the cytoskeleton during division and shape changes. Some terms are obsolete or peripheral (e.g., aging, DNA unwinding), but the core theme is clear.","confidence":"Medium","size":14,"edges":36,"triangles":49,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000281","count":7},{"id":"GO:0016344","count":7},{"id":"GO:0043981","count":7},{"id":"GO:0000001","count":7},{"id":"GO:0001300","count":7}]},{"hash":"2099884313619134840","title":"Integrin-mediated signaling and leukocyte migration","description":"Top terms cluster around integrin-related signaling, neutrophil chemotaxis, phagocytosis regulation, and cytoskeletal control (Rho/Ras), with supporting ECM remodeling (hyaluronan metabolism) and lymphocyte signaling, indicating a cohesive theme of leukocyte activation and movement guided by integrin pathways.","confidence":"Medium","size":14,"edges":5,"triangles":1,"max_degree":4,"top_function":"wound healing","top_go_terms":[{"id":"GO:0060325","count":7},{"id":"GO:0007229","count":7},{"id":"GO:0030593","count":7},{"id":"GO:0046580","count":7},{"id":"GO:0035023","count":7}]},{"hash":"2081307588726898385","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":9},{"id":"GO:0048026","count":9},{"id":"GO:1903608","count":7},{"id":"GO:0006369","count":7},{"id":"GO:0034476","count":6}]},{"hash":"99204806512303590","title":"Neuronal synapse development and organization","description":"The top terms cluster around neuronal development and synaptic processes: dendritic spine morphogenesis, synapse organization, positive regulation of synapse assembly, corpus callosum development, and nervous system development (with Robo signaling). A few terms reference innate immunity, but the dominant signal is synapse formation and neural development, supporting a coherent neuronal-function theme.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060997","count":7},{"id":"GO:0050808","count":7},{"id":"GO:1903351","count":7},{"id":"GO:0051965","count":7},{"id":"GO:0022038","count":7}]},{"hash":"1425986878504019162","title":"Dopaminergic Reward Signaling and Sensory Processing","description":"The top GO terms cluster around neural signaling and reward-related activity, notably dopaminergic synaptic transmission, ERK1/2 cascade\u2013mediated plasticity, and behavioral responses to cocaine and morphine. Visual perception and visual learning terms suggest sensory processing involvement, potentially via dopamine pathways in vision or broader neural circuits. A few terms (e.g., macrophage chemotaxis) are peripheral, but the dominant theme is dopamine-driven neural signaling and drug-induced behavioral responses.","confidence":"High","size":14,"edges":37,"triangles":19,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":14},{"id":"GO:0007507","count":14},{"id":"GO:0070374","count":14},{"id":"GO:0048148","count":14},{"id":"GO:0043278","count":14}]},{"hash":"2123187009088997007","title":"Mitochondrial metabolite and ion transport","description":"This cluster\u2019s top GO terms largely describe transmembrane transport of various substrates and cofactors across the mitochondrial membrane (deoxynucleotides, NAD, thiamine pyrophosphate, manganese, iron, ATP, ornithine), along with regulation of mitochondrial membrane permeability. This pattern suggests a cohesive theme of mitochondrial transport and maintenance rather than a single pathway.","confidence":"High","size":14,"edges":20,"triangles":6,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0046902","count":8},{"id":"GO:0030302","count":7},{"id":"GO:0060546","count":7},{"id":"GO:0035352","count":7},{"id":"GO:0006828","count":7}]},{"hash":"1696440136225048239","title":"Vertebrate developmental transcriptional regulators","description":"The top GO terms include negative regulation of transcription by RNA polymerase II, along with multiple embryonic and neural development terms (midbrain and cerebellum development, in utero embryonic development, trigeminal ganglion development, visual perception). This points to proteins that regulate gene expression during vertebrate development, spanning neural and other embryonic tissues, rather than a single pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":4},{"id":"GO:0021549","count":3},{"id":"GO:0002087","count":3},{"id":"GO:0001701","count":3}]},{"hash":"2206582165535273823","title":"Synaptic vesicle cycling and actin remodeling","description":"The cluster is enriched for terms tied to clathrin-dependent endocytosis, intracellular protein transport, synaptic vesicle coating, and long-term synaptic depression, pointing to vesicle recycling and trafficking at synapses. The actin nucleation and actin filament network formation terms suggest coordinated cytoskeletal remodeling essential for vesicle mobilization and neurotransmitter release, aligning with synaptic plasticity processes like LTD. Some terms such as centrosome localization, gene expression, and female gamete generation appear less directly connected and may reflect broader cellular roles or annotation noise, but the dominant signal supports a synaptic vesicle and actin dynamics theme.","confidence":"High","size":14,"edges":34,"triangles":32,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0060292","count":5},{"id":"GO:0072583","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0016183","count":4},{"id":"GO:0051660","count":4}]},{"hash":"128853243395662369","title":"Innate Immune Activation and Leukocyte Recruitment","description":"Top GO terms cluster around leukocyte adhesion/migration (tethering/rolling, cell adhesion molecule production), phagocytosis recognition, Fc receptor signaling, complement activation via the lectin pathway, and inflammatory mediator dynamics (arachidonate secretion). This points to a coordinated innate immune response with leukocyte recruitment and effector engagement. Oxidative stress-related senescence may reflect cellular stress in the immune context, but the dominant theme remains innate immune activation and leukocyte trafficking.","confidence":"High","size":14,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":11},{"id":"GO:0006910","count":11},{"id":"GO:0060355","count":11},{"id":"GO:0050901","count":11},{"id":"GO:0038094","count":11}]},{"hash":"1588440907697245892","title":"Skin and vascular development","description":"The cluster's top GO terms center on skin development and angiogenesis, with multicellular development and hypoxia response reinforcing a tissue-formation theme. While some terms are general (memory, mRNA transport, kinase activity regulation), the strongest signals point to processes governing skin formation and vascular remodeling, suggesting these proteins participate in developmental signaling in skin/vasculature. The lack of protein\u2013protein edges implies a loosely connected set of factors contributing to this broader developmental theme.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043588","count":5},{"id":"GO:0070208","count":4},{"id":"GO:0010745","count":3},{"id":"GO:0032516","count":3},{"id":"GO:0007613","count":3}]},{"hash":"1197048722552423243","title":"Membrane signaling and trafficking","description":"Top terms point to membrane-associated signaling and trafficking processes (transcytosis, raft polarization, tight junctions) and modulation of signaling pathways (PKC, death receptor\u2013mediated apoptosis). Immune and neural terms reflect diverse cell types but share the theme of surface/secreted signaling and membrane trafficking.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090038","count":1},{"id":"GO:1902043","count":1},{"id":"GO:0045056","count":1},{"id":"GO:0001766","count":1},{"id":"GO:0007605","count":1}]},{"hash":"1845771377141898546","title":"Hormone biosynthesis and development","description":"The top GO terms cluster around hormone production (cortisol biosynthesis, brassinosteroid homeostasis) and hormone-dependent development (female gonad and mammary gland development). Some terms touch on cell cycle regulation and stress, but the strongest shared theme is hormone-related biosynthesis and developmental processes across organisms, justifying a hormone-development label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900087","count":5},{"id":"GO:0008585","count":3},{"id":"GO:0010241","count":3},{"id":"GO:0030879","count":3},{"id":"GO:0032259","count":3}]},{"hash":"1191106951580531971","title":"Neuronal Ion Channels and Synaptic Signaling","description":"These proteins cluster around neural signaling and excitability: sodium and potassium ion transport, GABA signaling, and excitatory postsynaptic potential, with associated behaviors like locomotion and conditioned taste aversion. The overarching theme is neuronal signaling and learning-related behavioral responses. Some terms appear as noise (peptidoglycan catabolic process, obsolete MAPK activation) but do not obscure the main neural function signal.","confidence":"High","size":14,"edges":19,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":14},{"id":"GO:0007214","count":13},{"id":"GO:0071805","count":13},{"id":"GO:0060079","count":13},{"id":"GO:0007626","count":13}]},{"hash":"177577773670516532","title":"Neural development and synaptic transmission","description":"The dominant terms point to brain development, synapse assembly, and both glutamatergic and GABAergic transmission, with supporting roles in cell adhesion and tract morphogenesis, suggesting a cohesive cluster of proteins involved in CNS development and synaptic signaling.","confidence":"High","size":14,"edges":11,"triangles":0,"max_degree":11,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007156","count":13},{"id":"GO:0007416","count":13},{"id":"GO:0035249","count":13},{"id":"GO:0007420","count":13},{"id":"GO:0007157","count":13}]},{"hash":"497606293124618895","title":"Innate Immune NF-kappaB Signaling","description":"The terms cluster around lipopolysaccharide signaling, innate immune response, and NF-kappaB activation, with supporting roles for autophagy, PI3K/AKT signaling, and anti-apoptotic regulation; this suggests a cohesive module centered on inflammatory signaling and transcriptional control.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031663","count":5},{"id":"GO:0045766","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0051897","count":4},{"id":"GO:0045087","count":3}]},{"hash":"147008692631618533","title":"Mitotic spindle and cell polarity regulation","description":"The cluster's top GO terms are dominated by mitosis-related processes (mitotic spindle assembly, mitotic cell cycle, spindle orientation signaling) and cell polarity control (establishment/maintenance of cell polarity, regulation of cell shape, asymmetric division). A few terms touch neural development and immune signaling, but the recurring pattern centers on cell division and polarity, suggesting proteins that participate in coordinating mitosis and cell architecture.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0071963","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0031578","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1889913287635028726","title":"Dopaminergic Visual Perception and Learning Signaling","description":"This cluster is dominated by GO terms related to visual perception and visual learning, along with dopaminergic synaptic transmission and behavioral responses to cocaine, which point to neural signaling in sensory and reward pathways. The inclusion of ERK1/2 cascade regulation and protein phosphorylation suggests common neuronal signaling mechanisms underlying these processes. While a few terms (e.g., heart development, macrophage chemotaxis) are less central, the central theme appears to be neural sensory processing and dopamine-associated signaling.","confidence":"High","size":14,"edges":13,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":6},{"id":"GO:0048148","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0010759","count":6},{"id":"GO:0019233","count":6}]},{"hash":"2220373117482052026","title":"Broad Regulators of Cellular Processes","description":"The top GO terms are dominated by various \"positive regulation\" and regulatory actions across diverse biological contexts, including protein stability, targeting to membranes, sperm capacitation, differentiation, cytoskeleton dynamics, immune cell function, ion transport, DNA replication, and protein processing. This pattern suggests the cluster consists of proteins that regulate multiple cellular pathways rather than a single, unified function.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0031647","count":8},{"id":"GO:0090314","count":8},{"id":"GO:0048240","count":8},{"id":"GO:0030216","count":8},{"id":"GO:0031532","count":8}]},{"hash":"159065680197654743","title":"Neural development and synaptic function","description":"The top GO terms point to nervous system development and synaptic activity, including positive regulation of synapse assembly, GABAergic synaptic transmission, corticospinal tract morphogenesis, inner ear development, and locomotory behavior. While there is one immune-related term (marginal zone B cell differentiation) that seems out of place, the dominant pattern is neural development and synaptic signaling, suggesting a cluster of proteins involved in neural differentiation and synaptic function. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0002315","count":5},{"id":"GO:0045176","count":5},{"id":"GO:0051965","count":4},{"id":"GO:0048839","count":4},{"id":"GO:0070445","count":3}]},{"hash":"91323822006532627","title":"Inflammatory and oxidative stress response","description":"The GO terms show a strong enrichment for cellular responses to hydrogen peroxide, TNF, IL-1, virus, lipopolysaccharide, and xenobiotic stimuli, pointing to a core theme of immune and oxidative stress signaling. A few terms relate to development, but the dominant pattern ties to stress-induced inflammatory responses.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":7},{"id":"GO:0071356","count":6},{"id":"GO:0071347","count":6},{"id":"GO:0042493","count":6},{"id":"GO:0009615","count":5}]},{"hash":"611083709349736894","title":"Embryonic development and tissue morphogenesis","description":"The GO terms are dominated by developmental and morphogenetic processes: placenta and trophoblast differentiation, cartilage morphogenesis, pancreatic cell development, left/right patterning, and EMT involved in heart structures, with Wnt signaling and epigenetic regulation also represented. Together they indicate a cluster involved in embryonic development and tissue morphogenesis.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0003323","count":4}]},{"hash":"411841974818945995","title":"Cardiac development and mechanotransduction","description":"Top GO terms show a strong emphasis on cardiac development, cardiac muscle contraction, and response to mechanical stimulus, with supporting roles for Rho GTPase signaling and PI3K/AKT pathway activity. This pattern suggests a cluster of proteins involved in heart formation and mechanosensitive signaling, rather than a general cytoskeletal or neural-only function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0000278","count":3}]},{"hash":"2225894224730670903","title":"Cofactor Biosynthesis and Metabolic Pathways","description":"The proteins show enrichment for biosynthesis of essential cofactors (thiamine, molybdenum cofactor, protoporphyrin/heme) and related metabolic processes (sulfate assimilation, flavonoid metabolism), with additional redox and stress-response terms, pointing to a cluster centered on metabolism and redox-related cofactor production.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000103","count":2},{"id":"GO:0036245","count":2},{"id":"GO:0009228","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0009812","count":2}]},{"hash":"2202012186596583123","title":"Rho GTPase\u2013driven actin dynamics","description":"The top GO terms cluster around actin cytoskeleton regulation, specifically negative regulation of Arp2/3-mediated actin nucleation and regulation of Rho GTPase signaling, with positive regulation of GTPase activity. This points to coordinated actin remodeling controlled by Rho family GTPases as the core theme, even though a few terms relate to differentiation or other processes that may reflect broader cellular roles or annotations. Confidence: Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034316","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0021707","count":1}]},{"hash":"1954595766310812692","title":"Neuronal development and synaptic signaling","description":"Most terms point to neural development and neuronal signaling: neuroblast division in the subventricular zone, ventral spinal cord development, radial glia\u2013guided migration of Purkinje cells, and regulation of AMPA receptor activity\u2014all hallmarks of neuronal differentiation and synaptic function. A few terms (L-serine biosynthesis, ossification, androgen receptor signaling) are less central but may reflect broader metabolic or regulatory contexts. Overall, the cluster appears to group neural development and synaptic components, hence the label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030279","count":2},{"id":"GO:0006564","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0021849","count":2},{"id":"GO:0021517","count":2}]},{"hash":"364642153150697940","title":"Unknown","description":"This set includes diverse terms covering immune/inflammatory regulation, neural processing (prepulse inhibition, operant conditioning), secretory functions (saliva secretion), vascular dynamics (vasoconstriction, smooth muscle contraction), tissue development (lung connective tissue development), and even visual perception, plus an unrelated peptidoglycan catabolic term. There is no single coherent biological theme uniting these functions, and the cluster has no apparent interactions, so a meaningful, specific label cannot be assigned. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":14},{"id":"GO:0035106","count":14},{"id":"GO:0046541","count":14},{"id":"GO:0009253","count":14},{"id":"GO:0014829","count":14}]},{"hash":"1003831998671613385","title":"Neural and lens development","description":"This cluster\u2019s top GO terms center on neural differentiation (neuron projection development, spinal cord development) and lens/eye differentiation (lens fiber cell differentiation), alongside broader multicellular and skeletal development. While some terms reference general cellular processes (COPII vesicle budding, TORC1 signaling), the prominent developmental and neuro-ocular terms suggest a cohesive theme of neural and lens/eye development during organogenesis.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0090114","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0021510","count":2}]},{"hash":"1091343961600189306","title":"ECM Collagen Organization and TLR Signaling","description":"This cluster is enriched for collagen fibril organization and connective tissue development (ECM) terms, indicating an extracellular matrix theme, alongside innate immune signaling (TLR pathways, IL-18 production) and autophagy regulation, suggesting a link between ECM remodeling and innate immunity.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0034162","count":3},{"id":"GO:0032741","count":3},{"id":"GO:0060427","count":3},{"id":"GO:0016239","count":3}]},{"hash":"1994382930130606908","title":"Vesicle trafficking and autophagy","description":"This cluster centers on vesicle formation and transport (clathrin coat assembly, intracellular transport) and autophagy, with proteins localized to the Golgi, plasma membrane, and phagophore assembly site, indicating a vesicle trafficking/autophagy module. A few cell cycle terms appear but are not central to the main theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016192","count":1},{"id":"GO:0048268","count":1},{"id":"GO:0006914","count":1},{"id":"GO:1900126","count":1},{"id":"GO:0000278","count":1}]},{"hash":"1681379018805850805","title":"Mitotic spindle and chromosome segregation","description":"The majority of GO terms point to mitosis-related processes (mitotic cell cycle, spindle assembly, centrosome cycle, cohesion, chromosome segregation), indicating this cluster is dominated by mitotic machinery. A few non-mitotic terms appear but are minor and do not define the cluster. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0051225","count":1},{"id":"GO:0007098","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0042984","count":1}]},{"hash":"427346910703396302","title":"B cell signaling and innate immunity","description":"The top GO terms are dominated by GOs for B cell receptor signaling, positive regulation of B cell proliferation, and innate immune response, with endocytosis also represented, suggesting a cluster enriched for B cell activation and antigen uptake. While others relate to thymus development, axonogenesis, and stress-related pathways, the prevailing theme centers on immune signaling and endocytic processing, making this a representative name for the cluster.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0014911","count":3},{"id":"GO:1902237","count":3},{"id":"GO:0048538","count":3},{"id":"GO:0030890","count":3}]},{"hash":"1744892985958997679","title":"Unknown","description":"The top terms span muscle and brain development, various cell division processes, chromatin modification, organelle inheritance, aging, phagocytosis, platelet aggregation, and DNA unwinding, with no clear common function tying them together. This cluster therefore does not map to a single cohesive biological theme.","confidence":"","size":13,"edges":70,"triangles":206,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0000281","count":3},{"id":"GO:0016344","count":3},{"id":"GO:0043981","count":3}]},{"hash":"1518377712981667848","title":"Mitochondrial electron transport and protein import","description":"The cluster is dominated by GO terms tied to mitochondrial energy metabolism and protein handling within mitochondria: proton transmembrane transport, NADH to ubiquinone and ubiquinol to cytochrome c electron transport steps, complex II assembly, and import of proteins into the mitochondrial inner membrane and matrix. A chloroplast import term appears, but the overall pattern centers on oxidative phosphorylation and mitochondrial biogenesis, suggesting these proteins collaborate in mitochondrial respiration and assembly. ","confidence":"High","size":13,"edges":69,"triangles":208,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":4},{"id":"GO:0034553","count":3},{"id":"GO:0006120","count":3},{"id":"GO:0045039","count":2},{"id":"GO:0032094","count":2}]},{"hash":"1163892230404282934","title":"Mitochondrial respiration and brain development","description":"The cluster centers on mitochondrial energy metabolism, with GO terms for electron transport chain, ATP synthesis driven by proton motive force, and complex I assembly, indicating a core mitochondrial function. The presence of brain-related terms (brain development, substantia nigra development) suggests potential neural tissue relevance or roles in neural maturation. A translation term appears but may reflect mitochondrial or general protein synthesis; overall, the dominant signal is mitochondrial respiration with a possible neural development association.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0015986","count":1},{"id":"GO:0021762","count":1},{"id":"GO:0035167","count":1},{"id":"GO:0032981","count":1}]},{"hash":"89579905910544798","title":"RNA processing and translation regulation","description":"The top GO terms cluster around post-transcriptional gene expression control: regulation of mRNA stability, mRNA splicing via the spliceosome, splice site recognition, ncRNA-mediated gene silencing, poly(A) tail regulation, and translation initiation/reinitiation (including IRES-dependent initiation). This pattern points to a cohesive theme of mRNA processing and translation control rather than transcriptional regulation, justifying a label focused on RNA processing and translation regulation.","confidence":"High","size":13,"edges":60,"triangles":162,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:1903586","count":6},{"id":"GO:1902625","count":6}]},{"hash":"2202308182835641704","title":"Centromere assembly and mitotic division factors","description":"This cluster is anchored by the CENP-A containing chromatin assembly term, linking centromere identity to chromosome segregation. Additional signals for DNA replication, cell division, and microtubule severing point to a cohesive set of proteins involved in chromosome handling and spindle dynamics during mitosis, even though some vesicle/ER-Golgi terms may reflect broader cellular processes or annotation noise.","confidence":"High","size":13,"edges":67,"triangles":193,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0070651","count":4},{"id":"GO:0051013","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1955644677860854567","title":"Cerebellar Synaptic Plasticity and Signaling","description":"The cluster is dominated by neuronal signaling and plasticity terms, notably excitatory postsynaptic potential and regulation of long-term synaptic plasticity, plus cerebellar granule cell differentiation, pointing to cerebellar neurons undergoing synaptic modulation and sensory processing. ERK cascade regulation supports signaling dynamics in this context, with additional trafficking-related terms present but not central to the core theme.","confidence":"High","size":13,"edges":12,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":5},{"id":"GO:0050975","count":5},{"id":"GO:0048169","count":5},{"id":"GO:0045471","count":4},{"id":"GO:0070374","count":3}]},{"hash":"592880211104128183","title":"Multicellular development and tissue differentiation","description":"The cluster\u2019s terms converge on developmental processes across tissues and organs (multicellular organism development, skin development, ossification/bone maturation, kidney tubule development), suggesting a general theme of tissue formation and organ differentiation. Some terms about hypoxia response and neurotransmitter secretion may reflect broader signaling contexts, but the dominant pattern is developmental differentiation across tissues.","confidence":"High","size":13,"edges":39,"triangles":46,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006919","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0043588","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0072221","count":3}]},{"hash":"867340140403729769","title":"RNA processing and translation control","description":"This cluster is enriched for post-transcriptional RNA regulation features: mRNA splicing via spliceosome, splice-site recognition, poly(A) tail regulation, and translation initiation/reinitiation (including IRES-dependent events). The convergence on splicing and translational control suggests a cohesive RNA processing/translation function across these proteins.","confidence":"High","size":13,"edges":54,"triangles":100,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1903586","count":13},{"id":"GO:1902625","count":13},{"id":"GO:0060211","count":13},{"id":"GO:0002188","count":13},{"id":"GO:0048026","count":13}]},{"hash":"491511831676101618","title":"Mitochondrial translation and oxidative phosphorylation","description":"This cluster is enriched for GO terms related to mitochondrial translation (ribosomal components/assembly) and the electron transport chain with ATP synthesis, pointing to mitochondrial protein synthesis and oxidative phosphorylation as the core function. Some terms are obsolete or non-specific, but the dominant theme ties translation machinery and energy production in mitochondria.","confidence":"High","size":13,"edges":62,"triangles":146,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0006120","count":2},{"id":"GO:0010259","count":2},{"id":"GO:0000027","count":1},{"id":"GO:0042773","count":1}]},{"hash":"2073131386964331306","title":"Mitotic spindle regulation and ubiquitin turnover","description":"The terms cluster around cell division and spindle dynamics (mitotic spindle, CENP-A chromatin assembly, microtubule severing) and ubiquitin-mediated protein turnover (SCF-dependent proteolysis, K11-linked ubiquitination). This combination points to mitotic control via regulated proteolysis rather than a single pathway.","confidence":"High","size":13,"edges":18,"triangles":8,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051013","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0061641","count":4},{"id":"GO:0030433","count":4}]},{"hash":"773425273635168084","title":"Cell Differentiation and Signaling","description":"This cluster centers on tissue differentiation (skin, fat, skeletal muscle) and linked signaling processes (dephosphorylation, calcium sensing, GPCR signaling), suggesting proteins involved in cell fate decisions and modulation of signaling pathways. Some terms like visual perception or SA node regulation appear as broader annotations but do not override the main theme of differentiation with signaling control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0032516","count":5},{"id":"GO:0043588","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0010745","count":4}]},{"hash":"1757694409814286732","title":"Vitamin and lipid metabolism","description":"These proteins are enriched for metabolic processes involving vitamins and lipids: retinol/retinal metabolism, pyridoxal (vitamin B6) biosynthesis, glutathione biosynthesis, bile acid catabolism, and farnesol catabolism. This points to a shared function in processing and producing small-molecule metabolites and antioxidants rather than a single pathway. Some terms (water deprivation response, maternal pregnancy, endothelial apoptosis) are broader or context-specific and may reflect incidental associations. Overall, the cluster centers on vitamin and lipid metabolism.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":13},{"id":"GO:0042574","count":13},{"id":"GO:0042821","count":10},{"id":"GO:0030573","count":10},{"id":"GO:0009414","count":10}]},{"hash":"1286037257316205680","title":"RNA processing and translational regulation","description":"The GO terms center on post-transcriptional RNA metabolism\u2014ncRNA-mediated gene silencing, mRNA splicing and splice-site recognition, poly(A) tail regulation, and translation initiation/reinitiation (including IRES- and viral-initiated processes). Taken together, they suggest a coherent cluster of RNA processing and translational control functions.","confidence":"High","size":13,"edges":35,"triangles":34,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:1903586","count":2},{"id":"GO:1902625","count":2},{"id":"GO:0060211","count":2},{"id":"GO:0002188","count":2}]},{"hash":"770059985579137261","title":"Mitochondrial metabolite and metal transport","description":"The top GO terms point to a common function of shuttling various metabolites and metal ions across the mitochondrial membrane, including deoxynucleotides, NAD, thiamine pyrophosphate, manganese, iron, ATP, and ornithine. This suggests a cohesive theme of mitochondrial transport rather than disparate processes, despite a couple of outlier terms (negative regulation of necroptosis and female pregnancy) that are less central to this theme. Overall, the cluster appears focused on mitochondria-centered transport activities.","confidence":"High","size":13,"edges":18,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":4},{"id":"GO:0060546","count":4},{"id":"GO:0035352","count":4},{"id":"GO:0006828","count":4},{"id":"GO:0030974","count":4}]},{"hash":"1787483110460220983","title":"Antigen Presentation and Immune Signaling","description":"This cluster centers on immune-related GO terms: antigen processing and presentation via MHC I and II, B cell receptor signaling, phagocytosis and recognition, and protection from NK cell cytotoxicity. Taken together, these terms point to a coherent module of antigen presentation and immune activation, encompassing both adaptive and innate immune pathways.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":4},{"id":"GO:0010977","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0006911","count":3},{"id":"GO:0002503","count":3}]},{"hash":"1473707799342147452","title":"Axon Guidance and Neural Morphogenesis","description":"The cluster\u2019s strongest signals are feet on neural development: commissural neuron axon guidance, dorsal root ganglion morphogenesis, facial nerve structural organization, and axon extension in guidance. Supporting pathways like receptor tyrosine kinase activation and ERK/MAPK signaling align with growth and guidance processes in neurons. A couple of terms (complement activation, molting cycle) appear as outliers or annotation noise but do not negate the neural-development theme.","confidence":"High","size":13,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":6},{"id":"GO:0007171","count":6},{"id":"GO:0070374","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0043536","count":5}]},{"hash":"110374367511968706","title":"Immune Signaling and Lymphocyte Activation","description":"This cluster is dominated by immune-related processes: cellular response to LPS, prostaglandin E stimulus, B cell receptor signaling, and positive regulation of T and gamma-delta T cell proliferation/differentiation, indicating a cohesive theme of immune signaling and lymphocyte activation. Some RNA and protein processing terms appear, but they seem secondary to the immune signaling pattern.","confidence":"High","size":13,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071222","count":5},{"id":"GO:0006397","count":5},{"id":"GO:0071380","count":4},{"id":"GO:0046641","count":3},{"id":"GO:0010765","count":3}]},{"hash":"2111750677422772787","title":"Plant cell wall polysaccharide biosynthesis","description":"Proteins here strongly associate with plant cell wall construction, including glucuronoxylan and homogalacturonan biosynthesis, secondary cell wall biogenesis, and mucilage production. The accompanying glycosylation terms (protein O-linked glycosylation via mannose and GalNAc) further support roles in cell wall protein decoration, pointing to a cohesive plant cell wall biosynthesis/glycosylation theme.","confidence":"High","size":13,"edges":76,"triangles":265,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":5},{"id":"GO:0071555","count":4},{"id":"GO:0010417","count":4},{"id":"GO:0009834","count":4},{"id":"GO:0010192","count":3}]},{"hash":"1092520412838924053","title":"Calcium signaling and hormone pathways","description":"The cluster centers on calcium handling and signaling: terms like release of sequestered calcium from the sarcoplasmic reticulum and negative regulation of ryanodine receptor activity point to calcium dynamics critical for muscle and heart function. Additional terms such as insulin secretion, TGF-beta receptor signaling, and steroid hormone receptor assembly suggest parallel hormonal and growth factor signaling contexts that intersect with calcium signaling. Some terms (e.g., T cell proliferation, homoserine biosynthesis) appear less connected and may reflect broader or incidental annotations.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042098","count":1},{"id":"GO:0055010","count":1},{"id":"GO:0007049","count":1},{"id":"GO:0060315","count":1},{"id":"GO:0007179","count":1}]},{"hash":"1896752537411669789","title":"Cholinergic GPCR signaling and synaptic plasticity","description":"Top GO terms point to neuronal signaling and synaptic modulation, especially acetylcholine GPCR signaling, GPCR internalization, and long-term synaptic depression/potentiation, with social behavior relevance. Cardiac development/contraction and ceramide transport appear as peripheral associations rather than core themes. This supports a focus on neuromodulatory signaling and synaptic plasticity as the cluster\u2019s main function.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":10,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0097011","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0060292","count":5},{"id":"GO:1900273","count":5},{"id":"GO:0035176","count":5}]},{"hash":"741292537968706929","title":"Triglyceride catabolism and lipid remodeling","description":"The top GO terms are dominated by triglyceride-related processes\u2014triglyceride catabolic process, triglyceride mobilization, and acyl-chain remodeling\u2014as well as phospholipid catabolic processes (phosphatidylcholine and phosphatidylethanolamine). This points to a cluster focused on triglyceride metabolism and lipid remodeling, with a few regulatory or unrelated terms appearing less prominently. ","confidence":"High","size":13,"edges":14,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":6},{"id":"GO:0009636","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0036153","count":4},{"id":"GO:0034638","count":4}]},{"hash":"1545359109676583201","title":"Embryogenesis and Organogenesis","description":"These proteins map to diverse developmental processes across multiple tissues (pancreas/endocrine, placenta/trophoblast, heart EMT, cartilage, left-right patterning, sensory organ development). The common thread is embryonic tissue differentiation and organ formation, rather than a single molecular function, so a general developmental/morphogenesis label is appropriate.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0060806","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0035270","count":3}]},{"hash":"1959418204526248347","title":"K11-ubiquitination in mitotic progression","description":"The cluster\u2019s strongest signals point to mitotic control: metaphase/anaphase transition (GO:0007091) and K11-linked ubiquitination (GO:0070979) suggest APC/C-like regulation of mitosis. While other terms are miscellaneous or obsolete, the recurrent theme is ubiquitin-mediated regulation driving cell-cycle progression. ","confidence":"High","size":13,"edges":6,"triangles":0,"max_degree":6,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006463","count":4},{"id":"GO:0070979","count":4},{"id":"GO:1901215","count":4},{"id":"GO:0051291","count":4},{"id":"GO:1902325","count":4}]},{"hash":"496665561320470325","title":"Membrane transport and neural signaling","description":"This cluster centers on proton transmembrane transport and multiple signaling processes, including nitric oxide signaling and ERK cascade regulation, together with an astrocyte development term. These point to membrane-associated transport proteins that participate in neural development and broader cytokine-triggered signaling, despite some older/obsolete terms. The mix suggests a cohesive theme of ion transport linked to neural cell signaling and glial maturation.","confidence":"Medium","size":13,"edges":39,"triangles":47,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":4},{"id":"GO:0071294","count":4},{"id":"GO:0036016","count":4},{"id":"GO:0036018","count":4},{"id":"GO:0060547","count":4}]},{"hash":"534507892025036734","title":"Unknown","description":"The GO terms cover highly diverse processes across different organisms (actin regulation, exocytosis, various developmental programs in animals, plant ovule morphogenesis, and fungal cell-wall biosynthesis), with no clear single theme tying the proteins together.","confidence":"","size":13,"edges":34,"triangles":29,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0030835","count":5},{"id":"GO:0019417","count":5},{"id":"GO:0006887","count":5},{"id":"GO:0001705","count":5},{"id":"GO:2000744","count":5}]},{"hash":"1501726400569892083","title":"Embryonic axis formation and organ development","description":"The GO terms indicate broad developmental and patterning processes (pituitary gland development, inner ear development, endoderm development, axis specification) rather than a single molecular function, with additional differentiation-related terms like dopamine biosynthesis and erythrocyte differentiation suggesting general development across tissues. This points to a theme of embryonic development and patterning.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0021983","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0032092","count":5},{"id":"GO:0048839","count":5},{"id":"GO:0007313","count":5}]},{"hash":"1155525073503019740","title":"Immune response and vascular remodeling","description":"This cluster centers on immune-related GO terms (response to lipopolysaccharide, defense response to fungus, IL-8 production regulation) together with vascular remodeling signals (tissue remodeling, angiogenesis, regulation of fibrinogen, blood pressure regulation). These suggest a theme of inflammation and remodeling of the vascular system, even though a few terms (midbrain development, transcription regulation) are less cohesive with the main pattern. ","confidence":"Medium","size":13,"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:0032496","count":5},{"id":"GO:1902947","count":4},{"id":"GO:0044537","count":4}]},{"hash":"378243601814980510","title":"Embryonic Mesoderm and Placental Development","description":"The terms cluster around embryogenesis and differentiation of mesoderm-derived tissues (mesoderm development, cartilage morphogenesis), patterning (left-right formation), and extraembryonic/placental lineages (trophoblast differentiation, placental development), plus endocrine development. This points to a cohesive theme of embryonic tissue morphogenesis and lineage specification, with some ancillary regulatory terms.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010957","count":7},{"id":"GO:0032298","count":7},{"id":"GO:0003323","count":7},{"id":"GO:0035270","count":7},{"id":"GO:0000055","count":7}]},{"hash":"1266272986437428089","title":"Unknown","description":"The top GO terms span neural development and visual perception alongside immune signaling (B cell and T cell regulation) and general cellular processes (proteasomal regulation, protein processing, ion transport), with no single unifying function evident. The absence of edges among members further supports a lack of a cohesive pathway or theme linking the proteins. ","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0032435","count":13},{"id":"GO:0048666","count":13},{"id":"GO:0046641","count":12},{"id":"GO:0010765","count":12},{"id":"GO:0010571","count":12}]},{"hash":"600220633303728705","title":"Dopaminergic Visual Perception and Learning","description":"The dominant terms point to neural and brain functions: visual perception and visual learning, dopaminergic synaptic transmission, and cocaine-related behavioral response, all connected through ERK signaling and neural plasticity. While a couple of terms (inflammatory/prostaglandin response, heart development) are less central, the strong presence of vision- and dopamine-associated processes suggests a neural signaling and learning/computer brain function theme for this cluster.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":11},{"id":"GO:0048148","count":11},{"id":"GO:0070374","count":11},{"id":"GO:0010759","count":11},{"id":"GO:0019233","count":11}]},{"hash":"1334119448428536343","title":"Unknown","description":"The top GO terms span inflammatory regulation, neural processing, secretion, immune responses, and development with no single, coherent function uniting the proteins. Since there is no clear shared theme, this cluster is best labeled Unknown with no confidence.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":12},{"id":"GO:0035106","count":12},{"id":"GO:0046541","count":12},{"id":"GO:0009253","count":12},{"id":"GO:0014829","count":12}]},{"hash":"793738475289643094","title":"Cardiovascular GPCR-GTPase Signaling","description":"This cluster is dominated by GO terms describing GPCR signaling that activates adenylate cyclase, Rho and GTPase regulation, and vascular functions such as smooth muscle contraction and blood pressure regulation. Together these point to a cardiovascular signaling module controlling vascular tone. Some terms (electron transport chain, peptidoglycan catabolic process, operant conditioning, saliva secretion) appear as outliers, likely reflecting multi-functional proteins or annotation artifacts rather than a core theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0035025","count":7},{"id":"GO:0043547","count":7}]},{"hash":"2226150358187252616","title":"GPI Anchor Synthesis and Glycosylation","description":"This cluster appears driven by glycosylation-related processes (GPI anchor biosynthesis and ER protein glycosylation) and carbohydrate metabolism (glucose/sucrose). Some terms (osmotic responses, development, feeding) are less directly related, but the glycosylation/sugar-processing theme is the strongest signal.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048706","count":2},{"id":"GO:0009414","count":2},{"id":"GO:0006506","count":2},{"id":"GO:0005985","count":2},{"id":"GO:0072708","count":2}]},{"hash":"1640486411117795798","title":"Actin dynamics and cell migration","description":"These proteins are enriched for actin cytoskeleton dynamics (actin filament bundle assembly, cytoskeleton organization), Rho signaling regulation, and cell migration, plus epithelial polarity and centrosome localization, pointing to a cohesive module of actin-driven motility and polarity.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0051017","count":4},{"id":"GO:0035556","count":3}]},{"hash":"497987031038551497","title":"Brain development and synaptic signaling","description":"Most prominent GO terms point to brain-related processes: substantia nigra development and long-term synaptic potentiation, along with signaling-related activities (protein serine/threonine kinase activity, GPCR signaling, and GTPase regulation). While there are broader terms like hypoxia response and mRNA transport, the brain development and synaptic signaling themes dominate, justifying this label with Moderate confidence.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":5},{"id":"GO:0060291","count":4},{"id":"GO:0021762","count":4},{"id":"GO:0007205","count":3},{"id":"GO:0071902","count":3}]},{"hash":"1236311187760547577","title":"Mitotic Chromosome Assembly and Proteostasis","description":"The dominant GO terms center on mitosis (cell division, mitotic cell cycle) and centromere/chromosome assembly (CENP-A), plus microtubule dynamics, complemented by ubiquitin-proteasome system components (ubiquitination, proteasome assembly, ERAD). This suggests a cluster of proteins involved in mitotic chromosome dynamics and regulated protein turnover, with some related trafficking roles.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051260","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0016567","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0061641","count":3}]},{"hash":"414125274818259738","title":"Embryonic Development and Organ Morphogenesis","description":"The GO terms cluster around various developmental processes across different organs (pancreas, skeletal, forebrain, placenta) and patterning events, indicating a shared theme of embryonic development and tissue morphogenesis.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0001501","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1127445364197431280","title":"Mitotic cell cycle and chromosome condensation","description":"The top GO terms are dominated by cell division, mitotic cell cycle, and mitotic chromosome condensation, indicating a core role in mitosis. Other terms touch on DNA replication, nuclear transport, and translation-related processes, suggesting some additional nuclear activities, but the strongest signal centers on mitotic machinery.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0007076","count":2},{"id":"GO:0045454","count":1},{"id":"GO:0046825","count":1}]},{"hash":"1863525649893658629","title":"Hepatic energy metabolism and amino acid turnover","description":"This cluster shows strong signals for liver-centric energy pathways: gluconeogenesis, the TCA cycle, and pyruvate decarboxylation to acetyl-CoA, along with ketone body biosynthesis. Leucine catabolic and biosynthetic processes and liver development further point to hepatic amino acid metabolism and liver-specific metabolic function, with occasional noise terms like sodium transport. Overall, the themes cohere around liver-based energy management and amino acid turnover.","confidence":"High","size":12,"edges":49,"triangles":121,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006094","count":4},{"id":"GO:0006814","count":4},{"id":"GO:0006552","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0006086","count":3}]},{"hash":"837543167757093423","title":"DNA replication and genome maintenance","description":"The cluster is dominated by GO terms for DNA replication, leading strand elongation, UV-damage repair, and error-free translesion synthesis, with CENP-A\u2013containing chromatin assembly, pointing to genome replication and maintenance. Some ancillary terms (peroxisome protein import, protein unfolding) are present but do not alter the core theme.","confidence":"Medium","size":12,"edges":52,"triangles":131,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070987","count":8},{"id":"GO:0006260","count":7},{"id":"GO:0006272","count":7},{"id":"GO:0070914","count":7},{"id":"GO:0001319","count":6}]},{"hash":"1537816949222812271","title":"RNA processing and ribosome biogenesis with Fe-S assembly","description":"The cluster shows enrichment for RNA metabolism and translation-related terms (translation, regulation of translation, SSU-rRNA maturation, RNA splicing), suggesting a core role in RNA processing and ribosome assembly. Additional signals (iron-sulfur cluster assembly, mitochondrial ATP synthesis) imply involvement of Fe-S biosynthesis and mitochondrial context supporting protein maturation and function. Overall, the common theme is RNA processing and ribosome biogenesis with Fe-S/mitochondrial ties. ","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006417","count":1},{"id":"GO:0006378","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0033119","count":1}]},{"hash":"358709744133288985","title":"Cyclic nucleotide signaling and photoreception","description":"This cluster shows multiple GO terms tied to cAMP/cGMP biosynthesis, adenylate cyclase and guanylyl cyclase signaling, and blue light signaling, suggesting a core theme of cyclic-nucleotide\u2013mediated signal transduction and photoreceptive pathways. Additional terms like hypoxia detection and transcription regulation align with downstream signaling roles, supporting a cohesive signaling-focused cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006171","count":9},{"id":"GO:0071880","count":9},{"id":"GO:0035556","count":9},{"id":"GO:0030828","count":9},{"id":"GO:0006355","count":9}]},{"hash":"1093145722471549498","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around ribosome production (ribosome biogenesis), protein synthesis (translation), and related RNA processing/export steps (rRNA maturation, SSU rRNA processing and export, and mRNA export), indicating a group of proteins involved in assembling ribosomes and supporting translation.","confidence":"High","size":12,"edges":57,"triangles":143,"max_degree":11,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0006412","count":3},{"id":"GO:1901407","count":3},{"id":"GO:0031167","count":2},{"id":"GO:0006656","count":2}]},{"hash":"485073191283356632","title":"Gene Expression and Signaling Regulation","description":"The top terms are dominated by regulatory processes: mRNA splicing and polyadenylation point to RNA processing, while multiple GO terms emphasize positive/negative regulation of signaling pathways (HIF-1\u03b1 signaling, TGF-\u03b2 receptor signaling, ethylene signaling) and protein degradation. A few development-related terms (endodermal cell differentiation) also appear. Because the cluster appears to group proteins by general regulatory roles rather than a single, cohesive function, the label \u201cGene Expression and Signaling Regulation\u201d best captures the common theme.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":2},{"id":"GO:0006378","count":2},{"id":"GO:1905050","count":2},{"id":"GO:0035987","count":2},{"id":"GO:0051973","count":2}]},{"hash":"1786244012624793479","title":"Developmental Transcriptional Regulation","description":"The top GO terms combine broad developmental processes with transcription regulation by RNA polymerase II, suggesting the proteins act as regulators coordinating gene expression during development across multiple tissues rather than a single organ. The mix of organ-specific development terms alongside transcriptional control supports a general developmental regulatory role.","confidence":"Medium","size":12,"edges":7,"triangles":0,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":8},{"id":"GO:0021759","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0006366","count":5}]},{"hash":"452781636573799768","title":"Transcriptional regulation and ncRNA processing","description":"This cluster centers on transcription control (DNA-templated transcription, transcription termination control, transcription antitermination) and RNA processing pathways, including miRNA processing, miRNA catabolic process, regulatory ncRNA-mediated gene silencing, and CRD-mediated mRNA stabilization, suggesting a cohesive module of transcriptional control with post-transcriptional and ncRNA regulation.","confidence":"High","size":12,"edges":31,"triangles":31,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060567","count":8},{"id":"GO:0010587","count":8},{"id":"GO:0006351","count":8},{"id":"GO:1901724","count":8},{"id":"GO:0031564","count":8}]},{"hash":"2168190233308500854","title":"Yeast cell division, budding, and polarity","description":"The top GO terms cluster around the mitotic cell cycle, mitotic cytokinesis, and cell division, with protein localization to the bud neck and maintenance of cell polarity, all key features of budding yeast division. Ribosome biogenesis aligns with growth accompanying division, while the neuron projection development and non-motile cilium assembly terms likely reflect cross-species annotations rather than core yeast biology. Overall, the dominant theme is yeast cell division and budding, warranting this label.","confidence":"High","size":12,"edges":10,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0031175","count":7},{"id":"GO:0000278","count":7},{"id":"GO:0000747","count":6},{"id":"GO:0042254","count":6}]},{"hash":"1553302854340675917","title":"Vacuolar trafficking and ion homeostasis","description":"The set of terms clusters around vacuolar functions: vacuole organization, protein targeting to the vacuole, and vacuolar acidification, plus multiple ion transport processes (sodium and proton transmembrane transport) and copper ion homeostasis. This suggests a coherent theme of vacuole-mediated ion regulation and protein trafficking. Some metabolic terms (MEP pathway and galacturonate metabolism) appear as less central extras, but do not override the core vacuolar/ion-homeostasis pattern.","confidence":"Medium","size":12,"edges":17,"triangles":6,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006878","count":2},{"id":"GO:0006814","count":2},{"id":"GO:0006626","count":2},{"id":"GO:0007033","count":2},{"id":"GO:0015991","count":2}]},{"hash":"276290334681848163","title":"Regulation of transcription and cellular stress signaling","description":"The GO terms point to broad regulation of gene expression (mitotic cycle, transcription, mRNA transport, genomic imprinting regulation) combined with signaling and stress responses (GTPase regulation, ubiquitination, hypoxia, cadmium ion response, and defense against Gram-positive bacteria), as well as axonogenesis. This suggests a cluster of proteins involved in transcriptional control plus general stress and signaling pathways rather than a single specific function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051028","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0071276","count":3}]},{"hash":"1501473167748445839","title":"Innate Immune Activation and Phagocytosis","description":"This cluster centers on innate immune cell functions, including neutrophil migration, macrophage chemotaxis, and positive regulation of phagocytosis, together with inflammatory responses and production of reactive oxygen species to defend against bacteria. The GO terms point to recruitment of phagocytes to infection sites and microbicidal activity, with additional notes on mucus secretion and signaling regulation that support mucosal defense and inflammation. Overall, the common theme is innate immune activation involving neutrophils/macrophages and their phagocytic and inflammatory roles.","confidence":"High","size":12,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:1900426","count":2},{"id":"GO:0033864","count":2},{"id":"GO:0050766","count":2},{"id":"GO:0070257","count":2}]},{"hash":"1982659354593168703","title":"Ribosome Biogenesis and Translation","description":"The top terms cluster around ribosome biogenesis, rRNA maturation, translation initiation, and translation itself, indicating a core role in assembling and initiating protein synthesis. A few terms on DNA-templated transcription and histone modification suggest broader nuclear regulation, but the prominent pattern centers on ribosome production and function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0043984","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1216978946119381303","title":"DNA damage repair and signaling","description":"The dominant GO terms describe double-strand break repair via homologous recombination, interstrand cross-link repair, and cellular response to ionizing radiation, pointing to a DNA damage response module. Additional terms like intracellular signal transduction, calcium import, startle response, and circadian regulation may reflect broader signaling or annotation noise, but the core cluster appears to center on DNA repair and stress signaling.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":3},{"id":"GO:0071479","count":3},{"id":"GO:0000724","count":3},{"id":"GO:0010569","count":3},{"id":"GO:0036297","count":3}]},{"hash":"956655728550550237","title":"Unknown","description":"The top GO terms span saliva secretion, vascular smooth muscle contraction, immune/eosinophil signaling, lung tissue development, and neural/process terms like prepulse inhibition and operant conditioning, plus a bacterial catabolic process. This mix does not reveal a single coherent biological theme or function for the cluster, so it\u2019s best labeled Unknown.","confidence":"","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0046541","count":11},{"id":"GO:0002882","count":10},{"id":"GO:0035106","count":10},{"id":"GO:0009253","count":10},{"id":"GO:0014829","count":10}]},{"hash":"1428370366289920440","title":"Unknown","description":"The GO terms span diverse processes: cellular response to amino acids, TOR and PI3K/AKT signaling, GTPase regulation, lysosome localization, IL-6 production, bone resorption, and even viral genome replication. There is no single cohesive function tying these proteins together, so a specific, representative label cannot be assigned with confidence.","confidence":"","size":12,"edges":23,"triangles":11,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071230","count":4},{"id":"GO:0043154","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0032008","count":3},{"id":"GO:0061462","count":2}]},{"hash":"1324012578002058858","title":"Cardiac Muscle Development and Contraction","description":"This cluster is dominated by GO terms tied to heart muscle biology: ventricular cardiac muscle tissue morphogenesis, cardiac myofibril assembly and actin crosslink formation, and cardiac muscle contraction, which together point to sarcomere structure and function. Supporting signaling terms\u2014calcineurin-NFAT signaling, phosphatidylinositol-mediated signaling, and protein dephosphorylation\u2014suggest regulation of cardiomyocyte gene expression and contractile machinery. A couple of unrelated terms like visual perception and long-term memory are present but do not override the cardiac theme.","confidence":"High","size":12,"edges":57,"triangles":139,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014883","count":12},{"id":"GO:0006470","count":12},{"id":"GO:0055010","count":12},{"id":"GO:0055003","count":12},{"id":"GO:0048015","count":12}]},{"hash":"1347959692169406226","title":"Leukocyte recruitment and phagocytosis signaling","description":"The GO terms converge on innate immune activation and leukocyte trafficking\u2014tethering/rolling, Fc-gamma receptor signaling, and phagocytosis recognition\u2014along with regulation of adhesion molecules. Additional terms indicate inflammatory mediator release (arachidonate), response to fungal origin, and lymphatic vessel morphogenesis, together supporting an inflammation/immune recruitment module.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":12},{"id":"GO:0090403","count":9},{"id":"GO:0006910","count":9},{"id":"GO:0060355","count":9},{"id":"GO:0050901","count":9}]},{"hash":"1801870399173904896","title":"Transmembrane Transport of Nutrients and Ions","description":"This cluster is dominated by GO terms describing transport across membranes for a wide range of substrates (nitrate/nitrite, galactose, sialic acid, 4-hydroxyphenylacetate, vitamins, potassium ions, xenobiotics). The common theme is membrane transporter activity rather than enzymatic processing, making a label that reflects diverse transmembrane transport appropriate.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":10},{"id":"GO:0035461","count":10},{"id":"GO:0071805","count":10},{"id":"GO:0042891","count":10},{"id":"GO:0006855","count":10}]},{"hash":"1602160087648763479","title":"Mitochondrial Assembly and Cellular Stress Response","description":"GO terms strongly point to mitochondrial biogenesis and respiratory chain assembly (complex IV, respirasome) and regulation of cytochrome c release, alongside signals related to hypoxia, xenobiotic response, insulin signaling, calcium dynamics, and antiviral defense. This pattern suggests a module centered on assembling mitochondrial respiratory machinery and coordinating cellular stress and metabolic responses. Some terms reflect broader metabolism (glucose transport) but fit within the energy and stress signaling context. ","confidence":"Medium","size":12,"edges":17,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0051281","count":2},{"id":"GO:1904659","count":2},{"id":"GO:0051607","count":2}]},{"hash":"942930360918397926","title":"Membrane Transporters (Ions and Substrates)","description":"The top GO terms show transmembrane transport for multiple ions (sodium, potassium, phosphate, nitrate) and diverse substrates (sialic acid, xenobiotics, 4-hydroxyphenylacetate), plus a term for neurotransmitter loading into synaptic vesicles. This points to a cluster of membrane transporter proteins that move ions and various molecules across membranes, including vesicular transport of neurotransmitters. Confidence: High","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0098700","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0042891","count":3}]},{"hash":"241596286591400573","title":"Neural adhesion and synapse formation","description":"Based on the GO terms, the cluster is enriched for cell\u2013cell adhesion (heterophilic and homophilic) and neural-specific processes such as nervous system development, synapse assembly, paranodal junction assembly, and transmission of nerve impulse. This points to a theme of neural connectivity and synapse organization, with adhesion molecules guiding synapse and paranodal junction formation. Some terms (bone ossification, classical complement activation) are less central to neurons, but do not override the dominant neural adhesion/synapse pattern.","confidence":"Medium","size":12,"edges":16,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0007156","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0006910","count":3},{"id":"GO:0035584","count":3}]},{"hash":"731068390696404805","title":"Immune cell development and migration","description":"Most top GO terms cluster around immune system development and function (NK T cell differentiation, B cell affinity maturation, interleukin-4 production, and IL-7\u2013mediated responses) and cytoskeletal remodeling for movement (actin organization, lamellipodium assembly). A few terms are less directly related (heart development, myelin maintenance, insulin signaling), but the dominant theme is immune cell maturation and migration.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0001865","count":8},{"id":"GO:0016477","count":8},{"id":"GO:0002344","count":8},{"id":"GO:0032633","count":8}]},{"hash":"2135406649983127587","title":"Neural development with inflammatory signaling and endosomal trafficking","description":"The top GO terms point to neural development and axon guidance (nervous system development, Roundabout signaling, tangential migration to the olfactory bulb) alongside inflammatory/immune responses (inflammatory response, cellular response to LPS, defense against protozoan). The inclusion of endosomal transport and PI3K/AKT\u2013related signaling suggests receptor trafficking and survival signaling linked to these processes. Together, this cluster likely groups proteins involved in neural development/migration that are also engaged in neuroinflammatory signaling and endosomal trafficking. ","confidence":"Medium","size":12,"edges":50,"triangles":99,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0048227","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0071222","count":2}]},{"hash":"923730040510362180","title":"Transcription regulation and chromatin maintenance","description":"The top GO terms point to transcription control (DNA-templated transcription, SAGA complex localization) and chromatin dynamics (histone deubiquitination, proteasome assembly), with additional signals for cell-cycle regulation and genome maintenance. Some transport terms may be peripheral or annotation-related noise, but the central theme across several terms is nucleus-based transcription regulation and chromatin remodeling.","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":2},{"id":"GO:0006855","count":2},{"id":"GO:0035461","count":2},{"id":"GO:0016578","count":1},{"id":"GO:0030447","count":1}]},{"hash":"1000244928215128895","title":"Neuroimmune signaling and neural development","description":"The top GO terms include strong innate immune signals (lipopolysaccharide signaling, dsRNA response, defense against Gram-positive bacteria, innate immune response), alongside neural development and function terms (myelination, axonogenesis, positive regulation of synapse assembly, cellular response to dopamine, and pain-related behavior). This combination suggests a cluster of proteins involved in neuroimmune interactions and neural development/function rather than a single, pure pathway. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031663","count":11},{"id":"GO:0043330","count":11},{"id":"GO:0071222","count":10},{"id":"GO:0050830","count":10},{"id":"GO:0045087","count":10}]},{"hash":"979560749911219096","title":"Cardiac and skeletal muscle contraction regulation","description":"These proteins show a coherent set of GO terms focused on muscle contraction and sarcomere dynamics, including cardiac muscle contraction, ventricle morphogenesis, sarcomere organization, muscle filament sliding, and regulation of ATP-dependent activity, plus fiber-type transition (fast/slow) and slow-twitch contraction. This suggests the cluster comprises regulators and effectors of both cardiac and skeletal muscle contraction and sarcomere organization.","confidence":"High","size":12,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0014883","count":2},{"id":"GO:0055010","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0006942","count":2}]},{"hash":"1238006177915407557","title":"Deubiquitinase-Mediated Attenuation of Innate Immune Signaling","description":"This cluster is driven by negative regulation of innate immune pathways (NF-kappaB, TLR3, CD40, Fc receptor signaling) and by K11/K63-linked deubiquitination, pointing to DUBs or regulators that dampen immune signaling and receptor trafficking.","confidence":"Medium","size":12,"edges":8,"triangles":1,"max_degree":6,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0070301","count":4},{"id":"GO:1900159","count":3},{"id":"GO:0060368","count":3},{"id":"GO:2000352","count":3},{"id":"GO:0048261","count":3}]},{"hash":"1364181386975488801","title":"T cell differentiation and lymphoid development","description":"The top GO terms are dominated by T cell\u2013related biology and lymphoid organ development (T cell homeostasis, T follicular helper cell differentiation, and lymph node development), suggesting the proteins cluster around immune regulation and T cell maturation. Some other terms (ubiquitination, cell cycle, translation regulation) hint at broader regulatory roles but do not outweigh the immune-focused signals.","confidence":"Medium","size":12,"edges":15,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0043029","count":3},{"id":"GO:0045647","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0071364","count":2}]},{"hash":"1079814523295988306","title":"Coagulation and ECM Remodeling","description":"The cluster shows a strong enrichment for blood coagulation, fibrinolysis, and negative regulation of plasminogen activation, alongside extracellular matrix (ECM) constituent secretion and ECM-related remodeling in liver regeneration. These common themes point to a cohesive role in hemostasis and ECM dynamics, despite some ancillary terms (deglutamylation, Purkinje cell differentiation). Overall, coagulation/fibrinolysis with ECM remodeling best captures the shared function of these proteins.","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0003331","count":4},{"id":"GO:0097421","count":4},{"id":"GO:0010757","count":4},{"id":"GO:0035611","count":4},{"id":"GO:0051918","count":4}]},{"hash":"1620628730727296299","title":"Oxidant Detoxification","description":"The strongest GO terms center on cellular oxidant detoxification and redox-related processes, suggesting a detoxification theme. However, several unrelated terms (development of gonads/mammary gland, cortisol biosynthesis, methylation, xenobiotic/dioxin catabolism) and the lack of edges imply only a weak, non cohesive functional link among the proteins.","confidence":"Low","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0008585","count":1},{"id":"GO:0010241","count":1},{"id":"GO:0030879","count":1}]},{"hash":"2135073227986648048","title":"Embryonic organ morphogenesis","description":"The proteins are linked to diverse morphogenetic events across multiple developing organs (heart, retina/eye, hindlimb, placenta, brain regions like habenula) and to transcriptional regulation, suggesting a general embryonic development program rather than a tissue-specific function.","confidence":"High","size":12,"edges":58,"triangles":149,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000288","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0021986","count":5},{"id":"GO:0060041","count":5},{"id":"GO:0060527","count":4}]},{"hash":"1410813081392621727","title":"Unknown","description":"The top GO terms span diverse species and biology (cell cycle regulation, multiple signaling pathways, meiosis, plant stomata, lactation, immune and epithelial differentiation), with no single cohesive function tying the proteins together. This makes a specific, representative label unlikely, so the cluster is best described as Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":4},{"id":"GO:0046626","count":3},{"id":"GO:1901187","count":3},{"id":"GO:1900383","count":3},{"id":"GO:0033601","count":2}]},{"hash":"1718883404197664143","title":"Spinal Cord Neuron Specification and Wnt Regulation","description":"Most of the top GO terms point to neural development, especially spinal cord patterning and neuron specification (dorsal/ventral spinal cord interneurons, rhombomere development) with regulation of Wnt signaling also represented. This suggests a spinal cord neurodevelopment theme, though a few terms (visual perception, prostate morphogenesis) are outliers.","confidence":"Medium","size":12,"edges":9,"triangles":0,"max_degree":6,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021920","count":7},{"id":"GO:0021516","count":7},{"id":"GO:0060527","count":7},{"id":"GO:0021913","count":7},{"id":"GO:2001055","count":7}]},{"hash":"1916348212279868948","title":"Endocrine and placental development regulators","description":"The cluster is enriched for endocrine and placental lineage terms (pancreatic cell development, endocrine system development, trophoblast/placental differentiation) along with broad transcriptional regulation (negative regulation of transcription by RNA Pol II) during embryogenesis, suggesting proteins that modulate transcription to drive endocrine and placental organogenesis.","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0046022","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060972","count":6}]},{"hash":"1389845701083405803","title":"Unknown","description":"The cluster includes GO terms from several unrelated biological areas (cell cycle, translation, iron metabolism, ER quality control, and a plant-specific developmental term), with no clear shared pathway or function and no edges connecting the proteins. This heterogeneous mix makes it impossible to assign a cohesive label, so Unknown is the appropriate choice.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0070584","count":2},{"id":"GO:0006760","count":1}]},{"hash":"41954524269382363","title":"V-ATPase\u2013driven vacuolar acidification and proteolysis","description":"Dominant GO terms point to vacuolar proton pumps and degradation: V-type ATPase assembly, vacuolar acidification, and protein catabolic process in the vacuole, plus proton transport and related metabolism. These collectively define a vacuolar degradation/ion-transport theme; outlier terms appear marginal. Overall, the cluster reflects V-type ATPase\u2013driven vacuolar function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032729","count":2},{"id":"GO:0043181","count":1},{"id":"GO:0015986","count":1},{"id":"GO:0007588","count":1},{"id":"GO:0015991","count":1}]},{"hash":"27472324245587536","title":"Thermo-sensory and inflammatory signaling with ion transport","description":"This cluster centers on temperature-related responses, sensory perception (pain and touch), and immune/inflammatory signaling, with accompanying ion transport and membrane potential regulation (e.g., potassium channel transport and cardiac repolarization). The combination suggests proteins involved in thermo- and mechanosensory signaling that modulate inflammatory responses via ion-channel\u2013mediated processes.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0006955","count":5},{"id":"GO:0006954","count":5}]},{"hash":"56749378499124375","title":"NF-kappaB\u2013driven immune signaling and host defense","description":"The terms cluster around NF-kappaB signaling and immune regulation, including positive regulation of canonical NF-kappaB signaling, IL-2 production suppression, and host-defense activities such as suppression of viral release and symbiont invasion. Developmental and trafficking/genomic-control terms (skin and multicellular development, COPII vesicle budding, epigenetic programming) suggest these proteins may coordinate immune responses with developmental processes and secretion. Overall, a cohesive theme of NF-kappaB\u2013driven immune signaling and host defense, with developmental/trafficking roles.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0005513","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0043588","count":3}]},{"hash":"1105465462628143313","title":"Receptor trafficking and signaling","description":"The terms cluster around cell-surface receptor processes, including internalization, signaling pathways (Notch, VEGF, integrin), and localization to lysosomes, plus receptor-mediated virion attachment. Although a visual perception term appears, the dominant theme ties to receptor regulation and downstream signaling. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":11},{"id":"GO:0030913","count":10},{"id":"GO:0046813","count":9},{"id":"GO:0061462","count":9},{"id":"GO:0007166","count":9}]},{"hash":"244151889326079936","title":"Neuronal migration and actin-GTPase remodeling","description":"The cluster is enriched for actin cytoskeleton organization and small GTPase\u2013mediated signaling, with terms describing radial glia\u2013guided neuronal migration, leading-process extension, and neural behavioral responses (fear and ethanol). Together this points to coordinated GTPase-driven actin remodeling in neurons and migrating cells, with regulatory layers such as deubiquitination modulating these pathways. Confidence is moderate because some terms (behavioral ones) are broader, but the core theme is coherent. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0048149","count":2},{"id":"GO:0046626","count":2},{"id":"GO:0007264","count":2}]},{"hash":"268675045133319358","title":"Cross-tissue developmental signaling and cytoskeletal regulation","description":"The protein set shows enrichment for signaling regulation (positive regulation of serine/threonine kinase activity, autophosphorylation, and GTPase activity), actin cytoskeleton dynamics (barbed-end actin filament capping), and membrane trafficking regulation (synaptic vesicle endocytosis), along with tissue-specific development terms (lens fiber, skeletal muscle, substantia nigra) and hepatocyte apoptosis. This suggests a broad role in developmental signaling and cytoskeletal regulation across multiple tissues, justifying a cross-tissue developmental signaling label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071902","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0070307","count":3}]},{"hash":"1894777195389702659","title":"Chromatin modification and cell cycle regulation","description":"This cluster centers on histone methylation marks (H3K4, H3K27, H3K79) and K11-linked ubiquitination, together with APC-dependent catabolic processes and cell division, plus ribosomal biogenesis, indicating a theme where chromatin state and epigenetic regulation coordinate progression through the cell cycle. Some terms are obsolete, but the core signals point to chromatin modification linked to mitotic control.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070979","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0051301","count":2}]},{"hash":"486863748663141741","title":"Dopamine receptor signaling and organ development","description":"The cluster is dominated by dopamine receptor signaling terms (adenylate cyclase activation and PLC pathways) with cAMP involvement, plus organ development terms (retina and heart) and proliferation, suggesting a dopaminergic signaling module linked to growth and organogenesis.","confidence":"Medium","size":11,"edges":27,"triangles":30,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0007191","count":8},{"id":"GO:0060041","count":7},{"id":"GO:0008284","count":7}]},{"hash":"2292681195450112233","title":"Ribosome biogenesis and RNA maturation","description":"The top GO terms indicate a cohesive focus on ribosome production and RNA processing, including ribosome biogenesis, ribosomal subunit assembly, rRNA maturation and methylation, and translation-related regulation. This combination points to a shared function in ribosome assembly and RNA modification, with minor terms like cell division or cobalamin biosynthesis appearing more peripheral. ","confidence":"High","size":11,"edges":16,"triangles":3,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0009236","count":4},{"id":"GO:0042256","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0070131","count":3}]},{"hash":"380222109110146286","title":"Ubiquitin-Proteostasis under ER Stress","description":"Prominent GO terms include ubiquitin-dependent ERAD, protein ubiquitination/deubiquitination, and aggrephagy, pointing to a cohesive role in ubiquitin-mediated proteostasis under ER stress.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0070059","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0034140","count":2},{"id":"GO:0001827","count":2}]},{"hash":"250392755630517734","title":"ER-Golgi trafficking and mitosis","description":"The top GO terms point to ER-Golgi vesicle transport and broader intracellular transport, with accompanying mitosis-related terms such as mitotic cell cycle and spindle orientation, implying a coordinated role in trafficking during cell division.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0006886","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051013","count":2}]},{"hash":"1028748147122285709","title":"Neurodevelopmental signaling and cytoskeletal regulation","description":"The terms indicate signaling pathways (ERK/MAPK, ephrin signaling, PI3K-related regulation), cytoskeletal remodeling (actin filament branching), and developmental processes (hippocampus development, tissue cell number homeostasis), with regulation by phosphorylation and ubiquitination. A single immune-development term (beta selection) is present but does not override the broader neural development theme; overall, the cluster centers on signaling linked to cytoskeletal dynamics during development, especially in neurons.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043366","count":11},{"id":"GO:0090135","count":11},{"id":"GO:0070374","count":11},{"id":"GO:0000278","count":11},{"id":"GO:0043552","count":11}]},{"hash":"2105515139016941687","title":"Mitotic Cell Cycle Regulation","description":"The cluster is enriched for terms tied to mitosis and cell cycle progression, notably protein localization to kinetochore, cell cycle, and mitotic cytokinesis checkpoint signaling, along with regulation of the cell cycle. Additional terms reflect osmotic stress response, redox homeostasis and transsulfuration, but these appear secondary to the core mitotic function, suggesting the proteins primarily participate in chromosome segregation and cell division with peripheral ties to stress-related metabolism.","confidence":"High","size":11,"edges":37,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0034501","count":8},{"id":"GO:0007049","count":5},{"id":"GO:0044878","count":5},{"id":"GO:0045454","count":5},{"id":"GO:0071470","count":5}]},{"hash":"1472406530730692970","title":"Ubiquitin-dependent protein modification and degradation","description":"The top GO terms cluster around ubiquitination and its consequences: K63- and K48-linked ubiquitination, autoubiquitination, and ubiquitin-dependent protein catabolic processes (including ERAD), plus a related sumoylation term. The presence of JNK cascade regulation and innate immune/defense responses suggests these proteins participate in ubiquitin- and SUMO-mediated signaling that can modulate immune responses and protein turnover. Overall, the group is best described as focusing on ubiquitin-mediated protein modification and degradation, with immune signaling links.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070534","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0016567","count":3}]},{"hash":"817542140258438220","title":"Neural development and axon guidance","description":"The cluster features GO terms strongly linked to neural development and neuronal connectivity, including cochlea morphogenesis, axon guidance, roundabout signaling (ROBO), and SMO/Hedgehog signaling, which together point to neural patterning and guidance pathways. Additional terms related to ERK signaling and Golgi localization align with broad neuronal signaling and trafficking processes. A few terms (liver development, Th1 response, nucleolar localization) appear less related and may reflect pleiotropy or dataset noise, but the dominant signal is neural development and axon guidance.","confidence":"Medium","size":11,"edges":16,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090103","count":6},{"id":"GO:0035385","count":5},{"id":"GO:0042088","count":5},{"id":"GO:0051683","count":5},{"id":"GO:0070374","count":5}]},{"hash":"445419964205702092","title":"Spliceosome-Mediated mRNA Splicing and Regulation","description":"The cluster's top GO terms are dominated by spliceosome-driven mRNA splicing and regulation, plus related mRNA processing steps such as polyadenylation and stability, indicating proteins focused on post-transcriptional RNA processing and control of mRNA fate.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":7},{"id":"GO:0048025","count":6},{"id":"GO:0000398","count":5},{"id":"GO:0045292","count":5},{"id":"GO:0048024","count":4}]},{"hash":"1894169876730484550","title":"Membrane signaling and trafficking","description":"The cluster\u2019s GO terms cluster around membrane-associated processes: regulation of PKC signaling, transcytosis, membrane raft polarization, and tight junction assembly point to membrane organization and trafficking. Additional terms reference signaling pathways influencing apoptosis and neuronal plasticity, as well as sensory functions, suggesting a broad but membrane-centric signaling theme across immune, neural, and epithelial contexts. This supports a cohesive label centered on membrane signaling and trafficking.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0090038","count":1},{"id":"GO:1902043","count":1},{"id":"GO:0045056","count":1},{"id":"GO:0001766","count":1},{"id":"GO:0007605","count":1}]},{"hash":"783389134256623175","title":"Epigenetic Chromatin Remodeling","description":"The top GO terms cluster around epigenetic regulation of gene expression, including chromatin remodeling during transcription initiation and histone modifications (H3K9/K27 methylation). Associated terms about mating-type switching and spermatid differentiation further point to chromatin-state control of gene expression across contexts. Overall, a coherent theme is epigenetic regulation via chromatin remodeling.","confidence":"High","size":11,"edges":13,"triangles":3,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0043045","count":2},{"id":"GO:0031496","count":2},{"id":"GO:2000584","count":2},{"id":"GO:0006990","count":2},{"id":"GO:0051573","count":2}]},{"hash":"320399419939205366","title":"Developmental and Immune Signaling","description":"The cluster aggregates proteins linked to organ development (uterus and thymus development; anterior/posterior pattern specification) with multiple signaling pathways (TGF-beta, ephrin, B cell receptor) and immune regulation processes (IL-2 production, mast cell proliferation). A transcytosis term adds a trafficking aspect, suggesting these proteins participate in development-associated signaling that also modulates immune responses. Therefore, a label reflecting both developmental and immune signaling is appropriate.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":6},{"id":"GO:0048538","count":6},{"id":"GO:0009952","count":6},{"id":"GO:0071560","count":6},{"id":"GO:0045056","count":5}]},{"hash":"795779845316489087","title":"TLR signaling and endosomal trafficking cluster","description":"Based on the top GO terms, this cluster is driven by innate immune signaling (TLR9 signaling, Toll signaling, IL-18 production) and intracellular vesicle trafficking (regulation of endosome-to-Golgi transport), with autophagy-related activity also appearing. Development-related terms are present but less central, so the label emphasizes immune signaling linked to endosomal transport rather than broad developmental roles.","confidence":"Medium","size":11,"edges":8,"triangles":2,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0034162","count":4},{"id":"GO:0032741","count":4},{"id":"GO:0060427","count":4},{"id":"GO:0016239","count":4}]},{"hash":"2175037940190364258","title":"RNA splicing and mRNA processing","description":"Top GO terms are dominated by RNA splicing, spliceosome regulation, and mRNA processing/stabilization, indicating these proteins cluster around spliceosome-mediated RNA maturation. Additional terms for apoptosis, circadian rhythm, and androgen receptor signaling seem less central to the primary theme. Despite no edges observed, the GO profile strongly supports a splicing/mRNA processing function.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008380","count":7},{"id":"GO:0048026","count":6},{"id":"GO:0000381","count":6},{"id":"GO:0048255","count":6},{"id":"GO:0006397","count":5}]},{"hash":"330546544165453411","title":"Developmental transcription regulation and signaling","description":"Centers on DNA-templated transcription and its regulation, with clear links to developmental signaling (Hippo, Wnt) and mesoderm/differentiation processes, suggesting a module of transcription factors coordinating development and cell fate. Ubiquitin-dependent protein catabolic and apoptotic processes imply turnover and quality control within this regulatory network.","confidence":"High","size":11,"edges":8,"triangles":0,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0060044","count":2}]},{"hash":"1389094084699712720","title":"Developmental signaling and cytoskeletal remodeling","description":"Top GO terms cluster around nervous system development, cell movement, and actin remodeling (Roundabout signaling, ameboid migration, actin filament branching), with supporting roles in development across cell types (mitotic cycle, spermatid development) and intracellular trafficking (membrane tethering, endosome-to-Golgi transport). This suggests a shared theme of signaling-driven cytoskeletal dynamics during development and cell movement.","confidence":"Medium","size":11,"edges":14,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0043525","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0007286","count":5},{"id":"GO:1990456","count":4}]},{"hash":"1839753192269984222","title":"Unknown","description":"The top GO terms are from very diverse biological contexts (eye development, chromatid biorientation, gonad and mammary development, plant diterpene oxidation, methylation, stress response, dioxin metabolism, inflammation, and cortisol biosynthesis), with no clear common function or pathway and no connecting edges, so a cohesive functional label cannot be determined.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":4},{"id":"GO:0031134","count":3},{"id":"GO:0008585","count":3},{"id":"GO:0010241","count":3},{"id":"GO:0030879","count":3}]},{"hash":"696797929441158381","title":"Embryonic tissue and immune cell differentiation","description":"This cluster centers on GO terms involving differentiation across multiple lineages: T cell and Th2 cell differentiation, mast cell differentiation, erythrocyte differentiation, cardioblast fate, nephric duct and uterus development, and general tissue homeostasis. The shared theme is developmental differentiation across diverse tissues and immune lineages, rather than a single pathway, so a multilineage developmental label fits best.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0045582","count":6},{"id":"GO:2000617","count":6},{"id":"GO:0010725","count":6},{"id":"GO:0060065","count":6},{"id":"GO:0007510","count":6}]},{"hash":"222447826074110266","title":"Nitrate/Peptide Transport and Plant Hormone Signaling","description":"The cluster centers on membrane transport of nutrients and peptides (nitrate transport/assimilation, dipeptide/oligopeptide transport, potassium transport) and includes plant hormone\u2013related term(s) (auxin-activated signaling, gibberellin homeostasis), suggesting a coherent theme of nutrient uptake linked to hormone regulation in plants.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":4},{"id":"GO:0071805","count":4},{"id":"GO:0006004","count":3},{"id":"GO:0010167","count":2},{"id":"GO:0010336","count":2}]},{"hash":"418758235862559180","title":"Unknown","description":"The terms span immune signaling (B cell receptor signaling, germinal center formation), ubiquitin-related processes (K33-linked ubiquitination, ubiquitin-dependent protein catabolic process), and morphogenesis across kidney and cartilage, plus placenta development and plant gravitropism; there is no single cohesive function tying these terms together, and the proteins appear linked to disparate contexts, so no clear theme emerges.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":4},{"id":"GO:0035024","count":4},{"id":"GO:0050853","count":3},{"id":"GO:0060806","count":3},{"id":"GO:1990390","count":3}]},{"hash":"665865524549517522","title":"Amino acid catabolism and central metabolism cluster","description":"The cluster is dominated by amino acid catabolic and central metabolic terms (alanine, glycine, kynurenine/tryptophan derivatives, pyruvate biosynthesis) with notes on metal cluster assembly and stress responses (glucocorticoid, vitamin B6), and Notch signaling as a potential co-occurring function.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0097053","count":7},{"id":"GO:0042853","count":7},{"id":"GO:0007219","count":7},{"id":"GO:0019878","count":6},{"id":"GO:0018283","count":6}]},{"hash":"1510613154098534830","title":"Mitochondrial tRNA aminoacylation and translation","description":"This cluster is characterized by GO terms centered on mitochondrial tRNA charging (serine, proline, glycyl, histidine, alanine) and the broader process of translation, along with mitochondrial DNA metabolic activity and regulation of translational fidelity. The convergence of multiple mitochondrial aminoacyl-tRNA synthetase activities with translation-related terms strongly suggests proteins involved in mitochondrial protein synthesis and tRNA charging machinery, despite a digression to an obsolete selenocysteinyl-tRNA biosynthetic term. ","confidence":"High","size":11,"edges":18,"triangles":3,"max_degree":7,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0071897","count":3},{"id":"GO:0070158","count":3},{"id":"GO:0097056","count":3},{"id":"GO:0006433","count":3},{"id":"GO:0006412","count":3}]},{"hash":"2008101333016764868","title":"Developmental patterning and organ morphogenesis","description":"This cluster centers on GO terms tied to developmental processes, including spinal cord and neural patterning (dorsal/ventral cord development, interneuron specification, rhombomere development), regulation of transcription and signaling (Wnt pathway regulation), and various organ morphogenesis outcomes (atrioventricular node development, myoblast proliferation, prostate gland morphogenesis). The common thread is genes involved in embryonic tissue patterning and organ formation, rather than a single tissue-specific function.","confidence":"Medium","size":11,"edges":4,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0021920","count":11},{"id":"GO:0021516","count":11},{"id":"GO:0060527","count":11},{"id":"GO:0021913","count":11},{"id":"GO:2001055","count":11}]},{"hash":"1482523279315632983","title":"Rac-ERK Signaling and Cytoskeletal Remodeling","description":"This cluster is dominated by GO terms linking Rac protein signal transduction, ERK/MAPKK pathway regulation, and cytoskeletal dynamics such as stress fiber assembly and adhesion-dependent cell spreading, suggesting proteins that coordinate signaling with cytoskeletal remodeling; a few outliers (e.g., bone resorption, xenobiotic response) do not override the core theme.","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1903206","count":3},{"id":"GO:2000301","count":3},{"id":"GO:0016601","count":3},{"id":"GO:0000186","count":3},{"id":"GO:0070374","count":3}]},{"hash":"685265059558858842","title":"Immune signaling and developmental transcription","description":"This cluster\u2019s top GO terms point to immune-related signaling (GM-CSF response, LPS response, T cell receptor signaling, GPCR desensitization) alongside transcriptional regulation (DNA-templated transcription) and some developmental/sensory processes (neural tube closure, visual learning, labyrinthine layer development). Together, they suggest a group of proteins involved in signaling cascades that trigger transcriptional responses across immune and developmental/sensory contexts rather than a single, narrow pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097011","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0071222","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0001843","count":4}]},{"hash":"1889470618444015330","title":"ECM remodeling and angiogenesis","description":"The dominant GO terms point to extracellular matrix organization and disassembly (collagen fibril organization, collagen catabolic process, ECM disassembly) and vascular development (sprouting angiogenesis, blood vessel maturation, lung development), indicating the proteins cluster around ECM remodeling linked to blood vessel and organ morphogenesis. A few signaling terms (Wnt, BMP regulation) reflect developmental regulation rather than core function, which fits with vascular/ECM remodeling roles. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0006958","count":3},{"id":"GO:0030574","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0002040","count":2}]},{"hash":"1137964278751051880","title":"Plant defense via proteolysis and hormone signaling","description":"The cluster centers on proteolysis-related terms (protein autoprocessing, membrane protein proteolysis, proteolysis) together with stress/immune signaling (systemic acquired resistance, response to xenobiotic stimulus, response to lipopolysaccharide, hormone-mediated signaling). This suggests a cohesive theme of proteolytic processing that modulates plant defense responses under stress. A couple of terms like amyloid-beta metabolic process or immobilization stress are less directly aligned and may reflect broader or cross-species annotations, but the core remains proteolysis-linked defense signaling.","confidence":"High","size":11,"edges":17,"triangles":3,"max_degree":8,"top_function":"autophagy","top_go_terms":[{"id":"GO:0016540","count":4},{"id":"GO:0035902","count":4},{"id":"GO:0050435","count":4},{"id":"GO:0009627","count":4},{"id":"GO:0048469","count":4}]},{"hash":"813873033042263878","title":"Oxidative stress response and transcription regulation","description":"The cluster strongly features terms for oxidative stress and ER unfolded protein response, plus cellular detoxification, suggesting a core role in managing redox balance and protein quality under stress; transcription-related terms (negative regulation of RNA polymerase II and DNA-templated transcription) imply coordinated control of gene expression; ancillary terms like sarcomere organization and cell division are present but less central.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0098869","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0034599","count":2}]},{"hash":"295232506651897072","title":"Adaptive immune cell activation signaling","description":"The top GO terms show positive regulation of T cell proliferation (alpha-beta and gamma-delta), beta selection, and B cell receptor signaling, indicating enrichment for adaptive immune cell activation and development. While a couple terms (visual perception, ion transport) appear as outliers, the dominant pattern centers on immune signaling and lymphocyte development.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":11},{"id":"GO:0010765","count":11},{"id":"GO:0010571","count":11},{"id":"GO:0010954","count":11},{"id":"GO:0045588","count":11}]},{"hash":"1579995736396416496","title":"Spliceosome-regulated mRNA splicing","description":"These proteins are strongly associated with GO terms for regulation and execution of mRNA splicing via the spliceosome\u2014especially alternative splicing and cis splicing\u2014indicating roles in spliceosome-mediated mRNA processing and its regulation; a few terms on polyadenylation and translation reinitiation are secondary.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":4},{"id":"GO:0043066","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0000380","count":4},{"id":"GO:0006378","count":4}]},{"hash":"1215686679807222581","title":"Cardiovascular and nervous system signaling","description":"The GO terms cluster around signaling regulation in cardiovascular and nervous systems, including heart contraction regulation, vasodilation, calcium signaling, GABAergic synaptic transmission, and related pathways such as opioid receptor signaling and angiotensin regulation. While some terms touch on vision and immune chemotaxis, the dominant theme is neuromodulatory control of cardiovascular function and neural signaling.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014829","count":11},{"id":"GO:0048245","count":11},{"id":"GO:0007601","count":11},{"id":"GO:0001997","count":11},{"id":"GO:0051281","count":11}]},{"hash":"591009909616174903","title":"Glycan Biosynthesis in Reproduction","description":"The top GO terms cluster around glycosylation and glycan biosynthesis (glycosphingolipid, keratan sulfate proteoglycan, lactose biosynthesis, protein glycosylation) and reproductive-related processes (mammary gland development, sperm\u2013zona pellucida interactions, zona pellucida penetration). This points to a set of proteins whose functions center on glycan decoration and glycoconjugates important for reproductive tissues and lactation, with some overlap into tissue remodeling (angiogenesis, epithelial proliferation) that can occur in those contexts. Overall, a cohesive theme is glycans/glycosylation in reproductive development and lactation.","confidence":"Medium","size":11,"edges":31,"triangles":33,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":7},{"id":"GO:0006688","count":6},{"id":"GO:0060055","count":4},{"id":"GO:0060054","count":4},{"id":"GO:0007341","count":4}]},{"hash":"2054323116322962355","title":"Signaling pathways and membrane trafficking","description":"This cluster\u2019s top GO terms point to a broad set of signaling pathways (GPCR, Ral, thrombin receptor, IGF receptor) and membrane-associated processes (endomembrane system organization, myelin assembly). Additional terms touch on apoptosis and neural/immune functions, suggesting a mix of signaling and membrane dynamics rather than a single precise role. Overall, it reflects a theme of cellular signaling and membrane trafficking.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032288","count":2},{"id":"GO:0010256","count":2},{"id":"GO:0097194","count":2},{"id":"GO:0046325","count":2},{"id":"GO:0070493","count":2}]},{"hash":"256255606754344714","title":"Actin Cytoskeleton Remodeling and Motility","description":"The top GO terms are strongly dominated by actin-related processes: actin cytoskeleton organization, lamellipodium and filopodium assembly, and regulation of Rho protein signaling. These point to coordinated control of actin dynamics and cell movement, with supporting terms touching membrane remodeling and signaling pathways that modulate cytoskeletal changes (platelet activation and insulin signaling). Although other terms appear, the core theme centers on actin remodeling and cell motility.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030036","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0035621","count":3},{"id":"GO:1903526","count":3},{"id":"GO:0030032","count":3}]},{"hash":"1549854704208457193","title":"Nuclear cell cycle and protein quality control","description":"This cluster centers on core cell cycle and cell division processes, with strong representation for cell cycle and division terms. It also includes terms indicating nuclear quality control (detection of misfolded proteins) and localization to telomeres and Cajal bodies, suggesting an integrated set of nuclear processes that maintain genome integrity during replication. A few terms are obsolete or peripheral (e.g., immune-related processes), but the dominant theme remains nuclear cell cycle and protein QC.","confidence":"High","size":10,"edges":29,"triangles":46,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":10},{"id":"GO:0051301","count":10},{"id":"GO:1904469","count":5},{"id":"GO:1901998","count":5},{"id":"GO:0051973","count":5}]},{"hash":"96643193507542933","title":"Transcriptional Repression of Differentiation","description":"Proteins in this cluster appear to broadly restrain transcription and differentiation programs, evidenced by frequent terms such as negative regulation of myotube and osteoblast differentiation, negative regulation of androgen receptor signaling, and histone deacetylation. The inclusion of DNA-templated transcription and miRNA transcription regulation supports a role in chromatin-based transcriptional repression, with a secondary link to metabolic and muscle adaptation responses.","confidence":"High","size":10,"edges":41,"triangles":92,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060766","count":10},{"id":"GO:0010832","count":10},{"id":"GO:0006351","count":10},{"id":"GO:0045668","count":10},{"id":"GO:1902894","count":9}]},{"hash":"2137196973862566503","title":"Unknown","description":"The top GO terms span actin cytoskeleton regulation, TORC1 signaling, ubiquitin-proteasome\u2013dependent degradation, various developmental processes (gastrulation, adaxial/abaxial patterning, prostate epithelium differentiation), glial apoptosis, microtubule severing, peroxisome targeting, and histone methylation, with no single overarching function tying all proteins together. This diversity makes it unclear what specific shared role unites the cluster, so a concise, representative label cannot be confidently assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0034316","count":8},{"id":"GO:1904263","count":8},{"id":"GO:0031146","count":7},{"id":"GO:0007369","count":7},{"id":"GO:2000011","count":7}]},{"hash":"781979884203922868","title":"Redox and cell cycle stress response","description":"The terms cluster around redox homeostasis and cell-cycle processes (G2/M transition, oocyte maturation, cytokinesis) with associated stress responses (UV) and regulatory activities (phosphatases, ubiquitin-like conjugation, tRNA modification), suggesting a module that links redox status to cell-cycle control.","confidence":"Medium","size":10,"edges":39,"triangles":79,"max_degree":9,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0045454","count":7},{"id":"GO:0000086","count":5},{"id":"GO:0001556","count":4},{"id":"GO:0034644","count":4},{"id":"GO:0032467","count":4}]},{"hash":"953981448640363587","title":"ER stress\u2013driven translation regulation","description":"The top GO terms cluster around translation initiation under ER stress, RNA transport (tRNA import into nucleus, protein export from nucleus), and translation-related processes (frameshifting). Redox homeostasis and ATP-dependent activity tie into a broader stress-response context, suggesting these proteins coordinate protein synthesis and RNA handling under cellular stress, particularly ER-related. While some terms are general or noisy, the core theme is ER-stress\u2013linked regulation of translation and protein homeostasis.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045454","count":9},{"id":"GO:0046825","count":9},{"id":"GO:0036494","count":9},{"id":"GO:0006626","count":9},{"id":"GO:0006260","count":9}]},{"hash":"1124816542956770594","title":"Ribosome Biogenesis and rRNA Processing","description":"Top GO terms are dominated by ribosome biogenesis and rRNA processing (ribosome biogenesis GO:0042254, cytosolic ribosome assembly GO:0042256, maturation of LSU-rRNA GO:0000463) and RNA modification (rRNA methylation GO:0070475, tRNA wobble base cytosine methylation GO:0002127). This indicates a core function in ribosome production and RNA maturation. A few terms on chromatin silencing and mRNA splicing are present but appear unrelated to the main theme.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048025","count":2},{"id":"GO:0030466","count":2},{"id":"GO:0070475","count":1},{"id":"GO:0002127","count":1},{"id":"GO:0042256","count":1}]},{"hash":"946529144154799624","title":"Innate Immune Signaling and Antigen Processing","description":"This cluster is dominated by GO terms linked to innate immune recognition and response (TLR9 signaling, Toll signaling), pro-inflammatory cytokine production (IL-1\u03b2, IL-18), and antigen presentation through dendritic cells, along with proteasomal ubiquitin-dependent protein catabolism and autophagy regulation. Together these suggest a cohesive role in innate immunity and antigen processing/presentation, with some peripheral terms related to development or rhythms that are less central. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0035882","count":2},{"id":"GO:0032741","count":2},{"id":"GO:0060427","count":2}]},{"hash":"900088655615109594","title":"Rho/Ras GTPase and Integrin Signaling","description":"This cluster is driven by multiple GO terms centered on GTPase regulation (Rho and Ras) and integrin signaling/activation, plus responses related to VEGF and vascular remodeling, suggesting a cohesive theme of GTPase-regulated cell adhesion and endothelial signaling. The presence of vesicle-related terms (synaptic vesicle priming, acrosome reaction) adds a broader vesicle-trafficking context but does not override the core GTPase/integrin signal theme. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0046580","count":5},{"id":"GO:0007229","count":4},{"id":"GO:0043087","count":4},{"id":"GO:0035924","count":4}]},{"hash":"1827052399940445603","title":"Nuclear transport, chromatin regulation, and cell cycle","description":"The GO terms point to nucleus-focused processes: nuclear import (NLS signals), chromatin dynamics (puffing, telomere silencing), protein turnover via ubiquitin-mediated degradation, and cell cycle progression (G1/S transition, centrosome separation), indicating a coordinated nucleus-centric regulation of chromatin state and mitosis.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071318","count":2},{"id":"GO:0000082","count":1},{"id":"GO:0035080","count":1},{"id":"GO:0035392","count":1},{"id":"GO:0046604","count":1}]},{"hash":"852804394584736761","title":"Bacterial nutrient uptake and catabolism","description":"This cluster centers on microbial metabolism and transport: nitrate assimilation, denitrification, and reductive iron assimilation point to nitrogen and metal handling; arsenate and iron transmembrane transport indicate nutrient acquisition; cellulose and lignin catabolic processes suggest carbon-source degradation by microbes; the FtsZ-dependent cytokinesis term reinforces a bacterial context. Platelet activation appears as an outlier annotation but does not negate the microbial theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030168","count":5},{"id":"GO:0043093","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0030245","count":4}]},{"hash":"1768156457974546696","title":"Actin cytoskeleton dynamics and cell migration","description":"Most terms center on actin cytoskeleton organization, lamellipodium/filopodium assembly, and cell migration, with small GTPase signaling driving these processes; development-related terms may reflect broader contexts but do not dominate. ","confidence":"High","size":10,"edges":10,"triangles":1,"max_degree":8,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030036","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0001865","count":8},{"id":"GO:0016477","count":8},{"id":"GO:0002344","count":8}]},{"hash":"1772912977565816051","title":"Immune activation and cell proliferation","description":"The dominant terms point to lymphocyte activation and signaling (B cell receptor signaling; T cell proliferation/differentiation) and concurrent cell cycle/DNA replication regulation, suggesting immune cells becoming activated and entering proliferation. A few unrelated terms appear as noise, but the core theme is immune activation coupled with proliferation.","confidence":"Medium","size":10,"edges":25,"triangles":40,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0046641","count":9},{"id":"GO:0010765","count":9},{"id":"GO:0010571","count":9},{"id":"GO:0010954","count":9}]},{"hash":"1022249485366096475","title":"Unknown","description":"The cluster\u2019s top GO terms are diverse, including post-translational modifications (protein dephosphorylation, ubiquitination), responses to mechanical and fungal stimuli, an extrinsic apoptotic signaling pathway, neural development (cerebellar granule cell differentiation), and broad multicellular processes. This lack of a single cohesive function makes it difficult to assign a precise, representative label with confidence.","confidence":"","size":10,"edges":8,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0071260","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0032088","count":3}]},{"hash":"1269135775726352270","title":"Organ development and programmed cell death","description":"Top GO terms show a strong emphasis on organ and brain region development (heart development, hippocampus development, head involution) and Hippo signaling, plus several apoptosis-related terms (execution phase of apoptosis, glial cell apoptotic process). This suggests a coherent theme of developmental signaling linked to programmed cell death. The inclusion of stress/ DNA damage\u2013related responses (response to UV, X-ray) may reflect collateral stress pathways that intersect with apoptosis in development or cell fate decisions.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0021766","count":3},{"id":"GO:0009411","count":2},{"id":"GO:0035234","count":2},{"id":"GO:0097194","count":2}]},{"hash":"451961779578458323","title":"Ephrin signaling and inflammation-driven angiogenesis","description":"The GO terms cluster around ephrin receptor signaling, endothelial cell migration, and angiogenesis, paired with immune activation signals such as neutrophil chemotaxis and adaptive immune responses (including T cell proliferation). This points to a coordinated inflammatory-vascular program where ephrin signaling drives blood vessel remodeling in the context of immune cell recruitment and activation, supported by ERK signaling. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0048013","count":6},{"id":"GO:0030593","count":6},{"id":"GO:0070374","count":6},{"id":"GO:0034446","count":6},{"id":"GO:0002250","count":6}]},{"hash":"1712081814237435202","title":"Presynaptic Vesicle Exocytosis and Neurotransmitter Secretion","description":"The cluster is dominated by GO terms tied to presynaptic neurotransmitter release and vesicle trafficking (neurotransmitter secretion, presynaptic dense core vesicle exocytosis, synaptic vesicle maturation) with related short-term potentiation, indicating a cohesive set of proteins involved in the release machinery and rapid synaptic signaling; additional terms suggest supporting signaling and plasticity regulation, fitting a presynaptic release-focused group.","confidence":"High","size":10,"edges":15,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":3},{"id":"GO:0099525","count":3},{"id":"GO:0031914","count":3},{"id":"GO:0016188","count":3},{"id":"GO:1990926","count":2}]},{"hash":"1425728941861912511","title":"Transmembrane transport of nutrients, ions, and xenobiotics","description":"These proteins are grouped by GO terms centering on transmembrane transport across membranes, covering vitamins, xenobiotics, phosphate and nitrate ions, sialic acid, and potassium, among others. The cluster appears to consist of transporters moving diverse substrates across the plasma membrane, with only a single connection between members, reinforcing a shared membrane transport function.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":8},{"id":"GO:0006855","count":8},{"id":"GO:0042891","count":6},{"id":"GO:0035435","count":6},{"id":"GO:0042908","count":5}]},{"hash":"981945733335547142","title":"Embryonic axis patterning and forebrain development","description":"Top GO terms indicate strong enrichment for embryonic development and body-plan patterning, especially bilateral symmetry determination, anterior/posterior pattern specification, and forebrain development. While several metabolic processes are present, they are less central to the cluster\u2019s core signal, which is dominated by developmental patterning and neural development. Confidence: High","confidence":"","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0009855","count":10},{"id":"GO:0055129","count":10},{"id":"GO:0009258","count":10},{"id":"GO:0010133","count":10},{"id":"GO:0030900","count":10}]},{"hash":"1045982262796137126","title":"Mitochondrial cofactor and ion transporters","description":"The cluster is dominated by GO terms describing transport of various cofactors and ions across the mitochondrial membranes (deoxynucleotides, NAD, thiamine pyrophosphate, manganese, iron, ATP, ornithine) and related mitochondrial processes, suggesting these proteins function as mitochondrial transporters or components of mitochondrial metabolite exchange. The presence of a necroptosis regulation term fits with broader mitochondrial roles in cell death pathways, while an unrelated term like pregnancy appears as a secondary annotation artifact. Overall, the common theme is mitochondrial transport of metabolites and ions.","confidence":"High","size":10,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":3},{"id":"GO:0060546","count":3},{"id":"GO:0035352","count":3},{"id":"GO:0006828","count":3},{"id":"GO:0030974","count":3}]},{"hash":"1442911216217864611","title":"Neuronal signaling and brain development","description":"The most represented terms point to neural signaling and brain development, e.g., synaptic vesicle priming, acetylcholine GPCR signaling, and cellular response to EGF. Ras/Rho pathway regulation fits into neuronal signaling networks, while a few terms reference vascular or exocytosis-related processes that can occur in neural contexts. Together, the cluster most plausibly reflects neuronal communication and brain development.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060716","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1814161358627790904","title":"Cardiac muscle development and function","description":"The GO terms are dominated by cardiac/heart-related processes (heart development, sinoatrial node development, heart contraction) and muscle differentiation (skeletal myofibril/skeletal muscle development), with supporting terms on ischemia response and cell adhesion involved in coronary vasculature morphogenesis. This points to a cluster of proteins centered on cardiac muscle formation and its functional aspects, including contractile and electrical properties.","confidence":"High","size":10,"edges":11,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0002931","count":1},{"id":"GO:0060973","count":1},{"id":"GO:0002244","count":1},{"id":"GO:0060047","count":1},{"id":"GO:0014866","count":1}]},{"hash":"2154778567879907672","title":"Inflammation, Angiogenesis, and Cell Polarity","description":"The top GO terms point to inflammatory signaling (inflammatory response, LPS response) and regulation of endothelial proliferation in sprouting angiogenesis, suggesting inflammation-linked vascular remodeling. Additional terms cover development, mechanical signaling, adipocyte differentiation, synaptic transmission, and planar cell polarity/cell-matrix adhesion, indicating broader roles in tissue morphogenesis and polarity rather than a single pathway. Overall, this cluster seems to integrate inflammatory responses with developmental remodeling and polarity cues during tissue organization.","confidence":"Medium","size":10,"edges":16,"triangles":9,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":5},{"id":"GO:1903588","count":5},{"id":"GO:0032496","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0071260","count":5}]},{"hash":"300560402990238669","title":"Developmental morphogenesis and transcriptional regulation","description":"Most frequent GO terms cluster around embryonic development and tissue formation (roof of mouth development, endocrine system development, left-right pattern formation, placenta-related differentiation, cartilage morphogenesis) alongside regulation of transcription by RNA Pol II. This points to proteins involved in controlling gene expression during development and coordinating morphogenetic processes. ","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0060021","count":3},{"id":"GO:0046022","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0035270","count":3}]},{"hash":"976026632961281636","title":"Phospholipid Acyl-Chain Remodeling","description":"The top GO terms cluster around remodeling of acyl chains in several phospholipids (phosphatidylserine, phosphatidylethanolamine, phosphatidylinositol, phosphatidylglycerol, cardiolipin) and triglyceride catabolism, plus related membrane processes like spore membrane bending and lipid mediator biosynthesis, pointing to a shared role in membrane lipid remodeling and turnover.","confidence":"High","size":10,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006660","count":4},{"id":"GO:0019433","count":4},{"id":"GO:0070583","count":3},{"id":"GO:0006663","count":3},{"id":"GO:0036150","count":3}]},{"hash":"1934435401733354789","title":"SNARE-Mediated Vesicle Trafficking in Neurons","description":"This cluster is dominated by vesicle transport between ER, Golgi, and the plasma membrane, SNARE complex assembly, and synaptic receptor insertion, linking to exocytosis and synaptic potentiation. The presence of NK cell degranulation also reflects vesicle fusion events, supporting a vesicle trafficking/exocytosis theme.","confidence":"High","size":10,"edges":11,"triangles":2,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0098967","count":3},{"id":"GO:0048280","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0006891","count":3}]},{"hash":"2262133306932965093","title":"Neural development and synapse assembly","description":"This cluster is dominated by brain-related development processes: axonogenesis, corpus callosum development, and positive regulation of synapse assembly, with supporting transcriptional regulation signals. While there are some immune-response terms (LPS and dsRNA), the prevailing pattern centers on neural development and synaptic connectivity.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046826","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0007409","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0061368","count":3}]},{"hash":"576340803640133404","title":"Inflammation and vascular regulation","description":"The top terms point to inflammatory signaling (positive regulation of chronic inflammatory response, eosinophil chemotaxis) and vascular tone (positive regulation of vasoconstriction, vascular smooth muscle contraction) plus tissue remodeling/secretory processes (lung connective tissue development, saliva secretion). While some terms like visual perception and operant conditioning are outliers, the majority align with inflammation and vascular/secretory functions, suggesting a cluster centered on inflammatory-vascular tissue regulation rather than a single molecular function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":10},{"id":"GO:0035106","count":10},{"id":"GO:0046541","count":10},{"id":"GO:0009253","count":10},{"id":"GO:0014829","count":10}]},{"hash":"453073299533728129","title":"Unknown","description":"Top GO terms span inflammatory regulation, vasomotor and airway/connective tissue processes, saliva secretion, bacterial peptidoglycan catabolism, and even visual perception plus behavioral neuroscience, with no connecting edges, so there is no cohesive functional theme to assign a specific label.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":10},{"id":"GO:0035106","count":10},{"id":"GO:0046541","count":10},{"id":"GO:0009253","count":10},{"id":"GO:0014829","count":10}]},{"hash":"1435524580259462366","title":"Mucosal Immunity and Epithelial Barrier","description":"The terms point to immune activity (immunoglobulin production, T cell proliferation) and epithelial/gastrointestinal barrier functions (GI epithelium maintenance, cell adhesion), suggesting a mucosal immune-epithelial theme; a couple of outlier terms (e.g., cardiac action potential) may reflect multifunctional annotations or noise.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0002377","count":3},{"id":"GO:0030277","count":3},{"id":"GO:0042102","count":3}]},{"hash":"858037245204736343","title":"Mitochondrial metabolite and ion transport","description":"The listed GO terms are dominated by various mitochondrial membrane transport activities (deoxynucleotides, NAD, thiamine pyrophosphate, manganese, iron, ATP, etc.), pointing to proteins that function as mitochondrial transporters for diverse substrates. A couple of outliers (necroptosis regulation and pregnancy) seem ancillary to this core theme. ","confidence":"High","size":10,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":4},{"id":"GO:0060546","count":4},{"id":"GO:0035352","count":4},{"id":"GO:0006828","count":4},{"id":"GO:0030974","count":4}]},{"hash":"1229425574441651643","title":"Vascular and cardiac development signaling","description":"This cluster is dominated by GO terms for vasculature development and cardiac muscle cell development, indicating a cardiovascular development theme. It also includes signaling pathways such as calcineurin\u2013NFAT, IL-6\u2013mediated signaling, and thrombin receptor signaling, which are all relevant to cardiovascular growth and remodeling. A few terms related to cell motility and broader development appear, but the strongest signals point to vascular/cardiac development and associated signaling. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001944","count":2},{"id":"GO:0055013","count":2},{"id":"GO:0010592","count":2},{"id":"GO:0051534","count":2},{"id":"GO:0070102","count":2}]},{"hash":"1278215371399764798","title":"Interferon and Cytokine-Mediated Inflammation","description":"Based on the top GO terms, the proteins cluster around immune signaling: production of interferons (type I/II), pro- and anti-inflammatory cytokines (IL-1\u03b2, IL-10), and inflammatory responses to antigenic stimuli, along with regulation of PI3K/AKT signaling and related processes. A single term on synaptic vesicle exocytosis is present but does not define the core theme; the dominant signal is interferon/cytokine\u2013mediated inflammation. Confidence reflects a strong alignment to immune signaling and inflammatory pathways.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":3},{"id":"GO:0045351","count":3},{"id":"GO:0050718","count":3},{"id":"GO:0002437","count":3},{"id":"GO:0032733","count":3}]},{"hash":"121216662225976847","title":"Calcium-Driven Neuronal Differentiation","description":"This cluster is best described by calcium-dependent neuronal differentiation and signaling, as several top GO terms center on neuron differentiation, postsynaptic calcium regulation, and the calcineurin-NFAT pathway, all of which are linked through calcium signaling. While a few terms relate to mitosis/kinetochores, the dominant theme ties to calcium-mediated neuronal development and signaling.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0014883","count":9},{"id":"GO:0030182","count":9},{"id":"GO:1902660","count":9},{"id":"GO:0051315","count":9},{"id":"GO:0033173","count":9}]},{"hash":"940574072536385333","title":"Ubiquitin-dependent signaling and degradation","description":"The proteins here are enriched for ubiquitination processes (autoubiquitination, K63-linked ubiquitination, ubiquitin-dependent proteolysis/ERAD) and touch on multiple signaling pathways (JNK/ERK, Wnt, TNF). This suggests a cohesive theme of ubiquitin-mediated regulation of signaling and proteostasis, rather than a single pathway.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":5},{"id":"GO:0046328","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0030433","count":3}]},{"hash":"919416746683859714","title":"DNA Damage Repair and Environmental Stress Response","description":"Top terms show a strong emphasis on DNA repair (alkylation repair, nucleotide-excision repair, recombination) along with responses to environmental stressors (xenobiotics, cadmium, folic acid) and acute inflammation. This pattern points to a cohesive cluster of proteins involved in genome maintenance under environmental/chemical stress, justifying the label. ","confidence":"High","size":9,"edges":22,"triangles":21,"max_degree":7,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006307","count":3},{"id":"GO:1901291","count":3},{"id":"GO:0002526","count":3},{"id":"GO:0051593","count":3},{"id":"GO:0042493","count":3}]},{"hash":"35373099845688133","title":"Embryonic organogenesis","description":"The top GO terms are dominated by embryonic development of various organs and glands (pancreas, pituitary, eye, Harderian and digestive tract) with mentions of gland morphogenesis and branching, plus ancillary developmental processes. This clearly points to a shared theme of embryonic organ and tissue formation, rather than a single specific function. ","confidence":"High","size":9,"edges":23,"triangles":32,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0031016","count":6},{"id":"GO:0021983","count":6},{"id":"GO:0031076","count":6},{"id":"GO:0070384","count":6},{"id":"GO:0048566","count":6}]},{"hash":"850656524085225283","title":"RNA processing and translation regulation","description":"These proteins cluster around RNA metabolism: mRNA export from the nucleus, spliceosome-mediated splicing and splice-site recognition, regulation of poly(A) tail shortening, and translation initiation/reinitiation (including IRES-dependent processes). The mix of nuclear RNA processing and cytoplasmic translation control suggests a coherent theme of RNA maturation linked to translation regulation, hence this label. ","confidence":"High","size":9,"edges":8,"triangles":2,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006406","count":4},{"id":"GO:1903586","count":3},{"id":"GO:1902625","count":3},{"id":"GO:0060211","count":3},{"id":"GO:0002188","count":3}]},{"hash":"796636054416602078","title":"Translation initiation and ribosome biogenesis","description":"The cluster is dominated by terms about initiating translation (IRES-dependent initiation, translation initiation regulation, preinitiation complex formation, translation reinitiation) and ribosome biogenesis, with supportive links to stress-related mRNA stability and hypoxic response; viral translation terms highlight how translation can be hijacked. This suggests a cohesive theme around how ribosomes are prepared and how translation is started and regulated. ","confidence":"High","size":9,"edges":10,"triangles":1,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0048025","count":4},{"id":"GO:0075522","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0001731","count":3}]},{"hash":"1315823392152515415","title":"Regulation of development and differentiation","description":"The top GO terms cluster around regulatory control of development and cell differentiation across multiple lineages (astrocytes, osteoblasts, pro-B cells) and morphogenetic processes (hindbrain morphogenesis, paraxial mesoderm differentiation, endocardial cushion EMT). Hormonal signaling and cellular responses (thyroid hormone, androgen receptor signaling) further support a theme of broad developmental regulation rather than a single pathway, justifying a label focused on development and differentiation regulation.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:2001038","count":8},{"id":"GO:0048712","count":8},{"id":"GO:0060766","count":8},{"id":"GO:0045668","count":8},{"id":"GO:2000820","count":7}]},{"hash":"155532907206827508","title":"Ubiquitin-Dependent Protein Turnover and Translation Regulation","description":"The top terms cluster around ubiquitin-mediated proteolysis and post-translational modification (ubiquitination, deneddylation, K63-linked ubiquitination) alongside components of translation initiation (preinitiation complex formation, regulation of translational initiation, IRES-dependent initiation). This points to a theme where ubiquitin pathways govern protein turnover and also modulate initiation of protein synthesis. Some terms related to signaling and development appear peripheral but do not override the central theme. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0000338","count":3},{"id":"GO:0048140","count":3},{"id":"GO:0001731","count":3}]},{"hash":"1901870846748329795","title":"Cell growth and developmental signaling","description":"This cluster\u2019s top terms center on proliferation and development, including DNA replication and cell division, plus tissue development (skeletal muscle, nervous system) and signaling pathways (ER-to-Golgi transport and B cell receptor signaling). The common theme appears to be cellular growth, proliferation, and developmental signaling rather than a single specific pathway, so a compact label like \u201cCell growth and developmental signaling\u201d fits best.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0007519","count":2}]},{"hash":"1238284774520968904","title":"Unknown","description":"The terms point to several distinct processes: chromosome condensation and meiotic cohesion, synaptic vesicle trafficking, Golgi-lysosome transport, general cell division and protein complex assembly, plus NK T cell differentiation. No single dominant function emerges, so the cluster appears functionally heterogeneous.","confidence":"","size":9,"edges":12,"triangles":4,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007076","count":1},{"id":"GO:0099590","count":1},{"id":"GO:0048490","count":1},{"id":"GO:0051754","count":1},{"id":"GO:0090160","count":1}]},{"hash":"491102392145432685","title":"Unknown","description":"The terms span placental differentiation, immune signaling, auditory function, plant gravitropism, ubiquitination, and cartilage/kidney morphogenesis. There isn\u2019t a single shared process or pathway across all proteins, suggesting no coherent common function for the cluster. Therefore, Unknown with no confidence is most appropriate.","confidence":"","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0050853","count":1},{"id":"GO:0060806","count":1},{"id":"GO:1990390","count":1}]},{"hash":"1020088753424494132","title":"Neural development and sensory signaling","description":"The top terms are dominated by neural-related processes: neuron projection development, axonogenesis, retina development, and sensory perception of touch, indicating proteins likely involved in neural growth, wiring, and sensory pathways. Additional terms about regulation of GTPase activity and microtubule dynamics support cytoskeletal remodeling essential for neurite outgrowth, while ubiquitination suggests regulation of protein turnover in these pathways. The cell wall macromolecule catabolic term appears as a less fitting outlier but does not override the central neural theme.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":2},{"id":"GO:0007026","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0016998","count":2},{"id":"GO:0060765","count":2}]},{"hash":"1250360568873502548","title":"Ubiquitin-Proteasome Proteostasis and Stress Signaling","description":"The cluster is dominated by GO terms describing ubiquitin-dependent protein degradation and quality control (SCF-dependent ubiquitination, K11-linked ubiquitination, cytoplasmic proteostasis via the ubiquitin-proteasome system). This points to a proteostasis-focused group. Additionally, stress-related pathways such as the JNK cascade and NF-kappaB signaling are represented, suggesting linked signaling responses to protein homeostasis stress. A couple of terms on meiotic DNA double-strand break formation and telomere maintenance hint at broader DNA damage response connections in which ubiquitin-proteasome machinery participates. Overall, the core theme is ubiquitin-proteasome\u2013mediated proteostasis with stress signaling involvement.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":9},{"id":"GO:0070979","count":9},{"id":"GO:0007254","count":9},{"id":"GO:0071629","count":9},{"id":"GO:0042138","count":9}]},{"hash":"382814781320183999","title":"Unknown","description":"The terms include immune processes (phagocytosis, regulation of NK cell cytotoxicity), signaling pathway regulation (Rho/Rac), nitric oxide response, and even developmental terms (parathyroid development, anterior/posterior pattern specification), with one hormone response (cholecystokinin). This mix lacks a single, coherent biological function or pathway that ties the cluster together, so a concise descriptive label is not feasible.","confidence":"","size":9,"edges":10,"triangles":2,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0061847","count":5},{"id":"GO:0006909","count":5},{"id":"GO:0045953","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0035020","count":5}]},{"hash":"1582124273596881402","title":"Developmental Regulation and Sensory Perception","description":"The cluster centers on developmental processes across tissues (mouth roof formation, brain region development, vascular/endothelial changes, brown fat differentiation) and sensory modalities (thermoception and detection of pain/temperature), with accompanying transcriptional regulation signals, suggesting proteins involved in developmental regulatory networks that intersect sensory and metabolic functions.","confidence":"Medium","size":9,"edges":12,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0021759","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0098907","count":4}]},{"hash":"319442664092820942","title":"T and B cell activation and development","description":"The cluster is dominated by GO terms tied to adaptive immunity, including positive regulation of alpha-beta T cell proliferation, gamma-delta T cell differentiation, beta selection, and the B cell receptor signaling pathway, indicating a core role in immune activation and thymic/lymphocyte development. While a few non-immune terms appear, the prevailing theme centers on T and B cell signaling and maturation.","confidence":"High","size":9,"edges":29,"triangles":42,"max_degree":8,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":9},{"id":"GO:0010765","count":9},{"id":"GO:0010571","count":9},{"id":"GO:0010954","count":9},{"id":"GO:0045588","count":9}]},{"hash":"2164042935183062245","title":"Cytoskeletal Dynamics and Signaling Across Tissues","description":"The cluster centers on actin-related processes (actin crosslink formation, GTPase regulation, cell adhesion) that underpin cytoskeletal remodeling and signaling across various tissues. The GO terms span heart development and cardiac contraction (muscle cytoskeleton), visual pathways and phototransduction (eye tissue), neural plasticity (LTP), and immune signaling (BCR signaling and IL-2 production), all of which rely on coordinated cytoskeletal dynamics and signaling networks.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0051764","count":3},{"id":"GO:0007602","count":3}]},{"hash":"955929089171449779","title":"Regulation of GTPase signaling","description":"The top GO terms center on positive regulation of GTPase activity and small GTPase\u2013mediated signaling, with a notable connection to ERK1/ERK2 cascade regulation, indicating a coherent theme of modulating GTPase-driven signaling and downstream MAPK activity. Additional terms reference broader regulatory processes like ubiquitin-dependent proteolysis and spindle organization, suggesting the cluster comprises proteins involved in diverse cellular signaling and regulatory functions.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006511","count":2},{"id":"GO:0007051","count":2},{"id":"GO:0090334","count":2},{"id":"GO:2000301","count":2}]},{"hash":"2072259970293973849","title":"Heart and muscle differentiation with oxidative stress response","description":"This cluster centers on tissue development and function in cardiac and skeletal muscle lineages (heart development, slow-twitch muscle contraction, brown fat differentiation) alongside robust oxidative and nitrosative stress response processes (response to hydrogen peroxide, nitrosative stress, hydrogen peroxide catabolic process, response to toxic substances). The shared theme appears to be development of cardiac/skeletal/metabolic tissues with associated protective stress-response pathways.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0042542","count":3},{"id":"GO:0010942","count":2},{"id":"GO:0050873","count":2},{"id":"GO:0051409","count":2}]},{"hash":"1031548972821848595","title":"Actin Cytoskeleton and Immune Signaling","description":"The cluster centers on actin dynamics (polymerization, filament organization) and vesicle trafficking (transcytosis, lysosome localization), which are fundamental for immune cell functions. The presence of B cell receptor signaling, IL-2 production, and mast cell proliferation terms indicates a strong immune signaling component, likely linked to cytoskeleton-dependent trafficking and signaling in immune cells. A few outlier terms exist but do not dominate the theme.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045056","count":5},{"id":"GO:0060378","count":5},{"id":"GO:0008154","count":5},{"id":"GO:1903764","count":5},{"id":"GO:1900042","count":5}]},{"hash":"494987301303027486","title":"Neuronal signaling and dendrite remodeling","description":"Top terms point to synaptic regulation and dendritic growth (short-term potentiation, presynaptic signaling to nucleus, regulation of dendrite extension) along with lipid-mediated signaling (phosphatidylinositol signaling, phosphatidylcholine metabolism, icosanoid biosynthesis) that modulate synapses. A few terms are less directly related (salt stress regulation, aging), but the core theme centers on neuronal communication and dendritic dynamics.","confidence":"Medium","size":9,"edges":9,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001302","count":3},{"id":"GO:1990926","count":2},{"id":"GO:1901002","count":2},{"id":"GO:0046456","count":2},{"id":"GO:0048015","count":2}]},{"hash":"505136059232561334","title":"Ubiquitination-Regulated Innate Immunity and Development","description":"The cluster centers on innate immune response and ubiquitination processes (K63-linked ubiquitination, autoubiquitination), suggesting ubiquitin-mediated control of immune signaling. Other terms point to transcriptional regulation and developmental processes (DNA-templated transcription, multicellular development, neural tube closure), implying regulatory roles in immunity and development. The lack of edges indicates these proteins may be annotated to shared themes rather than forming a single tight interaction network.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0071276","count":3}]},{"hash":"246319647723563658","title":"Plant meiosis and gamete development","description":"The cluster centers on plant reproductive processes, with terms for pollen development, embryo sac development, endodermal differentiation, and meiotic recombination/DSB repair, suggesting a meiosis and gametogenesis theme in plants. Some translation and stress response terms appear incidental.","confidence":"Medium","size":9,"edges":30,"triangles":50,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1990145","count":1},{"id":"GO:0032232","count":1},{"id":"GO:0006414","count":1},{"id":"GO:0071479","count":1},{"id":"GO:0035987","count":1}]},{"hash":"1825463696036931990","title":"Lymphocyte activation and development","description":"The top GO terms cluster around lymphocyte-specific processes: positive regulation of T cell proliferation, gamma-delta T cell differentiation, and B cell receptor signaling, along with beta selection, indicating immune cell development and activation. Other terms touch on cell cycle and protein processing, which can accompany proliferation, while a few outliers (visual perception, ECM disassembly) are less central but do not override the dominant lymphocyte-focused theme. Overall, the cluster represents lymphocyte signaling and development functions. ","confidence":"Medium","size":9,"edges":34,"triangles":70,"max_degree":8,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":9},{"id":"GO:0010765","count":9},{"id":"GO:0010571","count":9},{"id":"GO:0010954","count":9},{"id":"GO:0045588","count":9}]},{"hash":"610547906272159579","title":"Epigenetic control of inflammatory signaling","description":"The terms show a clear link between epigenetic regulation (epigenetic programming, histone turnover) and immune/inflammatory pathways (NF-\u03baB, I\u03baB phosphorylation, JNK, IL-17 signaling, chemokine production), including host defense roles against viruses and symbionts, which supports a cohesive label centered on epigenetic regulation of inflammatory signaling.","confidence":"High","size":9,"edges":11,"triangles":0,"max_degree":7,"top_function":"autophagy","top_go_terms":[{"id":"GO:0043045","count":7},{"id":"GO:1903883","count":7},{"id":"GO:1902187","count":7},{"id":"GO:1903886","count":7},{"id":"GO:0036205","count":7}]},{"hash":"2182601084184428483","title":"Signaling-Driven Transcription Regulation","description":"The proteins show GO terms linking signaling pathways (SMAD signaling, steroid hormone response, Ca2+ regulation) to transcriptional control (RNA Pol II/III initiation and preinitiation complex assembly). Developmental and immune-related processes (ovarian follicle development, immature T cell proliferation) further support a theme where signaling cascades regulate gene expression, rather than a single, unified metabolic function.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007204","count":1},{"id":"GO:0075297","count":1},{"id":"GO:0060395","count":1},{"id":"GO:0060261","count":1},{"id":"GO:0045945","count":1}]},{"hash":"1515368965518475732","title":"Inflammatory Cytokine and Lipid Mediator Response","description":"Dominant signals point to inflammatory signaling and lipid mediator pathways\u2014for example acute and chronic inflammatory responses (GO:0002526, GO:0002544), leukotriene production in inflammation (GO:0002540), and cytokine response (GO:0034097). Additional terms like cellular response to lipid hydroperoxide (GO:0071449) and retinoic acid response provide supportive context. A single term about sound perception appears incidental, so the core cluster reflects inflammation and lipid signaling rather than a single sensory function.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0071277","count":1},{"id":"GO:0014070","count":1},{"id":"GO:0034097","count":1},{"id":"GO:0002544","count":1}]},{"hash":"2175153240213729894","title":"Amino acid and cofactor biosynthesis","description":"The listed GO terms point to multiple biosynthetic processes, including amino acid synthesis (alanine, histidine), vitamin/cofactor biosynthesis (biotin, cobalamin), heme, sphinganine, and lipid-related biosynthesis, suggesting the proteins collectively participate in diverse biosynthetic/metabolic pathways rather than a single specific function.","confidence":"Medium","size":9,"edges":11,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0097053","count":4},{"id":"GO:0006783","count":4},{"id":"GO:0019551","count":4},{"id":"GO:0009236","count":4},{"id":"GO:0055089","count":4}]},{"hash":"1716818770760538951","title":"Retinoid Metabolism and Neural Patterning","description":"The cluster shows strong enrichment for retinol and retinal metabolic processes, coupled with forebrain development and anterior/posterior pattern specification, indicating a retinoic acid\u2013driven role in neural patterning. Additional metabolic terms (folate one-carbon metabolism, proline metabolism, carbon utilization) likely support developmental biosynthesis, but the core signal appears to be retinoid metabolism linked to brain patterning.","confidence":"High","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:0009855","count":8},{"id":"GO:0055129","count":8},{"id":"GO:0009258","count":8}]},{"hash":"1653805056542560831","title":"Unknown","description":"The GO terms cover bone development, peroxisomal fatty acid oxidation, apoptosis, membrane proteolysis regulation, peroxisome localization, dendritic cell chemotaxis, cytokinesis, and endocytosis regulation, showing no single shared function. ","confidence":"","size":9,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":2},{"id":"GO:0001561","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0051044","count":2},{"id":"GO:0060152","count":2}]},{"hash":"414328578431227286","title":"Cardiac and Liver Development with Lipid Biosynthesis","description":"The top GO terms center on organ development in cardiac and hepatic tissues (heart development, cardiac muscle differentiation, liver development) and lipid biosynthesis pathways (steroid biosynthesis, fatty-acyl-CoA, carnitine). The presence of stress response terms (response to xenobiotic, starvation, cold) suggests associated metabolic adjustments. Together, these indicate a cohesive theme of cardiac and liver development intertwined with lipid metabolic processes.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0042493","count":3},{"id":"GO:0006694","count":3},{"id":"GO:0042594","count":3},{"id":"GO:0045329","count":3}]},{"hash":"426227040175239646","title":"Metabolic Regulation and Stress Signaling","description":"The cluster includes core metabolism terms (TCA cycle, oxaloacetate, glyoxylate cycle, NADH) alongside stress and signaling responses (estrogen, cAMP, hydrogen peroxide, nutrient response) and apoptosis regulation, suggesting a group coordinating energy metabolism with cellular stress signaling.","confidence":"Medium","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0043627","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0051591","count":5},{"id":"GO:0006734","count":5}]},{"hash":"358647235655378340","title":"RNA and protein methylation cluster","description":"The GO terms are dominated by methylation-related processes, including rRNA methylation, multiple peptidyl methylations (lysine, arginine, glycine, glutamine) and histone methylation (e.g., H4 methylation and rDNA heterochromatin formation). This points to a cohesive group of enzymes or regulators involved in methyltransferase activity across RNA, histones, and proteins, with some secondary links to methyl-group metabolism (cobalamin biosynthesis) or stress responses (tellurium ion). Confidence: High","confidence":"","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031167","count":9},{"id":"GO:0018027","count":7},{"id":"GO:0018013","count":6},{"id":"GO:0000183","count":6},{"id":"GO:0018023","count":6}]},{"hash":"857872713055234627","title":"Plant meiosis and chromatin regulation","description":"These terms point to reproductive development in plants (embryo sac and pollen) together with meiotic recombination and DNA repair activities, and chromatin regulation (heterochromatin formation and histone modifications). The convergence on meiosis-specific processes and chromatin control suggests the cluster represents proteins functioning in plant meiosis and epigenetic regulation during gametogenesis.","confidence":"High","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0009553","count":1},{"id":"GO:0006302","count":1},{"id":"GO:0009555","count":1},{"id":"GO:0007131","count":1},{"id":"GO:0031937","count":1}]},{"hash":"2282272511650308417","title":"Glycosaminoglycan and Xenobiotic Metabolism","description":"The GO terms point to glycosaminoglycan biosynthesis and related sugar metabolism (heparan sulfate, dermatan sulfate, N-acetylglucosamine) alongside diverse xenobiotic and hormone-related catabolic processes (flavonoids, bile acids, estrogen, ethanol). This suggests a functional cluster centered on metabolic processing, especially glycosaminoglycan-related pathways and xenobiotic detoxification.","confidence":"Medium","size":9,"edges":13,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000103","count":3},{"id":"GO:0030573","count":3},{"id":"GO:0030210","count":3},{"id":"GO:0030205","count":3},{"id":"GO:0015012","count":3}]},{"hash":"2140910350205300161","title":"Cerebellar development and neural signaling","description":"The top terms point clearly to cerebellar development, notably cerebellar cortex formation and Bergmann glial cell differentiation, with supporting neural-derivative terms like regulation of oligodendrocyte progenitor proliferation and axon regeneration. Some immune-related terms are present, but the cerebellar development signals dominate, suggesting a primary neural/developmental theme with ancillary immune signaling. ","confidence":"Medium","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":5},{"id":"GO:0048679","count":5},{"id":"GO:0034141","count":5},{"id":"GO:0021697","count":5},{"id":"GO:0050852","count":5}]},{"hash":"295051908842654869","title":"Mitochondrial Transporters","description":"Dominant GO terms describe transmembrane transport into/within the mitochondrion for diverse substrates (deoxynucleotide, NAD, thiamine pyrophosphate, manganese, iron, ATP, ornithine), supporting a cohesive theme of mitochondrial transport proteins. Some outlier terms (necroptotic regulation, pregnancy) are present but do not override the clear transport-centric pattern.","confidence":"High","size":9,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030302","count":3},{"id":"GO:0060546","count":3},{"id":"GO:0035352","count":3},{"id":"GO:0006828","count":3},{"id":"GO:0030974","count":3}]},{"hash":"312380011897527279","title":"Ubiquitin-Proteasome Regulation of Mitosis and DNA Repair","description":"The cluster is dominated by terms for SCF-dependent proteasomal ubiquitin-dependent protein degradation, mitotic control (G2/M transition, exit from mitosis, chromosome segregation), and cytoplasmic protein quality control, pointing to a core function in regulating cell cycle progression via ubiquitin-proteasome pathways. The inclusion of DNA repair (NER) and meiotic DSB formation suggests a broader genome integrity link, with JNK signaling indicating stress-related crosstalk; together these terms define a proteasome/ubiquitin\u2013driven module governing mitosis and DNA repair.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0031146","count":8},{"id":"GO:0070911","count":8},{"id":"GO:0010458","count":8},{"id":"GO:0016032","count":8},{"id":"GO:0007059","count":8}]},{"hash":"529439246940465608","title":"Fungal mating and cell wall biosynthesis","description":"This cluster is anchored by karyogamy in conjugation with cellular fusion and fungal-type beta-glucan biosynthesis, indicating mating-related nuclear fusion and construction of the fungal cell wall. Other terms reflect core growth and stress-responsive processes (DNA replication, iron-sulfur cluster assembly, chaperone-assisted protein folding, membrane targeting) that commonly accompany fungal development and wall biogenesis, supporting a cohesive module around fungal mating and cell wall biosynthesis.","confidence":"Medium","size":8,"edges":7,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000742","count":6},{"id":"GO:0070389","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0016226","count":4},{"id":"GO:0070880","count":4}]},{"hash":"228978054009529128","title":"Inflammatory and cardiovascular signaling","description":"The GO terms point to a network of inflammatory cues (lipopolysaccharide response, prostaglandin signaling, nitric oxide response), vascular/cardiac functions (heart development, smooth muscle contraction), and immune signaling (B cell receptor pathway), plus transcriptional regulation (DNA-templated transcription, JUN phosphorylation). This suggests a cluster involved in coordinating immune and cardiovascular signaling with gene regulation. ","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0071380","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0006351","count":2}]},{"hash":"2164623335271155936","title":"Stress-response and vesicle trafficking regulation","description":"The cluster\u2019s top GO terms cluster around cellular stress signaling (ER stress\u2013induced apoptosis, TNF and TLR3 signaling, autophagy regulation) and membrane trafficking (negative regulation of clathrin-dependent endocytosis, autophagosome maturation). This points to a coherent theme of intracellular stress responses coupled with trafficking control, with translation as a broad core process and a few peripheral terms. ","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1901097","count":8},{"id":"GO:0010636","count":8},{"id":"GO:1900186","count":8},{"id":"GO:1903265","count":8},{"id":"GO:0034140","count":8}]},{"hash":"1640331619167319648","title":"Transcription, RNA Processing, and Ribosome Biogenesis","description":"This cluster is dominated by GO terms related to gene expression and protein synthesis machinery, including DNA-templated transcription, mRNA splicing via spliceosome, ribosome biogenesis, and mitotic cell cycle, which together point to a group of proteins involved in transcription, RNA processing, and preparation for cell division. Some terms like copper ion transport and membrane repolarization seem peripheral or reflect multifunctional proteins, but the core theme is gene expression and cell cycle progression.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0000398","count":2}]},{"hash":"1124336616231496426","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":14,"triangles":12,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1902775","count":8},{"id":"GO:0000398","count":8},{"id":"GO:0042273","count":8},{"id":"GO:1903608","count":8},{"id":"GO:0000390","count":8}]},{"hash":"1861576176067133928","title":"Ion and metabolite transmembrane transporters","description":"This cluster is characterized by GO terms tied to moving ions and small molecules across membranes (chloride, bicarbonate, sulfate, L-aspartate, fructose) and related membrane-potential regulation and pH changes, pointing to transporter/channel proteins. A couple of terms like sensory perception of sound or sperm capacitation appear more peripheral, but the core theme is membrane transport activity. The sparse connectivity (edge 1) suggests a loose grouping around transport functions rather than a single cohesive pathway.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051454","count":2},{"id":"GO:1902358","count":2},{"id":"GO:0089712","count":2},{"id":"GO:1902476","count":2},{"id":"GO:0007605","count":2}]},{"hash":"1265856922800361526","title":"Neuronal signaling and plasticity regulation","description":"This cluster shows terms tied to neural signaling and plasticity: negative regulation of excitatory postsynaptic potential and associative learning suggest synaptic regulation, while negative regulation of NF-kappaB signaling and receptor internalization implicate activity-dependent transcription and receptor trafficking. Nuclear membrane/envelope organization and intermediate filament cytoskeleton remodeling hint at structural changes supporting plasticity. Taken together, the proteins likely participate in neuronal signaling and activity-dependent cellular remodeling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090394","count":2},{"id":"GO:0043124","count":2},{"id":"GO:0002091","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0008306","count":2}]},{"hash":"519832232451589266","title":"Mitotic Division and ER-Golgi Trafficking","description":"Most frequent GO terms cluster around mitosis and cell cycle (mitotic spindle assembly, cell division, mitotic cell cycle, multicellular growth, brain development) together with secretory pathway processes (COPII-coated vesicle budding, ER-to-Golgi and Golgi-to-ER vesicle transport) and organelle contact (mitochondrion\u2013ER tethering). This pattern suggests proteins in the cluster coordinate cell division with vesicle trafficking and ER\u2013Golgi dynamics. ","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035264","count":7},{"id":"GO:0008283","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0090114","count":6},{"id":"GO:0090307","count":6}]},{"hash":"576670107235764658","title":"Oxidative Stress Response and Redox Homeostasis","description":"The cluster centers on redox biology: multiple terms point to oxidation-reduction processes, cellular redox homeostasis, cellular response to oxidative stress, and detoxification of oxidants. Additional terms about transcription and nucleotide biosynthesis appear as broader metabolic context, but the strongest signal is oxidative stress response and redox regulation.","confidence":"Medium","size":8,"edges":7,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006351","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0003147","count":2}]},{"hash":"1686702386729979376","title":"Proteostasis and Autophagy Regulation","description":"This cluster centers on autophagy control, ERAD-associated pathways, and ubiquitin-dependent protein turnover, including aggrephagy. The GO terms emphasize negative regulation of autophagosome maturation and ER quality-control processes, suggesting a set of proteins that regulate protein quality control and selective autophagy rather than performing the core degradation steps.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1901097","count":3},{"id":"GO:1900186","count":3},{"id":"GO:0034140","count":3},{"id":"GO:0016579","count":3},{"id":"GO:1904378","count":3}]},{"hash":"1752633488342748987","title":"Hair follicle morphogenesis and vesicle trafficking","description":"These proteins show enrichment in hair follicle development and multiple vesicle trafficking processes (synaptic vesicle exocytosis, endocytosis, intracellular protein transport) alongside mechanotransduction and tissue homeostasis signals (response to mechanical stimulus, regulation of fibroblast proliferation, homeostasis of cell numbers). This pattern points to a cluster involved in skin/hair follicle development with coordinated vesicle transport and signaling. ","confidence":"Medium","size":8,"edges":7,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016079","count":2},{"id":"GO:0048873","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1635682089954640929","title":"Unknown","description":"The top GO terms span diverse functions from DNA replication and transcription to mRNA export, ribosomal assembly, protein catabolic processes, and also include photosynthesis, bacteriochlorophyll biosynthesis, gas vesicle organization, cilium movement, and neuronal vesicle transport. This mixture covers unrelated processes across different organisms, offering no single cohesive function to define the cluster.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006406","count":4},{"id":"GO:0030163","count":4},{"id":"GO:0003341","count":3},{"id":"GO:1990048","count":3}]},{"hash":"1790275277581908608","title":"Spliceosome-Driven mRNA Splicing Regulation","description":"The top terms cluster around mRNA splicing and spliceosome assembly/processing (splicing recognition, RNA splicing, mRNA processing, tri-snRNP complex assembly, and regulation of splicing via the spliceosome), indicating a cohesive role in RNA processing rather than other processes. Minor terms related to development appear incidental. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":4},{"id":"GO:0006397","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0048701","count":2}]},{"hash":"921530686079130284","title":"Multisystem Development and Organogenesis","description":"This cluster's terms cover nervous system development, nephron development, heart/endocardial cushion formation, vascular barrier establishment, as well as adhesion and polarity processes and even germinal center differentiation. The common thread is participation in developmental programs across multiple tissues and systems, rather than a single specialized function, suggesting a broad, organogenesis-related role for these proteins.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070445","count":3},{"id":"GO:0007399","count":3},{"id":"GO:1903142","count":3},{"id":"GO:0007596","count":2},{"id":"GO:0003273","count":2}]},{"hash":"2086965378304106580","title":"Leukocyte adhesion and T/B cell activation","description":"This cluster is enriched for GO terms related to leukocyte cell adhesion (homophilic and heterophilic) and adaptive immune signaling, including T cell costimulation, B cell receptor signaling, and regulation of CD8+ T cell apoptosis. Together these indicate proteins involved in immune cell interactions and activation, with some related host-pathogen entry signals, but the dominant theme centers on adhesion and activation of T and B cells.","confidence":"High","size":8,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":4},{"id":"GO:0031295","count":4},{"id":"GO:0007157","count":4},{"id":"GO:1900042","count":3},{"id":"GO:0050853","count":3}]},{"hash":"2210433767148666253","title":"Intestinal brush border cytoskeleton remodeling","description":"The top GO terms point to actin- and Rho-driven cytoskeletal processes (filopodium/microvillus assembly, microvillus length regulation, terminal web), integrin signaling, and endosomal trafficking, all of which are key to brush-border architecture and function in intestinal enterocytes, including absorption. This cohesive theme supports labeling the cluster as intestinal brush border cytoskeleton remodeling.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0046847","count":4},{"id":"GO:0033623","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0033622","count":4},{"id":"GO:0045792","count":4}]},{"hash":"1675653881199456420","title":"Neuronal development and axon guidance","description":"This cluster shows strong enrichment for neural development and neurite guidance processes, including Roundabout signaling (Robo), axon fasciculation, forebrain migration, chemorepulsion in interneuron migration, and trans-synaptic signaling, along with BMP pathway involvement and photoreceptor differentiation. The common thread is neural patterning, migration, and synaptic wiring during development, suggesting a cohesive role in guiding neural connectivity.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1902948","count":6},{"id":"GO:0030513","count":6},{"id":"GO:0010172","count":6},{"id":"GO:0021836","count":6},{"id":"GO:0007169","count":6}]},{"hash":"1300705131119874446","title":"Mammary gland branching morphogenesis signaling","description":"This cluster centers on signaling pathways that drive mammary gland duct branching, with terms related to calcium signaling, ERK/MAPK activation, and responses to growth factors (PDGF, insulin) and retinoic acid. The explicit GO term for branching involved in mammary gland duct morphogenesis ties the proteins to mammary development, while accompanying terms reflect the signaling network (calcium-mediated signaling, ERK cascade, and growth factor responses) that regulate this process.","confidence":"High","size":8,"edges":11,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051281","count":6},{"id":"GO:0042531","count":6},{"id":"GO:0036120","count":6},{"id":"GO:0060444","count":6},{"id":"GO:0032869","count":6}]},{"hash":"1905693122253087222","title":"Rho GTPase\u2013driven exocytosis","description":"Top GO terms indicate a core hub of Rho GTPase signaling linked to vesicle fusion and exocytosis, with additional developmental context across species. The strongest signals are positive regulation of GTPase activity, Rho-mediated signal transduction, and vesicle fusion/exocytosis, suggesting a module coordinating cytoskeletal dynamics with membrane trafficking. Some developmental terms appear as broader downstream roles, but the central theme remains GTPase-regulated exocytosis.","confidence":"High","size":8,"edges":23,"triangles":30,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0007399","count":5},{"id":"GO:0001302","count":4},{"id":"GO:0045956","count":4},{"id":"GO:0009789","count":4}]},{"hash":"1673300854444892256","title":"Neural development and axon guidance","description":"For this cluster, the prominent terms point to developmental signaling and neural patterning: Roundabout signaling and chemorepulsion regulate interneuron migration; BMP signaling and adenosine receptor signaling are key developmental pathways; cell surface receptor tyrosine kinase signaling underpins growth factor responses; and processes like retina morphogenesis, corpus callosum development, and collagen fibril organization reflect broader morphogenesis with a neural emphasis. The inclusion of sodium channel clustering also aligns with neuronal differentiation and excitability, supporting a cohesive theme of neural development and axon guidance.","confidence":"High","size":8,"edges":23,"triangles":36,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030513","count":7},{"id":"GO:0021836","count":7},{"id":"GO:0007169","count":7},{"id":"GO:0035385","count":7},{"id":"GO:0007507","count":7}]},{"hash":"52498346663350508","title":"Immune signaling and cytoskeletal dynamics","description":"The terms center on immune signaling (B cell receptor signaling, positive regulation of IL-2 production, mast cell proliferation) while also highlighting cytoskeletal and trafficking processes (transcytosis, actin filament organization, lysosome localization, cleavage furrow formation). This suggests a cluster where immune signaling is coupled to vesicular trafficking and cytoskeletal remodeling. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045056","count":7},{"id":"GO:0060378","count":7},{"id":"GO:1900042","count":7},{"id":"GO:1903764","count":7},{"id":"GO:0010954","count":7}]},{"hash":"1004391437701250880","title":"Cardiac electrical activity and ion homeostasis","description":"Most of the GO terms point to cardiac electrophysiology: membrane depolarization and its regulation in atrial, bundle of His, and Purkinje ventricular cells. The presence of terms about Mg2+ homeostasis and Mn2+ transport suggests ion balance is important for this cluster\u2019s function. While a few terms refer to sensory detection (CO2, hypoxia, touch), these seem less central to the core theme and may reflect broader protein functions. Overall, the cluster appears enriched for genes involved in cardiac action potential generation/regulation and associated ion handling, justifying this label.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003031","count":7},{"id":"GO:0098912","count":7},{"id":"GO:0050976","count":7},{"id":"GO:0001666","count":7},{"id":"GO:0006828","count":7}]},{"hash":"662504689299988291","title":"Developmental morphogenesis and cell migration","description":"Top GO terms indicate a theme of embryonic development: endocardial progenitor cell migration during heart field formation, bone development, sprouting angiogenesis, and axon guidance/extension. While there are some immune signaling terms (TLR9, TGF-\u03b21, IL-18), the dominant signal is developmental morphogenesis and cell migration. The label is representative and concise, with Medium confidence due to some terms that are less cohesive.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003262","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0002042","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0007413","count":3}]},{"hash":"1014593227353592696","title":"Neuronal development and mitochondrial dynamics","description":"The top GO terms cluster around CNS neuron development and neuron projection development, memory, and mitochondrial processes (membrane potential regulation and distribution), plus microtubule organization and calcium signaling, suggesting coordinated neuronal differentiation/projection with mitochondrial localization and signaling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007613","count":4},{"id":"GO:0021954","count":4},{"id":"GO:0010917","count":4},{"id":"GO:1902474","count":4},{"id":"GO:1902856","count":4}]},{"hash":"670146760715794311","title":"Mitochondrial apoptosis and fission regulation","description":"The GO terms center on mitochondrial functions: regulation of cytochrome c release, p53-mediated DNA damage response, mitochondrial fission, and mitochondrial membrane processes like phospholipid transport and respiratory chain assembly. Together these suggest a theme of mitochondrial stress response, apoptosis signaling, and dynamic remodeling, making this label representative of the cluster\u2019s function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090201","count":1},{"id":"GO:0030330","count":1},{"id":"GO:2001140","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0045332","count":1}]},{"hash":"1256792250235336008","title":"Stress-Responsive Translation Regulation","description":"The dominating GO terms point to cellular stress responses that tune protein synthesis, including regulation of cytoplasmic translation in response to stress, GCN2-mediated signaling, and cellular responses to leucine and glucose starvation. Although a sarcomere organization term appears, the core pattern is nutrient sensing and translational control under stress rather than a single structural process. This suggests the cluster comprises proteins involved in adjusting translation and stress signaling during nutrient scarcity or stress conditions.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":3},{"id":"GO:1990497","count":2},{"id":"GO:0042149","count":2},{"id":"GO:0072755","count":2},{"id":"GO:0097201","count":2}]},{"hash":"1427769692517762126","title":"Actin Cytoskeleton Organization and Dendrite Extension","description":"This cluster centers on actin cytoskeleton dynamics (actin filament organization, actin cytoskeleton organization) and processes tied to neuron morphology (dendrite extension). The presence of negative regulation of focal adhesion assembly and phosphorylation/dephosphorylation terms suggests signaling control of cytoskeletal remodeling. Other metabolism terms are less central to the core theme, making the cytoskeleton/neural morphology link the most representative.","confidence":"High","size":8,"edges":10,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016311","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0006195","count":1},{"id":"GO:0046085","count":1},{"id":"GO:0016310","count":1}]},{"hash":"647631170903394166","title":"Developmental Polarity and Tissue Differentiation","description":"The GO terms point to development across tissues (hair follicle, somite, eye, inner ear, brown fat, tracheal system) and to polarity establishment (epithelial/planar polarity) and receptor clustering, suggesting a theme of morphogenesis and tissue organization across multiple contexts.","confidence":"Medium","size":8,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001942","count":5},{"id":"GO:0035001","count":4},{"id":"GO:0021812","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0090251","count":4}]},{"hash":"2079282098768753007","title":"Neural development and tight junction barrier formation","description":"The cluster prominently includes nervous system development and bipolar cell growth terms, along with tight junction assembly and establishment of endothelial barriers, pointing to neural development intertwined with barrier/junction formation. Additional terms about exocytosis regulation and ER-to-Golgi transport support vesicle trafficking and neurotransmitter release in developing neurons; the other terms (cell cycle, ribosomal export) are more general and less defining for the cluster\u2019s core theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070830","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0045956","count":4},{"id":"GO:0007399","count":4}]},{"hash":"115433166207705807","title":"Methylation-Driven Transcriptional Regulation","description":"The cluster is dominated by GO terms tied to methylation events (histone H4-R3 methylation, rRNA methylation, peptidyl-arginine and peptidyl-glutamine methylation) and negative regulation of transcription by RNA polymerase II, suggesting a shared theme of chromatin and RNA modification shaping gene expression. Some outlier terms (neuron development, primitive streak formation, vitamin B12 biosynthesis, tellurium response) may reflect broader roles of the included proteins or annotation noise, but the core signal points to methylation-dependent transcriptional regulation.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0048935","count":3},{"id":"GO:0090009","count":3},{"id":"GO:0009236","count":2},{"id":"GO:0043985","count":2}]},{"hash":"789568242345550203","title":"Developmental signaling and synapse organization","description":"The cluster\u2019s GO terms span nervous system development, synapse-related assembly (presynaptic active zone, PSD-95 clustering), and cell adhesion/signaling (intermicrovillar adhesion, integrin activation, planar polarity), plus broader developmental processes (endocardial cushion and nephron development). This combination points to proteins involved in coordinated tissue development and neural connectivity, anchored by adhesion and signaling at cell interfaces. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003273","count":3},{"id":"GO:0070445","count":3},{"id":"GO:0090675","count":3},{"id":"GO:1904071","count":3},{"id":"GO:0072006","count":3}]},{"hash":"824065570199576482","title":"Unknown","description":"The top GO terms are a mix of mitochondrial-related processes (some obsolete) and a wide array of unrelated functions such as gap junction transport, tubule development, sporulation, saliva secretion, and eye-related processes. There is no clear, shared biological function linking these terms, making a coherent cluster label unreliable.","confidence":"","size":8,"edges":8,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0072321","count":2},{"id":"GO:0045039","count":2},{"id":"GO:0006626","count":2},{"id":"GO:1990349","count":1},{"id":"GO:0072014","count":1}]},{"hash":"1121678312171809815","title":"Developmental transcriptional regulation","description":"The cluster combines GO terms for transcription control (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) with a range of organ and tissue development processes (roof of mouth development, inner ear morphogenesis, pharyngeal system development, uterus and male gonad development, neuronal commitment, pancreatic cell differentiation). This points to proteins that regulate gene expression during developmental programs across multiple tissues.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0060021","count":5},{"id":"GO:0060065","count":4},{"id":"GO:0072107","count":4},{"id":"GO:0021902","count":4}]},{"hash":"1662994860316682178","title":"Embryonic Development and Organogenesis","description":"The GO terms are dominated by broad developmental processes (palatal/roof-of-mouth development, mesoderm development, cartilage morphogenesis, left-right patterning, pancreas endocrine/ductal development, placenta-related differentiation, and endocrine system development), indicating a cluster of proteins involved in early development and organ formation. A lone term about transcriptional regulation by RNA Pol II also aligns with developmental gene regulation, though the central theme is embryonic tissue patterning and organ morphogenesis.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0010957","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0003323","count":2}]},{"hash":"1481614244885410684","title":"B cell signaling and lymphocyte activation","description":"The top GO terms are dominated by B cell receptor signaling and B cell proliferation, with activation-induced cell death of T cells also appearing, which points to an immune lymphocyte function cluster. While there are a few terms related to cell migration and tissue barrier establishment, the strongest and most frequent signals concern B cell\u2013mediated signaling and lymphocyte activation, making this the best shared theme for the cluster.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0060546","count":2},{"id":"GO:0007205","count":2}]},{"hash":"89934937053975142","title":"RNA Pol II Transcription Regulation","description":"The top GO terms are dominated by regulation of transcription by RNA polymerase II (positive/negative regulation and DNA-templated transcription), suggesting the proteins cluster around transcriptional control. A few metabolism-related terms appear, but they are far less represented, so transcription regulation is the most representative theme.","confidence":"High","size":8,"edges":8,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046022","count":5},{"id":"GO:0070895","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0010729","count":5},{"id":"GO:0006351","count":5}]},{"hash":"1823250969457123271","title":"Mitochondrial lipid remodeling and ATP synthesis","description":"The cluster is enriched for lipid metabolism and mitochondrial energy-related terms: remodelling of phosphatidylcholine and cardiolipin, triglyceride biosynthesis, and mitochondrial ATP synthesis via oxidative phosphorylation. These consistently point to mitochondrial membrane lipid homeostasis supporting energy production. A few terms reference development or immune processes, but they appear pleiotropic rather than defining the main theme.","confidence":"High","size":8,"edges":19,"triangles":20,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":6},{"id":"GO:0002071","count":6},{"id":"GO:0010143","count":6},{"id":"GO:2001246","count":6},{"id":"GO:0021587","count":6}]},{"hash":"461135778520390435","title":"Unknown","description":"The GO terms are highly diverse, covering host-symbiont entry, cell adhesion and junctions, developmental/morphogenesis processes, and inflammatory responses, with two obsolete terms. There isn\u2019t a single coherent biological theme linking these eight proteins, and the lack of edges suggests no direct functional coupling, so a single descriptive label isn\u2019t justifiable.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0032516","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0030913","count":3},{"id":"GO:0010765","count":2}]},{"hash":"970112132140083890","title":"Innate Immune Response","description":"The top GO terms are dominated by innate immune functions: innate immune response, defense response to Gram-positive bacterium, and response to yeast. These point to an immune-defense theme for the cluster, while the other terms (metabolic and developmental) appear less directly connected and may reflect annotation noise or pleiotropy. Therefore, a concise label reflecting the prevailing function is Innate Immune Response. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0001878","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0071300","count":2},{"id":"GO:0050830","count":2}]},{"hash":"615845973350702361","title":"Embryonic and placental tissue differentiation","description":"The proteins cluster around a set of development-related GO terms, notably placental/trophoblast differentiation, mesoderm development, craniofacial/palate formation, left-right patterning, and other embryonic differentiation processes. This points to a common theme of embryonic tissue differentiation, especially along placental/mesoderm lineages, rather than a shared molecular function. Confidence: High.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":8},{"id":"GO:0060536","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0060972","count":8},{"id":"GO:0003323","count":8}]},{"hash":"254465162119988773","title":"Mitotic spindle and chromosome alignment","description":"The cluster is dominated by mitosis-related GO terms: spindle assembly, centrosome separation, regulation of microtubule-based processes, and chromosome alignment/kinetochore attachments, indicating a coherent theme of spindle dynamics and chromosome segregation during cell division (with a few growth/homeostasis terms as supplemental context). ","confidence":"High","size":7,"edges":14,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001560","count":7},{"id":"GO:0090307","count":7},{"id":"GO:0007100","count":7},{"id":"GO:0032886","count":7},{"id":"GO:0007080","count":7}]},{"hash":"2261122310281292269","title":"Planar cell polarity in neurulation","description":"This cluster centers on planar cell polarity and embryonic epithelial morphogenesis, as shown by multiple GO terms about establishing planar polarity, neural tube closure, and cytoskeleton organization tied to PCP. Additional terms point to secretory transport, collagen organization, and vascular integrity, suggesting a broader role in epithelial remodeling and tissue morphogenesis during development.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090176","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0042249","count":2}]},{"hash":"2260931371782021733","title":"Iron Homeostasis and Stress Response","description":"Top GO terms point to iron-sulfur cluster assembly and intracellular iron sequestration, indicating a core role in iron handling. Additional terms relate to protein targeting and broad stress-response regulation (ER stress, heat, and oxidative stress-related apoptosis), suggesting a cluster of proteins involved in maintaining iron metabolism under cellular stress, even if several terms are obsolete. Overall, the theme centers on iron homeostasis linked with stress protection.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016226","count":7},{"id":"GO:0070389","count":7},{"id":"GO:0070880","count":7},{"id":"GO:1903382","count":7},{"id":"GO:0006880","count":7}]},{"hash":"2142266797792955146","title":"Unknown","description":"The listed GO terms span inflammatory and vascular regulation, immune cell chemotaxis, tissue development, and several sensory/cognitive processes, along with a bacterial cell wall component. This diversity makes it hard to identify a single cohesive function or theme tying the proteins together, so a specific, concise label is not identifiable.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":6},{"id":"GO:0035106","count":6},{"id":"GO:0046541","count":6},{"id":"GO:0009253","count":6},{"id":"GO:0014829","count":6}]},{"hash":"2158540307420275660","title":"Unknown","description":"The GO terms span ER-associated protein processing and stress responses alongside diverse developmental processes (eye and wing development, spermatid differentiation, heart valve formation) and signaling. There isn't a single coherent function tying these together, so a confident, representative label cannot be assigned.","confidence":"","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1904211","count":2},{"id":"GO:0042676","count":2},{"id":"GO:0032815","count":2},{"id":"GO:0035311","count":2},{"id":"GO:0038005","count":2}]},{"hash":"103497846400480264","title":"DNA Repair and Development","description":"This cluster centers on nucleic acid maintenance, with terms like nucleotide-excision repair, DNA replication, and related DNA processing. Development-related terms (embryonic organ development, hair cell differentiation) suggest possible context-specific roles in development, but the core signal remains DNA repair/maintenance. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090305","count":4},{"id":"GO:0048568","count":4},{"id":"GO:0035315","count":4},{"id":"GO:0001666","count":4},{"id":"GO:0032508","count":4}]},{"hash":"1502762726891646545","title":"Purine nucleotide metabolism","description":"The top GO terms cluster around purine metabolism and nucleotide biosynthesis (hypoxanthine, AMP, nucleoside metabolism, PRPP biosynthesis, urate production), suggesting these proteins participate in purine nucleotide production and salvage. Some developmental annotations may be incidental, but the metabolic theme is strong.","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046101","count":2},{"id":"GO:0009116","count":2},{"id":"GO:0006167","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0034418","count":2}]},{"hash":"399910082625086320","title":"Ribosome Biogenesis and Translation","description":"Most prominent terms are maturation of SSU rRNA and translation, indicating involvement in ribosome assembly and protein synthesis. A few terms touch on chromatin regulation and dosage compensation, which are less central to ribosome function and may reflect broader nuclear roles or annotation noise. Overall, the dominant theme among the GO terms points to ribosome biogenesis and translation.","confidence":"Medium","size":7,"edges":12,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":4},{"id":"GO:0006412","count":3},{"id":"GO:0031564","count":2},{"id":"GO:0009949","count":1},{"id":"GO:0007076","count":1}]},{"hash":"2002774496633469418","title":"Post-transcriptional RNA processing and translation control","description":"The GO terms cluster around mRNA splicing regulation, poly(A) tail processing, and translation-related steps (translation, reinitiation, and IRES-dependent initiation), suggesting a shared theme of post-transcriptional gene expression control.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:1903586","count":2},{"id":"GO:1902625","count":2},{"id":"GO:0060211","count":2},{"id":"GO:0002188","count":2}]},{"hash":"2292941668138481047","title":"Neutrophil migration and vascular remodeling regulation","description":"The cluster's top GO terms cluster around negative regulation of neutrophil activities (degranulation, chemotaxis, extravasation) and regulation of blood vessel remodeling, with an additional link to cell spreading/adhesion that fits immune cell migration. A couple terms (chlorophyll biosynthetic process, stamen formation) seem unrelated and may reflect cross-species annotations or noise, but the core theme ties to leukocyte trafficking and vascular remodeling. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":3},{"id":"GO:0002692","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0015995","count":3},{"id":"GO:0006511","count":3}]},{"hash":"523363550835787435","title":"Polarized cytoskeleton remodeling and vesicle trafficking","description":"The proteins show themes of cell polarity and cytoskeletal dynamics, including asymmetric division, filopodium assembly, Golgi ribbon formation, vesicle docking/exocytosis, and directed transport related to actin structures and cell migration, suggesting a cohesive role in polarized cytoskeletal remodeling and trafficking.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045769","count":1},{"id":"GO:0055003","count":1},{"id":"GO:0043087","count":1},{"id":"GO:0090164","count":1},{"id":"GO:0021873","count":1}]},{"hash":"1350419854378217913","title":"Developmental gene regulation and stress responses","description":"The Top Terms include multiple developmental processes (forebrain development, neural tube closure, skeletal system development, multicellular organism development) and DNA-templated transcription, plus stress-related pathways (intrinsic apoptotic signaling in response to ER stress) and mitotic cell cycle. This mixture points to a cluster centered on developmental regulation with transcriptional control and cellular stress signaling, despite a few outliers (defense response terms).","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006349","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0030900","count":2}]},{"hash":"455225153119724686","title":"Inflammatory Response and Cytokine Signaling","description":"The proteins in this cluster are linked by GO terms emphasizing inflammatory responses: acute and chronic inflammatory response, cellular response to cytokine, leukotriene production in inflammation, and lipid peroxide\u2013related responses, plus calcium signaling that often accompanies inflammatory signaling. This combination points to a cohesive immune/inflammatory signaling module, rather than unrelated processes.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071277","count":2},{"id":"GO:0014070","count":2},{"id":"GO:0034097","count":2},{"id":"GO:0002544","count":2},{"id":"GO:0032526","count":2}]},{"hash":"2175030364526012625","title":"Neuronal actin dynamics and development","description":"This cluster centers on actin cytoskeleton regulation, highlighted by barbed-end actin filament capping and positive regulation of Arp2/3-mediated actin nucleation, which together drive actin remodeling. The presence of neuron projection development and brain development terms links these actin processes to neuronal growth and morphogenesis. Additional vesicle transport and cell division terms suggest actin\u2019s broader role in cytoskeletal dynamics and trafficking. Overall, the common theme is actin-dependent remodeling supporting neuronal development, with some supporting roles in vesicle transport. ","confidence":"High","size":7,"edges":7,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051016","count":2},{"id":"GO:0051301","count":2},{"id":"GO:2000601","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0000920","count":2}]},{"hash":"358167020958359130","title":"Developmental morphogenesis and signaling","description":"These proteins cluster around developmental processes such as outer ear morphogenesis, salivary gland branching morphogenesis, and pigmentation regulation, combined with signaling pathway regulation (e.g., BMP signaling, MAPK-related activity) and cell adhesion. While an immune/host-interaction term appears, the dominant theme across the GO terms is developmental morphogenesis and its regulation, suggesting a role in tissue patterning and signaling rather than a single, cohesive non-development function. Confidence: Medium.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0032516","count":5},{"id":"GO:0046718","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0000187","count":4},{"id":"GO:2000391","count":4}]},{"hash":"2015961815740968257","title":"Ribosome Biogenesis and Subunit Export","description":"The cluster is dominated by ribosome-related functions: export of the large subunit from the nucleus, small subunit biogenesis, and tRNA modification, all pointing to ribosome assembly and translation. The presence of cell cycle and cell division terms supports a link between ribosome production and cellular proliferation. A few terms (e.g., glucose catabolic process, some viral/poration terms) appear as noise but do not override the central ribosome theme.","confidence":"High","size":7,"edges":9,"triangles":0,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000055","count":7},{"id":"GO:0051301","count":7},{"id":"GO:0007049","count":4},{"id":"GO:0006400","count":4},{"id":"GO:0000747","count":4}]},{"hash":"1603836439807154258","title":"Inflammation-Driven Angiogenesis and Skeletal Development","description":"The GO terms point to angiogenesis and skeletal tissue formation (sprouting angiogenesis, growth plate cartilage development, bone trabecula formation, positive regulation of angiogenesis) in an inflammatory context (chronic inflammatory response, regulation of fibrinolysis). Added signals affecting endothelial chemotaxis and nitric oxide further tie vascular remodeling to inflammation. This suggests a cohesive cluster of proteins involved in inflammation-associated vascular growth and skeletal development.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0002544","count":6},{"id":"GO:2001027","count":6},{"id":"GO:0002040","count":6},{"id":"GO:0050731","count":6},{"id":"GO:0010751","count":6}]},{"hash":"1483215500469147810","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"The top GO terms indicate a core function in tagging and degrading proteins via ubiquitination and SCF-dependent proteasomal pathways, with additional links to sumoylation and regulatory processes like circadian rhythm and oocyte maturation. Overall, the cluster centers on protein turnover through the ubiquitin-proteasome system.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0042752","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0016925","count":3},{"id":"GO:0001556","count":3}]},{"hash":"1492173035943905931","title":"Cerebellar cortical layer organization","description":"The top GO terms include cerebellar granular layer structural organization and cerebellar Purkinje cell layer structural organization, which strongly point to the organization of the cerebellar cortex. Additional terms such as plus-end-directed vesicle transport along microtubules and miRNA processing fit neuronal contexts, while other terms are broader cellular processes. Overall, the dominant theme is cerebellar cortex structure, with some supporting but less cohesive cellular functions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033624","count":4},{"id":"GO:0090282","count":4},{"id":"GO:0021685","count":4},{"id":"GO:0021693","count":4},{"id":"GO:0070535","count":4}]},{"hash":"114310922607461711","title":"Leukocyte adhesion, trafficking, and phagocytosis","description":"Based on the top GO terms, the proteins are enriched for leukocyte recruitment (tethering/rolling; adhesion molecule production), phagocytosis and Fc-gamma receptor signaling, and complement activation, all central to innate immune responses. Additional terms point to inflammation (arachidonate secretion) and lymphatic vessel remodeling, while oxidative stress-induced senescence reflects stress responses in immune contexts. Overall, the cluster centers on leukocyte movement toward inflammatory sites and subsequent effector functions.","confidence":"Medium","size":7,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":7},{"id":"GO:0006910","count":7},{"id":"GO:0060355","count":7},{"id":"GO:0050901","count":7},{"id":"GO:0038094","count":7}]},{"hash":"33076532255809203","title":"Integrin signaling and cell-matrix adhesion","description":"The GO terms point to integrin-mediated signaling and adhesion to the extracellular matrix, including hemidesmosome assembly and cell-cell adhesion via integrins. There are multiple entries related to cell migration (sprouting angiogenesis, fibroblast migration) and ECM interactions (cell-matrix adhesion, receptor clustering). The PDGF response and calcium-independent adhesion further support a cohesive theme of signaling-driven adhesion and migration, suggesting a role in integrin-dependent cell adhesion during tissue remodeling.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0007229","count":6},{"id":"GO:0002042","count":6},{"id":"GO:0031581","count":5},{"id":"GO:0010763","count":5},{"id":"GO:0007161","count":5}]},{"hash":"4236388988167758","title":"Leukocyte adhesion and activation in inflammation","description":"These proteins are linked to leukocyte recruitment and activation: tethering/rolling, phagocytosis recognition, Fc receptor signaling, and complement activation. They also touch on inflammatory mediator production (arachidonate) and lymphatic vessel morphogenesis, consistent with an inflammation-focused cluster coordinating immune cell trafficking and activation.","confidence":"High","size":7,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":6},{"id":"GO:0006910","count":6},{"id":"GO:0060355","count":6},{"id":"GO:0050901","count":6},{"id":"GO:0038094","count":6}]},{"hash":"620294185675651617","title":"Adaptive Immune Signaling and Apoptosis Regulation","description":"GO terms center on adaptive immune response, hematopoietic progenitor differentiation, and T cell proliferation, alongside regulatory signaling processes such as ubiquitination, JNK cascade, and Wnt signaling, with both apoptotic and anti-apoptotic regulation. This suggests a coherent theme of immune cell development and signaling control affecting cell fate and survival, rather than a single enzymatic function.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043066","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0002250","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0090263","count":3}]},{"hash":"635446375046722513","title":"BMP-driven differentiation and morphogenesis","description":"The GO terms focus on positive regulation of BMP signaling and differentiation of multiple tissues (bone, cartilage, lung, neural/other developmental processes) and related SMAD signaling, suggesting a BMP-centered cluster of development and morphogenesis.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045669","count":2},{"id":"GO:0060039","count":2},{"id":"GO:0032332","count":2},{"id":"GO:0030513","count":2},{"id":"GO:0007488","count":2}]},{"hash":"523649906229883611","title":"Insect vision and sensory detection","description":"Top GO terms indicate a cohesive theme around sensory perception and transduction in insects, with strong representation for visual perception (GO:0007601), phototransduction (GO:0007602), thermosensory behavior (GO:0040040), and detection of chemical stimulus involved in sensory perception (GO:0050907), along with aerotaxis (GO:0009454) and CO2 detection (GO:0003031). This points to proteins involved in vision and chemosensory pathways, suggesting a cluster centered on sensory perception. Some terms like cardiac muscle contraction and potassium ion transport are general cellular processes that are less central to this theme but do not override the primary sensory signal.","confidence":"High","size":7,"edges":10,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0060048","count":4},{"id":"GO:0007602","count":4},{"id":"GO:0003031","count":4},{"id":"GO:0040040","count":4}]},{"hash":"133084729459873838","title":"Photoreceptor GPCR Regulation and Visual Perception","description":"The top GO terms cluster around photoreceptor-related GPCR signaling (opsin-mediated pathways) and visual processes, including photoreceptor maintenance and visual perception, with GPCR internalization and GTPase regulation offering a coherent mechanism. Some outlier terms (peptidoglycan catabolic process, fat pad development) appear unrelated to photoreceptor function and likely represent annotation noise. Overall, the dominant theme points to proteins involved in photoreceptor GPCR signaling and visual function, justifying this label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0022400","count":2},{"id":"GO:0060613","count":2},{"id":"GO:0009253","count":2},{"id":"GO:0045494","count":2}]},{"hash":"848125326032621319","title":"Mitochondrial Respiration and Apoptosis","description":"The top GO terms point to mitochondrial electron transport (cytochrome c to oxygen; ubiquinol to cytochrome c) and cytochrome c-heme linkage, alongside apoptotic process and hydrogen peroxide metabolism/regulation. These together suggest a theme focused on mitochondrial energy production, ROS handling, and apoptosis, with a minor nod to plant-related processes (photosynthesis) that can co-occur. Thus, the label captures the core function of this cluster.","confidence":"High","size":7,"edges":6,"triangles":1,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006470","count":6},{"id":"GO:0034465","count":6},{"id":"GO:0008635","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0042743","count":6}]},{"hash":"1748244665051987435","title":"Neural development and neuron fate specification","description":"This cluster is dominated by neural development terms: interneuron differentiation, motor neuron specification, and subpallial fate commitment, pointing to a shared role in specifying neuron subtypes in the CNS. The GO term for transcription by RNA polymerase II supports general gene regulation during development, aligning with these neuron fate decisions. There is an outlier related to heart valve formation, but the strongest signals center on neural lineage specification.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":5},{"id":"GO:0060435","count":4},{"id":"GO:0031018","count":4},{"id":"GO:0021892","count":4},{"id":"GO:0021520","count":4}]},{"hash":"1754983179051567263","title":"Developmental transcription regulators","description":"GO terms cluster around transcriptional regulation and development: strong signals for transcription (negative regulation of transcription by RNA Pol II, DNA-templated transcription, transcription initiation at mitochondrial promoter) plus several development and immune-related terms (peripheral nervous system development, dendritic cell differentiation, axonal fasciculation, ureter morphogenesis). This points to proteins functioning as transcriptional regulators with roles in developmental and immune differentiation.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0043388","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0097350","count":3},{"id":"GO:0007422","count":3}]},{"hash":"800790699245447080","title":"Unknown","description":"The top GO terms are a disparate mix (ethanol and xenobiotic responses, cholesterol and retinol metabolism, development, sensory/visual processes, and acrosome assembly), with no clear shared function or pathway across the proteins and no edges linking them. This lack of a coherent functional theme makes it appropriate to label the cluster Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045471","count":3},{"id":"GO:0060068","count":3},{"id":"GO:0042632","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0042493","count":3}]},{"hash":"1824076591821184666","title":"TLR signaling and inflammatory autophagy","description":"The cluster centers on Toll-like receptor pathways (TLR9 signaling, Toll signaling) and regulation of inflammatory cytokines (IL-18), with additional evidence for autophagy regulation, suggesting a cohesive role in innate immune signaling and autophagy interplay. Some development-related terms appear but are less representative of the core function. ","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0034162","count":2},{"id":"GO:0032741","count":2},{"id":"GO:0060427","count":2},{"id":"GO:0016239","count":2},{"id":"GO:0008063","count":2}]},{"hash":"918038020708037885","title":"Axon guidance and neuroinflammatory signaling","description":"The top GO terms cluster on neural connectivity processes\u2014axon extension/guidance and synapse assembly\u2014alongside inflammatory and immune signaling pathways (inflammatory response, NF-kappaB signaling, chemokine signaling). This suggests a group of proteins involved in neural development with immune signaling cross-talk, i.e., axon guidance coupled with neuroinflammation. Some terms are peripheral, but the strongest theme is neural connectivity linked to inflammatory signaling.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048846","count":6},{"id":"GO:0090260","count":5},{"id":"GO:0006954","count":5},{"id":"GO:0070100","count":5},{"id":"GO:0061364","count":5}]},{"hash":"634093953769202727","title":"DNA replication and chromosome segregation","description":"This cluster centers on processes of DNA replication, centromere/chromatin assembly (CENP-A), and cell division, with microtubule severing linking to mitotic chromosome dynamics. While a few terms touch on protein quality control or peroxisomal import, the dominant theme is genome maintenance and chromosome segregation during cell division.","confidence":"High","size":7,"edges":14,"triangles":16,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000733","count":5},{"id":"GO:0001319","count":4},{"id":"GO:0016558","count":4},{"id":"GO:0043335","count":4},{"id":"GO:0006260","count":4}]},{"hash":"1526294723135674776","title":"Unknown","description":"The top GO terms are highly diverse, spanning spermatogenesis, circadian regulation, behavioral responses, RNA silencing, neural development (cerebellum development, ephrin signaling), and exocytosis, with no single coherent biological process linking them. The lack of edges and the one-off term counts suggest there is no a priori functional cohesion in this cluster. ","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":1},{"id":"GO:0042321","count":1},{"id":"GO:0007630","count":1},{"id":"GO:0016246","count":1},{"id":"GO:0090502","count":1}]},{"hash":"1932309127094915759","title":"Calcium-Regulated Muscle Contraction","description":"This cluster centers on calcium handling linked to muscle contraction. The top GO terms emphasize regulation of sequestered calcium release and activity of ryanodine-sensitive channels, along with skeletal and cardiac contraction regulation and sarcomere organization. Additional terms about denervation-driven muscle adaptation and caffeine-induced calcium signaling support a unifying theme of calcium-dependent control of muscle contraction, with some ER-associated processing that supports proper protein function in this pathway.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0014809","count":1},{"id":"GO:0060315","count":1},{"id":"GO:0071313","count":1},{"id":"GO:0045214","count":1},{"id":"GO:0045454","count":1}]},{"hash":"1334772187343956703","title":"Lipid and Steroid Metabolism","description":"The top GO terms are dominated by lipid metabolism and steroid-related processes: several fatty acid biosynthesis/elongation terms (fatty acid elongation, very long-chain fatty acid biosynthetic process, mycolic acid biosynthetic), along with estrogen biosynthetic and retinol metabolic processes, and a steroid catabolic process. This points to a cohesive theme around lipid and steroid metabolism for the cluster. A couple of terms (sporulation, response to methotrexate) appear as less central noise. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006706","count":2},{"id":"GO:0030497","count":2},{"id":"GO:1902321","count":2},{"id":"GO:0031427","count":2},{"id":"GO:0042376","count":2}]},{"hash":"851263440512904221","title":"Muscle and adipose development and morphogenesis","description":"This cluster centers on adipocyte differentiation and several muscle-related differentiation/morphogenesis terms (fat cell differentiation, ventricular cardiac muscle morphogenesis, myoblast proliferation, satellite cell regulation) along with some organ-specific differentiation (type I pneumocytes) and broader morphogenesis processes, suggesting a developmental program across muscle, fat, and related tissues. The connections are modest (few edges, no triangles), so the label emphasizes a broad differentiation/morphogenesis theme rather than a single function.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":5},{"id":"GO:0055010","count":4},{"id":"GO:0009444","count":4},{"id":"GO:0060527","count":4},{"id":"GO:0045713","count":4}]},{"hash":"1260711188820587949","title":"Chromatin remodeling and histone modification","description":"Most of the high-frequency terms describe chromatin dynamics\u2014chromatin remodeling, nucleosome disassembly, and histone demethylation\u2014consistent with nuclear regulation of gene expression. Additional terms hint at related nuclear processes (protein export) and cytoskeletal modification but do not overpower the chromatin theme. Therefore the cluster is best described as chromatin remodeling and histone modification.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031496","count":4},{"id":"GO:0060765","count":4},{"id":"GO:0005987","count":4},{"id":"GO:0034720","count":4},{"id":"GO:0043044","count":4}]},{"hash":"20291612502619461","title":"Embryonic Development and Early Lineage Differentiation","description":"The GO terms cluster around early embryonic processes (primitive streak formation, general transcription by RNA Pol II) and broad lineage differentiation across several tissues (PNS neurons, brain segmentation, inner ear development, skeletal system, macrophages, and erythrocytes), indicating a theme of embryogenesis and multipotent differentiation rather than a single tissue-specific function.","confidence":"Medium","size":7,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090009","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0048935","count":4},{"id":"GO:0048706","count":3},{"id":"GO:0030225","count":3}]},{"hash":"960812543695260769","title":"Unknown","description":"The GO terms are highly diverse (chromatin formation, phospholipid signaling, LPS biosynthesis, P450 pathways, calcium homeostasis, serine biosynthesis, stilbene catabolism, and metal transport) with no clear shared function or theme among the seven proteins, and there are no network connections. This cluster does not show a coherent biological purpose.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":2},{"id":"GO:0046839","count":1},{"id":"GO:0009103","count":1},{"id":"GO:0019373","count":1},{"id":"GO:0006874","count":1}]},{"hash":"1043206076197969832","title":"Unknown","description":"The top GO terms span transcription regulation and a variety of tissue- and stage-specific developmental processes (mammary gland, nephron, heart, planar polarity, neuron-related assembly), with no clear single function unifying the cluster. Because there isn\u2019t a coherent common theme, a precise label isn\u2019t supported.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0033598","count":2},{"id":"GO:0060749","count":2},{"id":"GO:0003273","count":2}]},{"hash":"1508381910937517056","title":"Chromatin organization and histone modification","description":"The top GO terms point to chromatin-related processes: heterochromatin organization, nucleosome assembly, and histone modifications (H3K4 and H3K27 methylation), plus localization to chromatin. This suggests the cluster comprises proteins involved in chromatin structure and epigenetic regulation, rather than a metabolic or signaling pathway. Confidence: High","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0097298","count":7},{"id":"GO:0080182","count":7},{"id":"GO:0070828","count":7},{"id":"GO:0098532","count":7},{"id":"GO:0006334","count":7}]},{"hash":"2191857769643062356","title":"Chromatin assembly and developmental differentiation","description":"The GO terms include CENP-A chromatin assembly, histone phosphorylation regulation, and telomeric region localization, pointing to chromatin organization. Developmental/differentiation terms (muscle cell differentiation, osteoblast differentiation, midbrain morphogenesis) indicate a developmental context. The combination suggests a cluster centered on chromatin assembly/regulation with associated differentiation signals.","confidence":"Medium","size":7,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030543","count":5},{"id":"GO:0043457","count":5},{"id":"GO:1904815","count":5},{"id":"GO:1900446","count":5},{"id":"GO:0033128","count":5}]},{"hash":"480029184515289640","title":"Neural development and synaptic regulation","description":"The top GO terms point to neural differentiation and function (cerebral cortex development, visual perception, negative regulation of synaptic plasticity), suggesting a neural development/signal integration theme. Other terms like apoptotic process and intracellular signal transduction fit a broader developmental/survival signaling context, while heart development and fat cell differentiation seem less central to this cluster\u2019s primary theme.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0045793","count":3},{"id":"GO:0021987","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0031914","count":3}]},{"hash":"509340839867454843","title":"Immune signaling and gene expression regulation","description":"The cluster's top GO terms include immune signaling (gamma-delta T cell differentiation, B cell receptor signaling) alongside regulators of transcription and translation (DNA-templated transcription, translation, positive regulation of translation). This points to proteins that connect immune signaling with control of gene expression, suggesting a cohesive theme of immune-related regulation of transcription/translation. Confidence in this label is Medium.","confidence":"Medium","size":7,"edges":9,"triangles":5,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0045727","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0046641","count":3},{"id":"GO:0010765","count":3}]},{"hash":"2283111633753773954","title":"Unknown","description":"The top GO terms span bone development and mineralization, immune signaling (interferon responses), host\u2013symbiont interactions, endosomal transport, and neural/synaptic processes. The terms do not converge on a single coherent function or pathway, so the proteins appear to represent diverse roles rather than a common function.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060349","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0009607","count":2},{"id":"GO:0099638","count":2},{"id":"GO:0035456","count":2}]},{"hash":"1775033838631874853","title":"Dopaminergic neural signaling and sensory perception","description":"The shared GO terms cluster around neural signaling and sensory processing: dopaminergic synaptic transmission, visual perception and learning, pain perception, and behavioral responses to cocaine, with ERK1/2 cascade regulation indicating signaling pathway activation. Although heart development and macrophage chemotaxis appear among the top terms, they are less central to the dominant neural/sensory theme, which justifies a label focused on dopaminergic neural signaling and sensory perception.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0048148","count":7},{"id":"GO:0071380","count":7}]},{"hash":"1771385216844545413","title":"Neural Thermoregulation and Sensory Signaling","description":"Based on the top GO terms, this cluster centers on neural control of temperature and sensory processing: diet-induced thermogenesis and cellular response to temperature, sensory perception of pain, prepulse inhibition, regulation of membrane potential, and autonomic outputs like saliva secretion and vascular smooth muscle contraction. While there are a couple of unrelated terms (e.g., peptidoglycan catabolic process), the dominant theme is neural and autonomic regulation of temperature and sensory stimuli.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0042391","count":5},{"id":"GO:0002882","count":4}]},{"hash":"1986360866351485202","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning inflammatory regulation (eosinophil chemotaxis, chronic inflammatory response), vascular functions (vasoconstriction, smooth muscle contraction), sensory/behavioral topics (visual perception, prepulse inhibition, operant conditioning), and other unrelated processes (saliva secretion, peptidoglycan catabolism, lung connective tissue development). There is no coherent single function connecting all proteins, so a specific label cannot be justified.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":7},{"id":"GO:0035106","count":7},{"id":"GO:0046541","count":7},{"id":"GO:0009253","count":7},{"id":"GO:0014829","count":7}]},{"hash":"1340928016858275479","title":"Bacterial cell wall biosynthesis and division","description":"This cluster is dominated by GO terms for peptidoglycan biosynthesis, Gram-negative cell wall biogenesis, and cell division, with related terms on cell cycle and cell shape regulation, indicating proteins involved in envelope construction and cytokinesis in bacteria.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0009252","count":2},{"id":"GO:0043164","count":2},{"id":"GO:0006486","count":2}]},{"hash":"2255380716989206706","title":"Amino acid and polyamine transmembrane transport","description":"Most top GO terms point to transport across the plasma membrane, including D-serine transport, L-arginine and leucine import, polyamine transport, and carnitine transport. The recurring theme is transmembrane nutrient/solute transport rather than a single enzyme, suggesting these proteins form a transporter-related cluster. Some terms are obsolete or regulatory, but the core signal is amino acid and related metabolite transport across membranes.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035826","count":2},{"id":"GO:0042942","count":2},{"id":"GO:0098713","count":2},{"id":"GO:0097638","count":2},{"id":"GO:1902269","count":2}]},{"hash":"1705247222359904618","title":"Ciliogenesis and Microtubule Organization","description":"Primarily linked to ciliogenesis and microtubule dynamics: intraciliary transport and cilium assembly, non-motile cilium assembly, nuclear migration along microtubules, and centrosome anchoring, pointing to roles in building/maintaining cilia and the microtubule framework. A couple of terminal morphogenesis and apoptotic terms appear incidental but do not override the dominant ciliogenesis/microtubule signal.","confidence":"Medium","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035735","count":4},{"id":"GO:0006915","count":2},{"id":"GO:1900740","count":2},{"id":"GO:1902857","count":2},{"id":"GO:0007476","count":2}]},{"hash":"2187037836944536502","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0008615","count":6},{"id":"GO:0042823","count":6},{"id":"GO:0035606","count":6},{"id":"GO:0006006","count":6}]},{"hash":"1546882978370329488","title":"Fatty acid oxidation and lipid metabolism","description":"Most of the top GO terms cluster around lipid handling and energy metabolism: fatty acid beta-oxidation, cholesterol metabolism, lipid hydroperoxide transport, and ketone body biosynthesis. There is also a stress/mitochondrial angle (response to starvation and negative regulation of mitochondrial outer membrane permeabilization) that fits energy production under metabolic stress. A couple of terms (sporulation, kidney development) seem tangential, but the dominant theme is lipid metabolism and energy generation. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1901373","count":4},{"id":"GO:0042594","count":4},{"id":"GO:0006635","count":4},{"id":"GO:1901029","count":4},{"id":"GO:0030435","count":4}]},{"hash":"2121448767340366943","title":"Nuclear RNA Processing and Spliceosome Assembly","description":"This cluster is dominated by GO terms tied to nuclear RNA maturation and splicing, including tRNA processing, maturation of SSU-rRNA, histone mRNA metabolism, deadenylation-dependent decapping of nuclear-transcribed mRNA, and spliceosomal assembly (snRNP and complex). These consistent functions point to a cohesive role in assembling and processing RNA machinery within the nucleus, with some stress-related terms (ABA, water deprivation) likely reflecting plant-specific regulatory contexts rather than core function. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051170","count":3},{"id":"GO:0000290","count":3},{"id":"GO:0008033","count":3},{"id":"GO:0030490","count":3},{"id":"GO:0008334","count":3}]},{"hash":"568215483108256385","title":"Redox Homeostasis and Oxidative Stress Response","description":"The cluster shows multiple GO terms centered on redox balance and oxidative stress\u2014cellular redox homeostasis, hydrogen peroxide catabolic process, and response to alkyl hydroperoxide\u2014along with related signaling (epinephrine stimulus, cAMP) and mitochondrial-associated processes (cytochrome complex assembly). This pattern points to proteins involved in maintaining redox status and responding to oxidative challenges, with ancillary roles in metabolism and extracellular contexts such as lipoprotein biosynthesis and ECM organization.","confidence":"Medium","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0071872","count":3},{"id":"GO:0051591","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0030198","count":3},{"id":"GO:0042744","count":3}]},{"hash":"292921806868821897","title":"Neural development","description":"Most proteins here are linked to brain and nervous system development (brain development, nervous system development, neuron cell-cell adhesion), with some terms pointing to broader embryonic patterning and organogenesis. This suggests the cluster is focused on neural development processes, with supportive roles in general development. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0031639","count":2},{"id":"GO:0007158","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0035270","count":1}]},{"hash":"2157953158284660484","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000480","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0010697","count":1}]},{"hash":"469552402202805066","title":"Neural Development and Synaptic Signaling","description":"The cluster is dominated by GO terms tied to neural development and neural communication, such as axonogenesis, Schwann cell development, visual perception, long-term synaptic potentiation, and excitatory postsynaptic potential. These suggest a cohesive theme around nerve growth, myelination, and synaptic transmission. A few terms like heart development, ABA signaling, and G2/M transition appear as outliers or broader cellular processes, but the core signal points to neuronal development and synaptic function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0014044","count":5},{"id":"GO:0010800","count":5},{"id":"GO:0043065","count":5}]},{"hash":"1337836767446147611","title":"Ubiquitin-Proteasome\u2013Mediated Protein Degradation","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes, including ERAD and SCF-dependent proteasomal pathways, pointing to a core role in ubiquitin-proteasome\u2013mediated protein degradation and proteostasis. While a few development- or cytoskeleton-related terms appear, they are likely secondary associations; the central theme is targeted protein turnover via ubiquitination. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0007369","count":3},{"id":"GO:0000083","count":3}]},{"hash":"291660918877296271","title":"Neuronal redox and calcium signaling","description":"Interpretation: The top GO terms cluster around neuronal functions (synaptic transmission, learning, fear response) together with mitochondrial calcium import and redox/ROS regulation, suggesting a group of proteins involved in neural signaling linked to redox and calcium homeostasis. A few terms (fin regeneration, epithelial differentiation) are less clearly connected, possibly reflecting multifunctionality or species-specific roles, but the dominant theme is neural activity coupled to mitochondrial calcium and redox balance.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0001662","count":1},{"id":"GO:2000378","count":1},{"id":"GO:0007612","count":1},{"id":"GO:0007270","count":1}]},{"hash":"1439667186212625770","title":"Actin Cytoskeleton Assembly and Polarization","description":"This cluster\u2019s GO terms cluster around actin filament organization and assembly (filopodium and actin bundle assembly, brush border), actin filament regulation, and polarized growth processes (asymmetric cell division regulation, mating projection actin focus), indicating a cohesive theme of actin cytoskeleton dynamics and cell polarity.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045769","count":2},{"id":"GO:0055003","count":2},{"id":"GO:0051489","count":2},{"id":"GO:1904601","count":2},{"id":"GO:0000001","count":2}]},{"hash":"1613413443634655348","title":"Ubiquitin-mediated proteolysis in cell cycle control","description":"This cluster is characterized by GO terms tied to ubiquitin-proteasome\u2013dependent protein degradation (SCF and APC/C pathways), protein deubiquitination, and regulation of G2/M transitions, all of which point to a cohesive role in ubiquitin-mediated proteolysis governing mitosis and cell-cycle progression. A single outlier term (Wnt planar cell polarity) does not override this core theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":1},{"id":"GO:0033209","count":1},{"id":"GO:0051437","count":1},{"id":"GO:0051436","count":1},{"id":"GO:0031145","count":1}]},{"hash":"1757313961058482698","title":"Calcium-Driven Cardiac Signaling","description":"This cluster centers on calcium-dependent signaling linked to cardiac muscle development and contraction, highlighted by terms like ventricular cardiac muscle morphogenesis, cardiac muscle contraction, and calcineurin-NFAT signaling together with phosphatidylinositol signaling and protein dephosphorylation. Although a few terms reference visual perception and retinal neuron differentiation, the predominant theme is cardiac muscle signaling and function.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0014883","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0055010","count":2},{"id":"GO:0048015","count":2},{"id":"GO:0007601","count":2}]},{"hash":"2221516553380189000","title":"Post-transcriptional RNA processing and translation regulation","description":"The proteins cluster around RNA processing steps (mRNA splicing, splice site recognition, poly(A) tail regulation) and translation control (translation reinitiation, IRES-dependent initiation, viral termination-reinitiation), indicating a common theme of post-transcriptional regulation of gene expression at RNA processing and translation levels.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1903586","count":6},{"id":"GO:1902625","count":6},{"id":"GO:0060211","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0048026","count":6}]},{"hash":"636723170971702999","title":"Dendrite Development and Neuronal Patterning","description":"The top GO terms are dominated by dendrite morphogenesis, neuronal stem cell maintenance, and ephrin receptor signaling, indicating roles in neuronal development and morphogenesis. A minority of terms refer to plant patterning, but the recurrent neural-related terms suggest the cluster centers on dendrite formation and neuronal progenitor signaling.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0048366","count":3},{"id":"GO:0050775","count":3},{"id":"GO:0009955","count":3},{"id":"GO:1902213","count":3},{"id":"GO:1900170","count":3}]},{"hash":"1607386870627592564","title":"Cellular stress response and protein quality control","description":"The proteins show enrichment across diverse but related regulatory processes: protein sumoylation, aggrephagy, ER-stress\u2013related apoptotic signaling, and regulation of mitochondrial fusion, ribosome assembly, DNA repair, and signaling pathways (TLR3, GPCR, neurotransmitter release). This pattern suggests a shared role in maintaining cellular homeostasis under stress by modulating protein turnover, signaling, and genome integrity, rather than a single concrete function. Therefore, a broad label like \u201cCellular stress response and protein quality control\u201d best captures the cluster\u2019s theme.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":5},{"id":"GO:0010636","count":4},{"id":"GO:0034140","count":4},{"id":"GO:1902236","count":4},{"id":"GO:0000028","count":4}]},{"hash":"1573440109815645435","title":"Innate immune activation and leukocyte recruitment","description":"The proteins are enriched for leukocyte tethering/rolling, phagocytosis recognition, Fc-gamma receptor signaling, and complement activation (lectin pathway), plus inflammatory mediators like arachidonate secretion and NK cell chemotaxis regulation, and lymphatic vessel remodeling. This combination points to coordinated innate immune activation and leukocyte trafficking. Some terms reflect cellular stress, but the dominant signal is inflammation-driven recruitment and phagocytic signaling.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":6},{"id":"GO:0006910","count":6},{"id":"GO:0060355","count":6},{"id":"GO:0050901","count":6},{"id":"GO:0038094","count":6}]},{"hash":"1822558938225319967","title":"Immune Activation and Adhesion Signaling","description":"The top GO terms point to immune cell activation and signaling (positive regulation of T cell proliferation, B cell receptor signaling, gamma-delta T cell differentiation) together with adhesion and extracellular matrix remodeling (regulation of focal adhesion assembly, regulation of extracellular matrix disassembly). These co-occur suggesting a theme of immune-immune signaling coupled with cell adhesion/migration processes. Some terms like visual perception or sodium transport are less directly related and may reflect broader regulatory roles or annotation noise, but the core signal centers on immune signaling intertwined with adhesion regulation.","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0051893","count":4},{"id":"GO:0046641","count":3},{"id":"GO:0010765","count":3},{"id":"GO:0010571","count":3},{"id":"GO:0010954","count":3}]},{"hash":"1353606347878499529","title":"Stress-Responsive Translation and DNA Damage Response","description":"This cluster centers on stress-related signaling that links translation control (GCN2-mediated and translation regulation under stress) with DNA damage checkpoint signaling, and includes responses to nutrient starvation and innate immune signaling, suggesting a coherent stress-response module.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000077","count":3},{"id":"GO:0045087","count":3},{"id":"GO:1990497","count":2},{"id":"GO:0042149","count":2},{"id":"GO:0072755","count":2}]},{"hash":"1238409392265432285","title":"Cytokinesis and bud neck localization proteins","description":"This cluster is dominated by GO terms tied to cell division and cytokinesis, including localization to the bud neck, mitotic exit, division septum assembly, and overall cell division. The presence of polarity maintenance also supports a coordinated division process in budding organisms. A few outlier terms related to ciliogenesis and ribosome biogenesis are present but do not define the core function of the group.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0097271","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0000281","count":3},{"id":"GO:0030011","count":3},{"id":"GO:1902857","count":3}]},{"hash":"320902278604040296","title":"Cardiac ion transport and depolarization","description":"Most terms cluster around membrane depolarization in cardiac cells (atrial, His bundle, Purkinje) and related ion transport/homeostasis (Mg2+, Mn2+). Some terms (CO2 detection, touch, Wnt signaling) are less cohesive, but the strongest shared signal points to ion transport linked to cardiac electrical activity, with a component of metal ion homeostasis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003031","count":6},{"id":"GO:0098912","count":6},{"id":"GO:0050976","count":6},{"id":"GO:0044335","count":6},{"id":"GO:0001666","count":6}]},{"hash":"319170237678145134","title":"Neural development and synaptic signaling","description":"The top GO terms indicate central nervous system development and maturation, including brain morphogenesis, corticospinal tract morphogenesis, retina homeostasis, and oligodendrocyte progenitor proliferation, along with axon extension and GABAergic synaptic transmission. This pattern suggests proteins that participate in neural development, axon pathfinding, and synaptic connectivity, spanning both CNS structure and functional signaling. The mention of locomotory behavior aligns with neural circuit formation and motor pathways. Note: an obsolete term (tyrosinase activity regulation) is likely a historical annotation and does not alter the overarching neural theme.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070445","count":2},{"id":"GO:0048925","count":2},{"id":"GO:0048854","count":2},{"id":"GO:0032773","count":2},{"id":"GO:0007626","count":2}]},{"hash":"1685030966911750883","title":"Complement-Driven Innate Immune Response","description":"Based on the top GO terms, the strongest signals are complement activation (classical pathway) and innate immune response, with evidence for TNF production regulation, which together indicate a cluster focused on innate immune activation and inflammatory signaling. The metabolic catabolic terms are present but far less represented, so they are unlikely to define the cluster.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0019380","count":1},{"id":"GO:0019571","count":1},{"id":"GO:1901023","count":1}]},{"hash":"1980051345287914929","title":"Immune cell adhesion and synapse regulation","description":"This cluster centers on cell-cell adhesion (both homophilic and heterophilic) and its downstream effects on the cytoskeleton and synapse assembly, coupled with regulation of immune cell activity (NK/T cell degranulation, macrophage activation) and immune signaling. The cohesive theme is adhesion-driven immune synapse formation and modulation of immune responses, with a few related terms that broaden to adhesion-mediated interactions in host contexts.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0043318","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0090138","count":3}]},{"hash":"1287521854936370585","title":"Chromatin Organization and Nucleosome Assembly","description":"The cluster is dominated by chromatin-related GO terms, including heterochromatin organization, nucleosome assembly and positioning, and histone methylation. Although a couple of terms are obsolete or tangential, the strongest signal is chromatin structure and its regulation, pointing to a chromatin organization theme as the representative function of this cluster.","confidence":"High","size":6,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0097298","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0070828","count":2},{"id":"GO:0098532","count":2},{"id":"GO:0006334","count":2}]},{"hash":"1782596613120559601","title":"Immune signaling and ion transport regulation","description":"The top GO terms center on regulation of immune signaling pathways (ERK cascade, B cell receptor signaling, T cell proliferation/differentiation) and ion-related signaling (sodium/potassium transport, calcium signaling). This suggests the proteins act as regulators of immune cell signaling with links to ionic homeostasis. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0006813","count":6},{"id":"GO:0046641","count":5},{"id":"GO:0010765","count":5},{"id":"GO:0010571","count":5}]},{"hash":"341389273434089567","title":"Collagen ECM and TLR Signaling in Connective Tissue","description":"The set is enriched for collagen fibril organization and connective tissue development (lung and bone), plus Toll-like receptor signaling and inflammatory regulation (TLR9 signaling, IL-18 production). This points to a cohesive theme of extracellular matrix organization in connective tissue together with immune signaling interactions, with additional development-related terms reflecting broader tissue morphogenesis.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0034162","count":3},{"id":"GO:0032741","count":3},{"id":"GO:0060427","count":3},{"id":"GO:0021836","count":3}]},{"hash":"2048306436248412365","title":"Lysosome/vacuole trafficking and protein sorting","description":"Among the top GO terms there is a clear emphasis on intracellular transport to lysosomes and vacuoles, ubiquitin-dependent sorting via multivesicular bodies, and regulation of exosome assembly, indicating a shared role in protein trafficking and degradation pathways. While some terms touch on signaling and antiviral defense, these can be linked to trafficking-dependent regulation of immune pathways. Therefore the label reflects the core functional theme of the cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":2},{"id":"GO:0051607","count":2},{"id":"GO:1901253","count":2},{"id":"GO:0031321","count":2},{"id":"GO:0043328","count":2}]},{"hash":"417081309145415334","title":"Fatty acid and steroid biosynthesis","description":"This cluster is dominated by GO terms for fatty acid elongation and very long-chain fatty acid biosynthesis, with additional signals for steroid hormone biosynthesis (testosterone and estrogen) and related lipid-derived metabolism (retinol, mycolic acid, phylloquinone). Although there is a less central transport term (potassium ion transmembrane transport), the core pattern points to lipid metabolism and steroid biosynthesis pathways, suggesting a cohesive group of enzymes involved in lipid-related biosynthetic processes.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030497","count":2},{"id":"GO:0042761","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0071805","count":2}]},{"hash":"157306767071553372","title":"Calcium signaling and redox balance","description":"The top GO terms cluster around calcium-channel regulation (ryanodine-sensitive channels) and redox processes (cell redox homeostasis, glutathione metabolism), with supporting signals of stress responses and growth/differentiation (response to starvation, response to toxic substances, regulation of growth, osteoblast differentiation). This suggests a cohesive theme where calcium signaling intersects with redox state to influence proliferation, differentiation, and stress responses.","confidence":"Medium","size":6,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042594","count":4},{"id":"GO:0060315","count":4},{"id":"GO:0045669","count":4},{"id":"GO:0045454","count":4},{"id":"GO:1902476","count":4}]},{"hash":"1711682998394368658","title":"Ion Transport Across Plasma Membrane","description":"The GO terms are dominated by transmembrane transport and ion homeostasis, including sodium export, the maintenance of electrochemical gradients, sodium transporter activity regulation, and potassium import, which together point to a conserved role in ion flux and membrane potential. A couple of terms on heme biosynthesis appear incidental to the overall membrane transport theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903278","count":1},{"id":"GO:0010248","count":1},{"id":"GO:0090662","count":1},{"id":"GO:2000649","count":1},{"id":"GO:0036376","count":1}]},{"hash":"1896631116927974974","title":"Fatty acid and sterol lipid metabolism","description":"Top GO terms cluster around fatty acid elongation, very long-chain fatty acids, mycolic acid biosynthesis, phylloquinone catabolic process, estrogen biosynthetic process, and steroid catabolic activity, suggesting a cohesive theme of lipid metabolism and processing, particularly long-chain and steroid-related lipids (with sporulation as a potential secondary metabolic state). This supports a high-level label of lipid biosynthesis and metabolism for the cluster.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006706","count":2},{"id":"GO:0030497","count":2},{"id":"GO:1902321","count":2},{"id":"GO:0031427","count":2}]},{"hash":"906420803181737312","title":"Carbohydrate, lipid, and retinoid metabolism","description":"This cluster is dominated by GO terms for sugar and lipid metabolism (D-sorbitol catabolic, non-phosphorylated glucose catabolic, fatty acid biosynthetic, retinol and retinoic acid metabolic processes, furaldehyde metabolism). While there are some stress- and drug-related terms present, the core theme appears to be metabolism of small molecules, particularly carbohydrates, lipids, and retinoids.","confidence":"Medium","size":6,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006062","count":2},{"id":"GO:0006633","count":2},{"id":"GO:0051409","count":2},{"id":"GO:0019518","count":2},{"id":"GO:0042572","count":2}]},{"hash":"723263413959357962","title":"Central carbon metabolism & NADP redox regulation","description":"The top GO terms are dominated by central carbon metabolism: pyruvate, malate, and carbohydrate metabolic processes, plus regulation of NADP metabolism and redox-related oxidation-reduction activity. This points to a cluster of proteins involved in core energy metabolism and NADP-linked redox balance, with a few low-frequency outliers (e.g., strigolactone biosynthesis, endocannabinoid signaling) that do not define the main function. Confidence: High","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006090","count":3},{"id":"GO:0051262","count":3},{"id":"GO:1902031","count":3},{"id":"GO:0043464","count":3},{"id":"GO:0006108","count":3}]},{"hash":"1193305946598178776","title":"Proteoglycan/GAG biosynthesis","description":"The top GO terms are dominated by proteoglycan and glycosaminoglycan biosynthetic processes (heparan sulfate, chondroitin/dermatan sulfate) and related sulfation and sugar metabolism steps, despite some obsolete annotations. This points to a cohesive theme of proteoglycan/GAG assembly and modification, suggesting these proteins function in proteoglycan biosynthesis pathways.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":3},{"id":"GO:0015015","count":3},{"id":"GO:0000103","count":2},{"id":"GO:0030573","count":2},{"id":"GO:0030210","count":2}]},{"hash":"1300331161912827015","title":"Cytoskeletal dynamics and cell adhesion","description":"This cluster centers on actin cytoskeleton remodeling and cell adhesion, with terms for lamellipodium assembly, stress fiber regulation, and integrin-mediated adhesion, and it also touches on EMT and morphogenesis, reflecting structural remodeling across various tissues.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904970","count":2},{"id":"GO:0001751","count":2},{"id":"GO:0001837","count":2},{"id":"GO:0050957","count":2},{"id":"GO:0010592","count":2}]},{"hash":"1743144597465133529","title":"Chromatin Organization and Centromere Assembly","description":"The top GO terms cluster around heterochromatin formation and CENP-A\u2013containing chromatin assembly, pointing to roles in chromatin structure and centromere maintenance; a few differentiation terms seem incidental, but the core signal is chromatin regulation.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":2},{"id":"GO:0030543","count":1},{"id":"GO:0043457","count":1},{"id":"GO:1904815","count":1},{"id":"GO:1900446","count":1}]},{"hash":"511430442151240584","title":"Plant cell wall polysaccharide biosynthesis","description":"Top GO terms indicate synthesis of pectin, xylan, mucilage, and related cell wall components, plus glycosylation processes, suggesting proteins in this cluster are involved in plant cell wall assembly and modification.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":1},{"id":"GO:0005978","count":1},{"id":"GO:0010417","count":1},{"id":"GO:0010192","count":1},{"id":"GO:0009834","count":1}]},{"hash":"724975379028817524","title":"Neuronal GPCR signaling and calcium-dependent synaptic transmission","description":"Top terms point to phosphatidylinositol-mediated signaling, IP pathway catabolism, GPCR signaling regulation, calcium ion transport, and active synaptic signaling (GABAergic and glutamatergic). This combination strongly suggests a neuronal signaling module governed by GPCRs and calcium dynamics driving neurotransmission. Some terms (e.g., IL-12 production, retinal cell death, labyrinthine development) appear less central to the core theme and may reflect broader functional annotations or pleiotropy.","confidence":"High","size":6,"edges":8,"triangles":4,"max_degree":5,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048015","count":6},{"id":"GO:1902634","count":6},{"id":"GO:0032735","count":6},{"id":"GO:0046673","count":6},{"id":"GO:0008277","count":6}]},{"hash":"375519660122029832","title":"Innate immune signaling and gene regulation","description":"Top GO terms point to innate immune response and TNF-mediated signaling, with additional hints of gene expression regulation (miRNA silencing, epigenetic programming) and regulatory protein processing (ubiquitination, microtubule localization). This combination suggests a cluster centered on immune signaling with regulatory, transcriptional/epigenetic control, hence the label.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903762","count":3},{"id":"GO:0051865","count":3},{"id":"GO:1901253","count":3},{"id":"GO:0035372","count":3},{"id":"GO:0051092","count":3}]},{"hash":"583129265243360396","title":"Immune activation and lymphocyte signaling","description":"This cluster is characterized by GO terms focusing on regulation and signaling of T cells and B cells (e.g., positive regulation of T cell proliferation, B cell receptor signaling, gamma-delta T cell differentiation, beta selection). While a few terms touch on ion transport or other processes, the dominant immune-related terms suggest an immune activation/regulatory theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":6},{"id":"GO:0010765","count":6},{"id":"GO:0010571","count":6},{"id":"GO:0010954","count":6},{"id":"GO:0045588","count":6}]},{"hash":"796405172620672061","title":"Proteostasis and protein quality control","description":"The GO terms cluster around protein folding/unfolding, proteasome assembly and SCF complex dynamics under stress, plus ER-related organization and stress responses that tie to protein turnover and quality control. Although some terms are obsolete, the prevailing theme is maintenance of protein homeostasis and degradation under stress.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046835","count":3},{"id":"GO:0001319","count":2},{"id":"GO:0043335","count":2},{"id":"GO:0070651","count":2},{"id":"GO:0000733","count":2}]},{"hash":"1740522196111665014","title":"Membrane Ion and Substrate Transporters","description":"The GO terms indicate transmembrane transport of multiple ions (phosphate, potassium, sodium, nitrate) and a variety of substrates (sialic acid, xenobiotics, 4-hydroxyphenylacetate), plus a vesicular neurotransmitter loading process. This points to a cluster of membrane transport proteins with broad substrate specificity, rather than a single, highly specific function.","confidence":"Medium","size":6,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0098700","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0042891","count":2}]},{"hash":"371446305243417749","title":"Translation Machinery and Regulation","description":"The cluster is dominated by translation-related GO terms at multiple stages, including general translation, translational initiation, elongation, and termination, plus positive regulation of cytoplasmic translation. It also features specialized translation processes such as selenocysteine incorporation and the diphthamide modification of a translation factor, EF2. The presence of deadenylation-dependent decay links translation to mRNA turnover, and the antibiotic response may reflect translation-associated stress. Together, these terms point to a cohesive set of ribosome-associated proteins and regulators of protein synthesis.","confidence":"High","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006413","count":4},{"id":"GO:2000767","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0014009","count":4}]},{"hash":"1655431593473402201","title":"Purine Nucleotide Biosynthesis and Metabolism","description":"This cluster is dominated by GO terms for purine-related nucleotide production and turnover: hypoxanthine, AMP, urate, PRPP biosynthesis, and nucleoside metabolic processes, with accompanying general phosphorylation. Development terms (nervous system, bone development, organ regeneration) likely reflect broader roles or contextual expression rather than core function. Overall, the strongest signal ties to purine nucleotide biosynthesis and metabolism.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046101","count":4},{"id":"GO:0006167","count":4},{"id":"GO:0034418","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0006015","count":4}]},{"hash":"737187699036305597","title":"Neural, immune, and vascular signaling","description":"The top GO terms span nervous system functions (visual perception; prepulse inhibition; operant conditioning) and immune/inflammatory responses (eosinophil chemotaxis; positive regulation of chronic inflammatory response), plus vascular/tissue-related processes (vasoconstriction; smooth muscle contraction; saliva secretion; lung connective tissue development). This mix suggests a cluster of proteins involved in coordinating neural signaling with immune and vascular/tissue-level responses rather than a single, cohesive pathway. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002882","count":6},{"id":"GO:0035106","count":6},{"id":"GO:0046541","count":6},{"id":"GO:0009253","count":6},{"id":"GO:0014829","count":6}]},{"hash":"398268220747618376","title":"Immune signaling and vesicle transport","description":"This cluster links immune receptor signaling (B cell receptor signaling, IL-2 production, mast cell proliferation, ephrin signaling) with vesicle trafficking and cytoskeletal processes (transcytosis, lysosome localization, actin filament organization), suggesting proteins involved in both signaling and vesicle transport pathways.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0045056","count":5},{"id":"GO:0060378","count":5},{"id":"GO:1900042","count":5},{"id":"GO:1903764","count":5},{"id":"GO:0010954","count":5}]},{"hash":"1680060730017529602","title":"Nuclear Cell Cycle and Telomere Organization","description":"The cluster\u2019s top GO terms are dominated by cell cycle and cell division (GO:0007049, GO:0051301), with several terms related to nuclear localization to telomeres and Cajal bodies (GO:1904851, GO:1904871), suggesting a focus on nuclear genome maintenance during division. Some terms about misfolded protein detection or immune functions appear but are less cohesive with the main theme. Overall, it points to nuclear cell-cycle and telomere/biomolecular localization processes.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":5},{"id":"GO:1904469","count":5},{"id":"GO:1901998","count":5},{"id":"GO:0051973","count":5},{"id":"GO:0048291","count":5}]},{"hash":"1185020324984157499","title":"DNA replication and centrosome cycle","description":"The top terms show strong signals for DNA replication, the centrosome cycle, and regulation of the nuclear cell cycle, indicating core involvement in cell cycle control. While there are accompanying developmental morphogenesis terms, the strongest and most cohesive signal is DNA replication/centrosome-related processes. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010571","count":3},{"id":"GO:0007098","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0031496","count":2}]},{"hash":"124663905411287270","title":"Unknown","description":"The top GO terms cover a mix of autophagy, DNA repair, mitochondrial dynamics, endocytosis, inflammatory signaling, translation, ER stress and apoptosis, innate immune signaling, detox responses, and neurodevelopment, with no single coherent function emerging for the cluster.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1901097","count":5},{"id":"GO:0070911","count":5},{"id":"GO:0010636","count":5},{"id":"GO:1900186","count":5},{"id":"GO:1903265","count":5}]},{"hash":"1960585235149323370","title":"Ubiquitin-mediated cell cycle and apoptosis regulation","description":"The GO terms point to ubiquitin signaling (protein monoubiquitination and K11-linked ubiquitination) coupled with regulators of the cell cycle and intrinsic apoptosis (mitochondrial cytochrome c release, TNF signaling, and oxidative stress\u2013related apoptotic pathways), suggesting a coherent theme of ubiquitin-dependent control of cell proliferation and programmed cell death. Given the small cluster size and limited network edges, this label captures the predominant shared function without overgeneralizing.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:2000495","count":1},{"id":"GO:0007050","count":1},{"id":"GO:0002318","count":1},{"id":"GO:0090141","count":1}]},{"hash":"166062569260373489","title":"Mitotic cell cycle and kinetochore localization","description":"Based on the top GO terms, the cluster centers on mitosis: localization to the kinetochore, G1/S and G2/M transitions, and the mitotic cell cycle with chromosome alignment. These point to roles in spindle assembly and chromosome segregation. The nervous system development and axon extension terms are likely incidental; the dominant signal is mitotic function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034501","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0000086","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0030097","count":2}]},{"hash":"1747879706589138259","title":"RNA transcription and ribosome biogenesis","description":"The terms are dominated by RNA polymerase\u2013driven transcription (I\u2013III), including tRNA transcription and termination, plus ribosome biogenesis. This points to a cluster of factors involved in transcriptional activity and ribosome assembly; minor terms about polarity and protein sorting are likely ancillary.","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":3},{"id":"GO:0001172","count":3},{"id":"GO:0006385","count":2},{"id":"GO:0042797","count":2},{"id":"GO:0006386","count":2}]},{"hash":"2055219837792866295","title":"Bacterial metabolism, sporulation, and antibiotic biosynthesis","description":"Top terms include diverse carbon and redox metabolism (oxidation-reduction, L-alanine, formate, methylamine, one-carbon) along with sporulation and antibiotic biosynthetic processes, suggesting a bacterial protein cluster involved in core metabolism and in developmental/secondary metabolism pathways such as sporulation and antibiotic production.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042853","count":3},{"id":"GO:0017000","count":2},{"id":"GO:0042183","count":2},{"id":"GO:0006730","count":2}]},{"hash":"66542876465985451","title":"Sterol and isoprenoid lipid biosynthesis","description":"The GO terms cluster around ergosterol biosynthesis, cholesterol biosynthesis, and farnesyl diphosphate/isoprenoid production, all tied to acetyl-CoA metabolism and lipid processing, indicating a unifying lipid/sterol biosynthesis theme. Minor terms like responses to light or starvation are ancillary and do not override the core lipid/isoprenoid signal.","confidence":"High","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009645","count":2},{"id":"GO:0006084","count":2},{"id":"GO:0006696","count":2},{"id":"GO:0010142","count":2},{"id":"GO:0006695","count":2}]},{"hash":"1019213412110550837","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031496","count":1},{"id":"GO:0010571","count":1},{"id":"GO:0003226","count":1},{"id":"GO:0035315","count":1},{"id":"GO:1990120","count":1}]},{"hash":"1604211644576829505","title":"Thermal Response and Potassium Homeostasis","description":"The cluster centers on temperature-related responses (cellular response to temperature stimulus, diet-induced thermogenesis) and robust potassium transport/homeostasis (potassium ion transport, regulation of membrane potential, and related import/export processes). This suggests a cohesive theme where thermal cues influence ion balance and membrane potential, rather than disparate functions.","confidence":"Medium","size":5,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0018298","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0019233","count":4},{"id":"GO:0042391","count":4}]},{"hash":"756263632177105762","title":"B cell\u2013driven adaptive immunity","description":"The terms show B cell proliferation/differentiation and adaptive humoral responses, plus defense against virus. Although innate terms are present, the B cell\u2013focused GO terms dominate, indicating a cluster centered on B cell activation and adaptive antiviral immunity.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":2},{"id":"GO:0006959","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0042100","count":2}]},{"hash":"2185411614530344428","title":"ER stress\u2013linked translation and protein folding","description":"Most enriched terms describe the unfolded protein response and ER stress, including response to unfolded protein, positive regulation of translation initiation under ER stress, and protein folding/refolding. Additional terms touch on nuclear export, tRNA import, and translation frameshifting, suggesting coordination of translation and trafficking during stress. A smaller portion references DNA replication, which is less central. Overall, the cluster centers on maintaining protein homeostasis under stress through translation control and folding.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0045454","count":1},{"id":"GO:0046825","count":1},{"id":"GO:0036494","count":1}]},{"hash":"6606861939148176","title":"Ubiquitin-Dependent Cell Cycle Regulation","description":"The cluster\u2019s top GO terms overwhelmingly relate to ubiquitin-mediated protein degradation, including SCF- and APC/C-dependent pathways, and to cell division processes such as mitotic progression. This suggests a coherent theme of ubiquitin-driven regulation of the cell cycle, with some immune-related terms likely reflecting ubiquitin signaling roles in antiviral responses.","confidence":"High","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0070979","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1569303815599141074","title":"Adaptive Immune Activation and Antigen Presentation","description":"The cluster centers on adaptive immune signaling: multiple terms point to B cell receptor signaling, immunoglobulin production, MHC class II\u2013mediated antigen presentation, chemokine production, and T cell\u2013associated cytokine production (TNF, IL-2). This suggests a coherent theme of lymphocyte activation and antigen presentation, with a possible incidental association to ion transport that does not define the core function.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0010765","count":5},{"id":"GO:1904469","count":5},{"id":"GO:1900042","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0051134","count":5}]},{"hash":"543082244328041642","title":"Ubiquitin-mediated proteostasis and stress signaling","description":"This cluster centers on ubiquitin-related processes (ubiquitin-dependent ERAD pathway and autoubiquitination) and autophagy/stress regulation (aggrephagy, ER stress-related apoptotic signaling, and modulation of TLR3 signaling). While there are other housekeeping terms (ribosomal subunit assembly, nucleotide-excision repair) present, the strongest common theme is proteostasis maintenance through ubiquitin-proteasome and autophagy pathways, as well as cellular stress response control.","confidence":"Medium","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0010636","count":4},{"id":"GO:0034140","count":4},{"id":"GO:1902236","count":4}]},{"hash":"1002243527212270399","title":"Leukocyte recruitment, phagocytosis, and complement signaling","description":"The top GO terms cluster around immune cell interactions: leukocyte tethering/rolling, phagocytosis via Fc-gamma receptor signaling, and complement activation (lectin pathway), plus lymph vessel morphogenesis and NK cell chemotaxis regulation. This points to a cohesive theme of leukocyte recruitment and immune signaling, with oxidative stress-induced senescence appearing as a secondary stress-related annotation. Overall, these proteins seem involved in leukocyte adhesion, recognition, and effector signaling.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090403","count":4},{"id":"GO:0006910","count":4},{"id":"GO:0060355","count":4},{"id":"GO:2000502","count":4},{"id":"GO:0050901","count":4}]},{"hash":"1980858258165945391","title":"MAPK-driven innate immune signaling","description":"The proteins are linked by ERK1/ERK2 cascade activity and immune-related responses: neutrophil chemotaxis, cellular responses to LPS, defense against viruses, and positive regulation of IL-1\u03b2 production, all pointing to MAPK-mediated inflammatory signaling. Some outlier terms (endothelial morphogenesis, inner ear development, heat response) are less central to this theme, but the core pattern is MAPK-driven immune/inflammatory signaling.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070371","count":2},{"id":"GO:0030593","count":2},{"id":"GO:1901509","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0071222","count":2}]},{"hash":"595957586840329670","title":"Chromatin remodeling and histone modification","description":"The top GO terms cluster around nucleosome assembly/disassembly and histone acetylation regulation, plus chromatin decondensation in sperm, all pointing to dynamic chromatin structure changes. Other terms touch on cell division-related processes (microtubule polymerization, stem cell division), which often involve chromatin remodeling. Together they suggest a chromatin dynamics and histone modification-focused function for this cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043085","count":1},{"id":"GO:0006337","count":1},{"id":"GO:2000035","count":1},{"id":"GO:0071442","count":1},{"id":"GO:0031116","count":1}]},{"hash":"206003300867846168","title":"Immune Activation: B cell Signaling and Phagocytosis","description":"Most terms cluster around immune processes: B cell receptor signaling, positive regulation of B cell activation, innate immune response, phagocytosis recognition and engulfment, and classical complement activation. Together they point to an immune-activation theme involving B cells and phagocytic pathways, with a few unrelated terms likely due to annotation noise. ","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006936","count":3},{"id":"GO:0050853","count":2},{"id":"GO:0006911","count":2},{"id":"GO:0006910","count":2},{"id":"GO:0006958","count":2}]},{"hash":"2298400218749125047","title":"Adaptive immune cell activation and development","description":"The top GO terms cluster around adaptive immune processes: T cell proliferation (alpha-beta and gamma-delta), B cell receptor signaling, and thymic beta selection, indicating activation and maturation of adaptive immune cells. Supporting terms like regulation of protein processing and extracellular matrix disassembly may reflect downstream cellular changes during immune responses. Overall, a cohesive theme of adaptive immune signaling and development.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":5},{"id":"GO:0010765","count":5},{"id":"GO:0010571","count":5},{"id":"GO:0010954","count":5},{"id":"GO:0045588","count":5}]},{"hash":"2211772996226153181","title":"Nuclear RNA Processing and Ribosome Export","description":"This cluster is dominated by GO terms about regulation of RNA processing and export from the nucleus (tRNA, mRNA, rRNA) and regulation of ribosomal large subunit export, indicating a shared function in nuclear RNA metabolism and ribosome biogenesis. Some terms mentioning dendrite/trophoblast migration appear less central, so the core theme remains nuclear RNA processing and ribosome export.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1901315","count":5},{"id":"GO:1903861","count":5},{"id":"GO:2000238","count":5},{"id":"GO:2000235","count":5},{"id":"GO:0010793","count":5}]},{"hash":"331294570056735880","title":"Embryonic development and morphogenesis","description":"The terms cluster around embryonic development, including endocrine and pancreatic cell development, left-right pattern formation, placental EMT, and cartilage morphogenesis, indicating a shared theme of developmental differentiation and tissue morphogenesis; a spliceosome-related term may reflect general gene expression required during development.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0060536","count":2}]},{"hash":"2045468528120598687","title":"Cell Cycle and Mitochondrial Apoptosis Regulation","description":"The terms cluster around regulation of cyclin-dependent kinase activity (cell cycle control) and cytochrome c release from mitochondria (intrinsic apoptosis), plus several protein trafficking/localization processes (nuclear export, protein targeting). This suggests a theme of coordinating cell proliferation and programmed cell death via mitochondrial signaling and protein transport, with some growth regulation signals. Therefore, a label emphasizing cell cycle control and mitochondrial apoptotic signaling best captures the cluster.","confidence":"Medium","size":5,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000079","count":4},{"id":"GO:0006713","count":4},{"id":"GO:0046827","count":4},{"id":"GO:1900740","count":4},{"id":"GO:0006605","count":4}]},{"hash":"1595239500365060060","title":"Plant amino acid and chlorophyll biosynthesis","description":"This cluster is enriched for multiple biosynthetic processes, including amino acid biosynthesis (ornithine, beta-alanine, proline, alanine) and chlorophyll/chlorophyll-related porphyrin biosynthesis. The convergence on amino acid and pigment biosynthesis, plus a chlorophyll pathway term, points to plant plastidial metabolism as the common theme, despite the presence of a stress response term that is less central. ","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006593","count":1},{"id":"GO:0009102","count":1},{"id":"GO:0019483","count":1},{"id":"GO:0055129","count":1},{"id":"GO:0015995","count":1}]},{"hash":"1984393083448533066","title":"Fungal lipid and sterol metabolism","description":"The top GO terms center on lipid and sterol biosynthesis (unsaturated fatty acid biosynthetic process; regulation of ergosterol biosynthetic process) with related metabolic activities (nitrate assimilation, nitric oxide biosynthetic process) and redox processes (oxidation-reduction). While some terms seem noisy or unrelated (e.g., sebaceous gland differentiation, CNS myelin maintenance), the core pattern points to lipid/sterol metabolism typical of fungi, with associated redox and nitrogen metabolism. Overall, a cohesive label that captures the apparent fungal lipid/sterol metabolic focus is appropriate.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0032286","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0032443","count":4},{"id":"GO:0006809","count":4}]},{"hash":"763134459157658469","title":"Mitochondrial oxidative phosphorylation","description":"The top GO terms are dominated by aerobic electron transport chain, oxidative phosphorylation, and proton transmembrane transport, all central to mitochondrial energy production and ATP synthesis. A few unrelated terms appear, but the core signal supports respiration/energy metabolism as the cluster theme.","confidence":"High","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019646","count":1},{"id":"GO:0008535","count":1},{"id":"GO:0006119","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0001319","count":1}]},{"hash":"2268823755281089725","title":"Actin Dynamics and Mechanotransduction","description":"The terms converge on actin filament remodeling (depolymerization and its regulation) and force-responsive signaling (integrin pathways, calcineurin-NFAT), plus muscle stretch detection, suggesting a cytoskeletal/mechanotransduction theme; other GO terms are less coherent with the main pattern.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000637","count":3},{"id":"GO:0021526","count":3},{"id":"GO:0030042","count":3},{"id":"GO:0030835","count":3},{"id":"GO:0008585","count":3}]},{"hash":"1073642240152476865","title":"Unknown","description":"The list of top GO terms includes plant-specific metabolite biosynthesis (anthocyanin and quercetin glycoside), xenobiotic glucuronidation, vertebrate development (somite specification, somitogenesis, midbrain and liver development), transcriptional regulation, and cell cycle. The mix of plant metabolism with animal development and detoxification lacks a cohesive, single-function theme, so a precise label cannot be confidently assigned.","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009718","count":3},{"id":"GO:0001757","count":2},{"id":"GO:0014807","count":2},{"id":"GO:0030901","count":2},{"id":"GO:0000122","count":2}]},{"hash":"189220925635464918","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042183","count":2},{"id":"GO:0006730","count":2},{"id":"GO:0009087","count":2},{"id":"GO:0035635","count":2},{"id":"GO:0001887","count":2}]},{"hash":"1341250790966967318","title":"Vertebrate Neural Development & Wnt Regulation","description":"Based on the GO terms, the cluster centers on vertebrate development with specific neural patterning (dorsal/ventral spinal cord, rhombomere 2) and broader signaling involvement (regulation of Wnt signaling). There is also an outlier hint of heart development (atrioventricular node) and other developmental processes like myoblast proliferation, which collectively point to developmental regulation in vertebrates rather than a single enzyme or pathway. The common theme is neural development intertwined with Wnt-mediated signaling during vertebrate organogenesis, making a neural development with Wnt regulation label most representative.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0021920","count":5},{"id":"GO:0021516","count":5},{"id":"GO:0060527","count":5},{"id":"GO:0021913","count":5},{"id":"GO:2001055","count":5}]},{"hash":"1981544059109934608","title":"Dopamine receptor signaling and ERK pathway activation","description":"The cluster prominently features dopamine-related signaling terms, including positive regulation of dopamine uptake, adenylate cyclase-activating dopamine receptor signaling pathway, and positive regulation of the ERK1/ERK2 cascade, indicating a core theme of dopaminergic signal transduction and downstream kinase activation. Additional terms point to related membrane lipid biosynthesis and vesicle transport processes, which can accompany receptor signaling, supporting a coherent dopaminergic signaling cluster with ERK involvement.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0051586","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0010513","count":2},{"id":"GO:0007191","count":2}]},{"hash":"1109712023461263277","title":"Germline/Ovarian Development and Fertilization","description":"This cluster is best characterized by terms tied to germline and ovarian development (germarium-derived germ-line cyst encapsulation, follicle cell stalk formation) and reproductive processes (single fertilization), with additional developmental signaling (TGF-beta) and protein regulation (ubiquitin-mediated catabolism). While there are a few outliers related to lens differentiation or plant patterning, the dominant pattern centers on oogenesis and early embryogenesis, suggesting a reproductive-development theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000011","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0030708","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0007338","count":2}]},{"hash":"1039992700548991350","title":"Ubiquitin-Dependent Antiviral Innate Immunity","description":"The top GO terms cluster around ubiquitination pathways (ubiquitin-dependent ERAD, K63-linked ubiquitination, ubiquitin-dependent protein catabolic process) and innate antiviral defense (defense response to virus, innate immune response). This suggests a functional theme of proteins that regulate antiviral innate immunity through ubiquitin tagging and degradation, even though there are some additional, less central terms (cilium assembly, steroid receptor complex assembly). Overall, the dominant signal ties ubiquitin-mediated processing to antiviral immune responses.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0070534","count":4},{"id":"GO:0051607","count":4},{"id":"GO:0045087","count":4},{"id":"GO:1905515","count":3}]},{"hash":"1769384279516611040","title":"Heart and craniofacial morphogenesis with transcriptional regulation","description":"This cluster centers on developmental morphogenesis across tissues, especially heart (ventricular myocardium and trabeculae) and craniofacial structures (nose), with pattern formation and skeletal muscle development also represented. The accompanying transcriptional regulatory terms (negative regulation of RNA Pol II, histone modification/heterochromatin maintenance) suggest these proteins function at the level of controlling gene expression during morphogenesis. Some terms (IgE isotype switching, vernalization) appear less directly related or species-specific noise, but do not overturn the dominant morphogenesis signal.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0048294","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0003226","count":2}]},{"hash":"601634685487419415","title":"Unknown","description":"The top GO terms come from very different biological areas (plant root hair development, T cell signaling, neuron development, lipid metabolism, eosinophil movement, erythrocyte aggregation, xenophagy), with no clear common function connecting the proteins. The lack of edges and cohesive theme supports assigning an Unknown label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080147","count":1},{"id":"GO:0070241","count":1},{"id":"GO:0090305","count":1},{"id":"GO:2001190","count":1},{"id":"GO:0048678","count":1}]},{"hash":"1847462799107474055","title":"Bacterial cell wall polysaccharide biosynthesis and metabolism","description":"Top GO terms point to bacterial cell wall components (peptidoglycan turnover, teichoic acid, enterobacterial common antigen biosynthesis) and related carbohydrate metabolism (N-acetylglucosamine pathways, glycolysis). This suggests a cohesive theme around cell-wall polysaccharide synthesis and turnover supported by carbohydrate metabolism.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006096","count":3},{"id":"GO:0006045","count":3},{"id":"GO:0006552","count":2},{"id":"GO:0009254","count":2},{"id":"GO:0019316","count":2}]},{"hash":"2056596736446732795","title":"Unknown","description":"The GO terms are scattered across ubiquitin-mediated protein regulation (including ubiquitin-dependent catabolic process and K33-linked ubiquitination), RNA processing (splicing), nutrient response, immune signaling (B cell receptor pathway), and diverse developmental/morphogenesis processes (placenta, germinal center, cartilage, distal tubule) with gravitropism as well. This broad, non-cohesive mix provides no single, clear shared function or biological theme linking all proteins, so a specific, representative label cannot be confidently assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0000398","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0050853","count":2},{"id":"GO:0060806","count":2}]},{"hash":"2062988403595877161","title":"Unknown","description":"These five proteins show a highly diverse set of GO terms, including ciliogenesis, ubiquitination, steroid receptor assembly, development, ER stress translation initiation, cell cycle transitions, antiviral defense regulation, and gluconeogenesis. There is no single, cohesive function that unites these terms, so a specific biological label cannot be confidently assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905515","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0006463","count":2},{"id":"GO:0060613","count":2},{"id":"GO:0000413","count":2}]},{"hash":"2287008548489355920","title":"Virus-host interaction proteins","description":"Based on the GO terms, the cluster centers on processes involved in viral infection and virus-host interactions, including viral life cycle, virion assembly, and proviral latency, as well as host entry and genome replication activation. Some terms also reference host cell\u2013cell adhesion and leukocyte migration, which can play roles in immune response and cell\u2013cell interactions during infection. Collectively, these annotations suggest a cohesive theme around virus-host interaction and replication, rather than a single, narrowly defined cellular process.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":2},{"id":"GO:0010849","count":1},{"id":"GO:0000413","count":1},{"id":"GO:0019076","count":1},{"id":"GO:0050900","count":1}]},{"hash":"572143449264963708","title":"RNA processing and ribosome biogenesis","description":"Based on the top GO terms, the proteins cluster around post-transcriptional RNA metabolism: spliceosome-mediated mRNA splicing, mRNA processing and binding, transcriptional translation, and ribosomal small subunit biogenesis; some terms also touch on miRNA regulation and mitochondrial mRNA polyadenylation, suggesting a cohesive theme of RNA processing and ribosome assembly. Ancillary terms like TNF response appear context-specific but do not override the core RNA-centric signal. ","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:2000637","count":5},{"id":"GO:1902416","count":5},{"id":"GO:0006412","count":5},{"id":"GO:0048024","count":5},{"id":"GO:0000398","count":5}]},{"hash":"1490481631448512587","title":"Developmental Differentiation Across Tissues","description":"Based on the top GO terms, this cluster centers on differentiation and development across multiple tissues and lineages, including cardiac muscle differentiation, osteoblast differentiation, cartilage morphogenesis, trophoblast and placental development, pancreatic endocrine cell development, and broader endocrine system development. Although a couple of terms touch on general cellular processes like DNA replication initiation regulation and ribosomal export, the dominant theme is coordinated developmental differentiation programs across cardiovascular, skeletal, reproductive, and endocrine tissues, suggesting these proteins act as regulators of embryonic organogenesis and tissue specification.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":2},{"id":"GO:2000727","count":2},{"id":"GO:0045667","count":2},{"id":"GO:0003323","count":1},{"id":"GO:0035270","count":1}]},{"hash":"453000926908661599","title":"Actin dynamics in axon guidance and development","description":"The terms point to actin cytoskeleton remodeling (filopodium and stress fiber assembly) and axon guidance, both central to neuronal development and cell migration. While xenobiotic and stress pathways appear, the core cluster theme is actin-mediated remodeling linked to guidance and development. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0007411","count":2},{"id":"GO:0051496","count":2},{"id":"GO:0046847","count":2}]},{"hash":"1094014849391127999","title":"ECM remodeling and cell migration","description":"Based on the GO terms, the proteins cluster around extracellular matrix (hylauronan metabolism, metallopeptidase activity) and processes of cell movement/adhesion (heterotypic cell-cell adhesion, cellular extravasation, substrate-dependent migration), with connections to development and immune activation (complement). This points to a shared theme of extracellular matrix remodeling enabling cell migration and tissue remodeling, hence the label ECM remodeling and cell migration. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034113","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0006956","count":1},{"id":"GO:0045123","count":1},{"id":"GO:0031104","count":1}]},{"hash":"390817287079206893","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms related to ribosome assembly and function\u2014ribosome biogenesis, small subunit biogenesis, cytoplasmic translation, subunit export, and cotranslational targeting\u2014indicating a cohesive group of proteins involved in ribosome production and protein synthesis; a few other terms appear as minor associations but do not outweigh the central ribosome/translation theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0042274","count":2},{"id":"GO:0002181","count":2},{"id":"GO:0042023","count":1},{"id":"GO:1904669","count":1}]},{"hash":"951049274780418283","title":"Unknown","description":"The GO terms are highly diverse (plasmid partitioning, chromatin assembly, transcription regulation, muscle differentiation, photomorphogenesis, Wnt signaling) with no clear common function or interaction pattern, and there are no edges to tie a specific theme together. This makes a cohesive label unwarranted.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030543","count":1},{"id":"GO:0043457","count":1},{"id":"GO:1904815","count":1},{"id":"GO:1900446","count":1},{"id":"GO:1904837","count":1}]},{"hash":"2143909979236833312","title":"Lymphocyte Activation and Development Signaling","description":"The top GO terms cluster around adaptive immune processes: positive regulation of T cell proliferation, gamma-delta T cell differentiation, B cell receptor signaling, and beta selection, which together point to proteins involved in lymphocyte activation and development. A few non-immune terms appear (sodium transport, ECM disassembly, visual perception), likely reflecting broader or cross-annotated roles, but the strongest signal centers on immune signaling and lymphocyte maturation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":3},{"id":"GO:0010765","count":3},{"id":"GO:0010571","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0045588","count":3}]},{"hash":"1987993310451465342","title":"Secretory trafficking and exocytosis","description":"The Top Terms cluster around vesicle exocytosis (dense core granule exocytosis), ER-to-Golgi transport, actin cytoskeleton organization, and synaptic transmission, pointing to secretory pathway activity and cytoskeletal remodeling. Even the cardiac contraction and sodium transport terms reflect excitable cell physiology tied to secretion and signaling. Overall, the common thread is vesicle trafficking and secretion supporting neuronal/neuroendocrine function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0010765","count":4},{"id":"GO:0060048","count":4},{"id":"GO:0030036","count":4},{"id":"GO:1990504","count":4},{"id":"GO:0060716","count":4}]},{"hash":"1058921118033785087","title":"Ubiquitination-driven development and cell adhesion","description":"The cluster is dominated by ubiquitination-related terms (protein ubiquitination, monoubiquitination, K63-linked ubiquitination) and includes developmental processes (stem cell differentiation, multicellular organism growth, placental morphogenesis) along with cell adhesion (adherens junction organization) and related signaling (regulation of JNK cascade). This suggests proteins function together in ubiquitination-mediated regulation of development and cell\u2013cell interactions.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0046328","count":2},{"id":"GO:0048863","count":2},{"id":"GO:0006513","count":2},{"id":"GO:0021942","count":2}]},{"hash":"918970165108158651","title":"Neuronal development and axon guidance","description":"The top GO terms cluster around neural development, including forebrain and olfactory bulb neuronal migration, axon fasciculation, photoreceptor differentiation, and signaling pathways that coordinate neural connectivity (Roundabout/Slit signaling, trans-synaptic signaling, RTK signaling). While there are a few terms touching broader morphogenesis and tau regulation, the dominant theme is neural development with emphasis on guidance and synaptic signaling.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902948","count":4},{"id":"GO:0030513","count":4},{"id":"GO:0010172","count":4},{"id":"GO:0021836","count":4},{"id":"GO:0007169","count":4}]},{"hash":"1697502216734599667","title":"Neuronal development and dendritic spine morphogenesis","description":"The top GO terms cluster around neural development (multicellular organism development, neural tube closure, forebrain development) and dendritic spine morphogenesis, with an additional emphasis on actin cytoskeleton remodeling (positive regulation of Arp2/3 complex-mediated actin nucleation). This combination points to neuronal development and synaptic spine formation as the core theme, with some terms (e.g., behavioral response to cocaine) reflecting neural function rather than development itself. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0001843","count":4},{"id":"GO:2000601","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0048148","count":3}]},{"hash":"1162211783194583051","title":"Quinone biosynthesis and fatty-acid metabolism","description":"The top GO terms cluster around phylloquinone and menaquinone biosynthesis, complemented by fatty acid beta-oxidation and several catabolic pathways (valine, phenylacetate). This suggests a metabolic module focused on quinone biosynthesis and energy metabolism, with related amino acid and secondary metabolite processes. ","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042372","count":2},{"id":"GO:0006635","count":2},{"id":"GO:0006574","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0010124","count":2}]},{"hash":"1332014050718879045","title":"RNA Splicing and Translation Regulation","description":"The top GO terms point strongly to spliceosome activity and RNA processing (spliceosome conformational changes, splice site recognition, mRNA splicing via spliceosome, poly(A) tail regulation) as well as translation initiation/ reinitiation (IRES-dependent initiation, translation reinitiation). These together suggest a cluster of proteins involved in RNA processing and control of gene expression at the RNA level, with a few outliers (lithium response, obsolete terms). ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010226","count":1},{"id":"GO:0000388","count":1},{"id":"GO:1903586","count":1},{"id":"GO:1902625","count":1},{"id":"GO:0060211","count":1}]},{"hash":"1693869765672438506","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms for translation and ribosome assembly/biogenesis (translation; ribosomal large subunit biogenesis and assembly; cytosolic ribosome assembly; rRNA processing), indicating a shared function in ribosome production and protein synthesis. Some terms such as centrosome duplication and optic nerve development are less connected and likely incidental.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0042256","count":1},{"id":"GO:0006364","count":1}]},{"hash":"850889638401933135","title":"Secretory vesicle trafficking and exocytosis","description":"The terms cluster around vesicle transport from the Golgi to the plasma membrane and subsequent exocytosis, spanning neuronal synaptic vesicle release, immune-cell degranulation (NK cells, neutrophils), and general secretory processes (mucus secretion). This points to a common theme of regulated secretion via secretory vesicles.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0098967","count":1},{"id":"GO:0048280","count":1},{"id":"GO:0043320","count":1},{"id":"GO:0043001","count":1},{"id":"GO:0042147","count":1}]},{"hash":"969918918231929907","title":"Cytokinesis and cytoskeletal remodeling","description":"The set emphasizes mitotic cytokinesis and cleavage furrow formation, along with podosome assembly and phosphatidylinositol signaling, all pointing to cytoskeletal reorganization and membrane dynamics during cell division and adhesion. Endosome-to-lysosome transport and polarity-related terms suggest a broader trafficking/context link, but the core theme remains cytoskeletal remodeling associated with division and cell movement.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032005","count":1},{"id":"GO:2000769","count":1},{"id":"GO:0060378","count":1},{"id":"GO:0000281","count":1},{"id":"GO:0008333","count":1}]},{"hash":"1498636945512969591","title":"Purine Nucleotide Salvage and Biosynthesis","description":"The cluster is dominated by GO terms for purine salvage (AMP, GMP, adenine, XMP) and PRPP-driven biosynthesis, indicating a shared role in recycling and generating purine nucleotides; peripheral terms like lactation or CNS neuron development are less central to the core theme but may reflect broader annotations.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":3},{"id":"GO:0007595","count":2},{"id":"GO:0046038","count":2},{"id":"GO:0045892","count":2},{"id":"GO:0021954","count":2}]},{"hash":"1147523235983740","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008306","count":3},{"id":"GO:2000042","count":2},{"id":"GO:0031292","count":2},{"id":"GO:0010165","count":2},{"id":"GO:0035315","count":2}]},{"hash":"1611668728397847192","title":"B cell signaling and actin dynamics","description":"The cluster is enriched for B cell receptor signaling and proliferation, along with actin cytoskeleton organization (actin bundle and cortical patch assembly), suggesting a group of proteins involved in B cell activation and associated cytoskeletal remodeling. Some other terms (polarity, barrier establishment) appear less central but may reflect broader cell\u2013cell interaction contexts.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0030890","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0090557","count":2}]},{"hash":"2164282649660140907","title":"Spinal Cord Neurodevelopment and Neuron Specification","description":"The top GO terms are dominated by spinal cord development and neuron specification (dorsal/ventral spinal cord, interneuron specification, rhombomere development) with supporting roles for Wnt signaling regulation and general developmental processes. Some terms are oblique or obsolete, but the cluster most consistently points to neural patterning and spinal cord\u2013related neurodevelopment.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021920","count":3},{"id":"GO:0021516","count":3},{"id":"GO:0060527","count":3},{"id":"GO:0021913","count":3},{"id":"GO:2001055","count":3}]},{"hash":"1669819441139338850","title":"Ubiquitin-Proteasome-Mediated Degradation","description":"The top GO terms cluster around ubiquitin-dependent pathways (ERAD, SCF ubiquitination, K11-linked ubiquitination) and proteasomal protein catabolism, indicating a shared function in tagging and degrading proteins; additional terms point to cytoskeletal regulation and developmental processes, possibly reflecting downstream effects of protein turnover.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0010697","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0070979","count":2}]},{"hash":"281313757782785633","title":"TLR-Mediated Immune Signaling","description":"The top GO terms are centered on Toll-like receptor signaling (TLR2, TL4, TL9) and downstream immune regulation (negative regulation of IL-6 production and B cell activation), suggesting a core theme of innate immune sensing and inflammatory control. Some neural-related terms (myelination, sensory perception of sound) and development-related terms (tracheal outgrowth) appear but do not cohere as strongly with the immune signaling theme, so the primary cluster function is TLR-driven immune signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":1},{"id":"GO:0007605","count":1},{"id":"GO:0009636","count":1},{"id":"GO:0007426","count":1},{"id":"GO:0034162","count":1}]},{"hash":"1344315984775448801","title":"TNF/NF-\u03baB inflammatory signaling","description":"This cluster is dominated by GO terms for TNF-mediated signaling, IL-17 signaling, and I\u03baB phosphorylation, all central to NF-\u03baB\u2013driven inflammatory responses. Additional terms for chemokine production and ubiquitination reinforce an immune-regulatory, proinflammatory theme, with ancillary links to antiviral defense and metabolism. The core pattern points to inflammatory signaling and host defense, supporting this label.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":3},{"id":"GO:1903883","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0010636","count":2},{"id":"GO:0046676","count":2}]},{"hash":"400689681481593797","title":"Unknown","description":"The GO terms are diverse and do not point to a single cohesive function for the proteins: transcription, visual perception, ion transport, signaling, drug response, and membrane potential regulation are all represented without a unifying theme. While some hints suggest neuronal or sensory processes, the mix is too broad to assign a specific cluster label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0098719","count":3},{"id":"GO:0045762","count":3},{"id":"GO:0060038","count":3}]},{"hash":"730491009349815165","title":"Adaptive immune signaling and lymphocyte development","description":"The proteins are enriched for adaptive immune terms, including positive regulation of T cell proliferation, gamma-delta T cell differentiation, B cell receptor signaling, and beta selection, suggesting roles in lymphocyte activation and development. Some non-immune terms appear but do not override the dominant immune-related signals.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":4},{"id":"GO:0010765","count":4},{"id":"GO:0010571","count":4},{"id":"GO:0010954","count":4},{"id":"GO:0045588","count":4}]},{"hash":"2113607549429804854","title":"Unknown","description":"The GO terms span cell-cycle regulation, autophagy (mitochondrion and Cvt pathway), metabolic processes (thiamine biosynthesis), post-translational modification (neddylation, lipidation), transcription regulation, and defense responses, with no single clear functional theme tying all four proteins together. This lacks a cohesive, interpretable cluster function, so a specific label isn\u2019t supported beyond Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007113","count":3},{"id":"GO:0050832","count":3},{"id":"GO:0009229","count":3},{"id":"GO:0009228","count":3},{"id":"GO:0000422","count":3}]},{"hash":"1204576188218504247","title":"Neuronal synaptic signaling and plasticity","description":"This cluster centers on neural synaptic function and plasticity, with GO terms such as short-term synaptic potentiation, presynapse signaling, and dendrite extension, alongside phosphatidylinositol-mediated signaling and lipid metabolism that underpin lipid signaling in neurons. While a few terms are broader (e.g., stress response, phagocytosis, tRNA export), the core emphasis is on synaptic signaling and plasticity in neurons.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990926","count":2},{"id":"GO:0080148","count":2},{"id":"GO:1901002","count":2},{"id":"GO:0046456","count":2},{"id":"GO:0048015","count":2}]},{"hash":"2287042224779672818","title":"Unknown","description":"The top terms cover adhesion, vision, immune activation, ECM remodeling, cartilage morphogenesis, reproduction, neural regeneration, migration, and coagulation, with no single shared pathway. Because there is no apparent functional theme and edges are absent, there is no basis for a cohesive cluster label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034113","count":1},{"id":"GO:0050908","count":1},{"id":"GO:0006956","count":1},{"id":"GO:1905050","count":1},{"id":"GO:0003429","count":1}]},{"hash":"2264223078439549395","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031425","count":2},{"id":"GO:0001682","count":2},{"id":"GO:0070129","count":2},{"id":"GO:0042793","count":2},{"id":"GO:0031426","count":2}]},{"hash":"346044710825197128","title":"Planar polarity and axon guidance proteins","description":"These proteins cluster around planar cell polarity establishment and related axon guidance processes, including dopaminergic/serotonergic neuron guidance and associated cell\u2013cell adhesion, suggesting a coherent module of planar polarity signaling coordinating neural guidance and tissue morphogenesis.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048105","count":3},{"id":"GO:1904938","count":3},{"id":"GO:0036514","count":3},{"id":"GO:0007156","count":3},{"id":"GO:0036515","count":3}]},{"hash":"1950988450278721867","title":"Lymphocyte Activation and Signaling","description":"The GO terms are dominated by immune-activation signals, including positive regulation of T cell proliferation, gamma-delta T cell differentiation, B cell receptor signaling, and interleukin-2 production, suggesting a cohesive theme of lymphocyte activation and cytokine signaling. Some calcium signaling and mast cell proliferation terms further support an immune signaling context, though a few other terms appear tangential.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":3},{"id":"GO:0010765","count":3},{"id":"GO:0010571","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0045588","count":3}]},{"hash":"1789712018716137787","title":"Skeletal development and ECM remodeling","description":"Reasoning: The term set centers on extracellular matrix components and remodeling (collagen fibril organization, integrin signaling, endothelial cell migration) and developmental processes (somite development, chondrocyte differentiation). Peptidyl-lysine oxidation suggests collagen cross-linking, reinforcing ECM changes during skeletal/vascular formation. Although lipid transport and immune-related terms appear, the dominant pattern supports a connective tissue development and ECM remodeling theme.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010886","count":3},{"id":"GO:2001046","count":3},{"id":"GO:0032332","count":3},{"id":"GO:0018057","count":3},{"id":"GO:0061053","count":3}]},{"hash":"576956755919621870","title":"Neural development and axon guidance signaling","description":"The proteins cluster around neural development and axon pathfinding: BMP signaling, forebrain and interneuron migration, chemorepulsion in the olfactory bulb, roundabout/Robo signaling, trans-synaptic signaling, and axon fasciculation. A photoreceptor differentiation term also fits the broader neural/eye development theme. The obsolete tau kinase term is not informative. Together these GO terms point to a coherent role in neural patterning, cell migration, and axon guidance.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902948","count":2},{"id":"GO:0030513","count":2},{"id":"GO:0010172","count":2},{"id":"GO:0021836","count":2},{"id":"GO:0007169","count":2}]},{"hash":"1718967713395325144","title":"Cytokine and Neuronal Signaling","description":"The cluster includes GO terms central to cytokine-mediated signaling and immune effector functions (STAT phosphorylation, IL-27 signaling, TH2 cytokine production, granzyme B production, neutrophil clearance) as well as neural signaling processes (ROBO roundabout signaling, clustering of voltage-gated sodium channels, and transmission of nerve impulses). This suggests a set of proteins involved in broader signaling regulation that spans both immune and nervous system communication, with cytokine signaling as a unifying theme and concurrent neural signaling roles.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":3},{"id":"GO:0030513","count":2},{"id":"GO:0035385","count":2},{"id":"GO:0071663","count":2},{"id":"GO:0035745","count":2}]},{"hash":"1163839092713712876","title":"Endocytosis and membrane trafficking","description":"The top GO terms converge on membrane trafficking, especially clathrin- and caveolin-mediated endocytosis, actin remodeling (filopodium formation and filament organization), and regulation of endocytosis, suggesting the proteins work together in endocytic pathways and cytoskeletal dynamics. Some terms like energy homeostasis are less central and may be incidental. Overall, a coherent theme is endocytosis and membrane trafficking.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048268","count":2},{"id":"GO:0031532","count":2},{"id":"GO:2000507","count":2},{"id":"GO:0051044","count":2},{"id":"GO:0007015","count":2}]},{"hash":"2058130712053040785","title":"Multisystem development and adhesion","description":"The top GO terms span several developmental programs across tissues (cardiac cushion formation, nephron development, B cell differentiation) and include adhesion/signal-transduction roles (intermicrovillar adhesion, integrin activation, synaptic organization). There isn\u2019t a single cohesive pathway linking all terms, but a broad theme of developmental differentiation coupled with cell-adhesion and signaling functions. ","confidence":"Low","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0003273","count":4},{"id":"GO:0070445","count":4},{"id":"GO:0090675","count":4},{"id":"GO:1904071","count":4},{"id":"GO:0072006","count":4}]},{"hash":"1860508988432815707","title":"CNS Neuron Differentiation and Axonogenesis","description":"The dominant GO terms describe central nervous system development and neuronal differentiation, including retinal ganglion axon guidance, projection neuron axonogenesis, cerebellar cortex formation, and Bergmann glial differentiation, plus trans-synaptic signaling relevant to synaptic connectivity. Despite a few immune-related terms, the shared theme is neural development and axon formation, justifying this label.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0045588","count":4},{"id":"GO:0099557","count":4},{"id":"GO:0060068","count":4},{"id":"GO:0042517","count":4},{"id":"GO:0031290","count":4}]},{"hash":"334570877924109405","title":"mRNA splicing and translation regulation","description":"The protein set shows multiple GO terms tied to RNA processing: mRNA splicing via spliceosome, splice site recognition, and regulation of mRNA polyadenylation/tail shortening, along with translation-related terms such as translation reinitiation and IRES-dependent viral translational initiation. The co-occurrence of spliceosome-related terms and translation initiation/reinitiation terms suggests a functional cluster of proteins involved in transcript maturation and the regulation of translation, rather than a single metabolic or signaling pathway. Although several terms are listed as obsolete, the remaining non-obsolete terms consistently point to an RNA-centric post-transcriptional regulatory role, justifying a label centered on RNA processing and translation control.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903586","count":2},{"id":"GO:1902625","count":2},{"id":"GO:0060211","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0048026","count":2}]},{"hash":"1490604619687204140","title":"Mitochondrial apoptosis signaling","description":"The terms point to mitochondrial involvement in apoptosis, especially the release of cytochrome c from mitochondria, which is a key intrinsic apoptosis event. The other terms suggest broader stress-related signaling and cell-cycle regulation that can intersect with apoptotic pathways, but the prominent cytochrome c release term anchors the cluster to mitochondrial apoptosis signaling.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000079","count":3},{"id":"GO:0006713","count":3},{"id":"GO:0046827","count":3},{"id":"GO:1900740","count":3},{"id":"GO:0006605","count":3}]},{"hash":"1398727288682596539","title":"Protein folding, degradation, and trafficking","description":"The top terms point to protein handling across organelles (peroxisomal import, ERAD, protein unfolding) and intracellular transport (vesicle trafficking, ER polarization), suggesting a cohesive theme around quality control of proteins and their movement within the cell. Some terms are obsolete, which lowers certainty, but the retained terms support a label focusing on protein quality control and trafficking.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016558","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0001319","count":1},{"id":"GO:0043335","count":1},{"id":"GO:0070651","count":1}]},{"hash":"1140489958849520225","title":"Auditory nerve development and neuronal signaling","description":"The top GO terms cohere around neural and auditory functions: response to auditory stimulus, vestibulocochlear nerve formation, neurofilament cytoskeleton organization, membrane repolarization, and related neuronal signaling processes. A few terms (copper ion transport, vacuole organization, phospholipid translocation/dephosphorylation, involuntary skeletal muscle contraction) are more general, but the dominant pattern points to nervous system development and auditory pathway activity.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"establishment or maintenance of cell polarity","top_go_terms":[{"id":"GO:0010996","count":3},{"id":"GO:0007163","count":3},{"id":"GO:0007033","count":3},{"id":"GO:0045332","count":3},{"id":"GO:0006825","count":3}]},{"hash":"23079588234345302","title":"Unknown","description":"The GO terms span cell cycle regulation, kinetochore localization, various immune signaling pathways (T and B cell processes), and unrelated processes like visual perception and ion transport, yielding no single cohesive function to label the cluster.","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0045736","count":4},{"id":"GO:0034501","count":4},{"id":"GO:0046641","count":3},{"id":"GO:0010765","count":3},{"id":"GO:0010571","count":3}]},{"hash":"2087863984403490914","title":"Multi-tissue development and differentiation","description":"The GO terms point to a range of tissue- and organ-level differentiation and morphogenesis events\u2014lung goblet cell differentiation, heart valve formation via endocardial cushion to mesenchymal transition, primitive streak formation, vascular remodeling and blood circulation\u2014as well as immune and glandular differentiation. This broad spread suggests a general role in developmental differentiation across multiple tissues, rather than a single specific pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060480","count":4},{"id":"GO:2000504","count":4},{"id":"GO:0070932","count":4},{"id":"GO:0003199","count":4},{"id":"GO:0030851","count":4}]},{"hash":"1909877948068410234","title":"Cardiovascular development and heart valve formation","description":"This cluster\u2019s top GO terms are dominated by cardiovascular-related processes: positive regulation of blood vessel remodeling, endocardial cushion to mesenchymal transition involved in heart valve formation, and blood circulation, suggesting a coherent focus on cardiovascular development and heart valve formation. While a few terms touch on other developmental processes, the vascular/heart EMT theme is most evident.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000504","count":4},{"id":"GO:0060480","count":4},{"id":"GO:0070932","count":4},{"id":"GO:0003199","count":4},{"id":"GO:0030851","count":4}]},{"hash":"100573768101324980","title":"Mitotic Regulation and Ubiquitin-Proteasome","description":"This cluster is dominated by terms tied to cell division and mitosis, including cell division, mitotic cell cycle transitions, kinetochore localization of the chromosome passenger complex, and SCF-dependent ubiquitin-proteasome\u2013mediated protein degradation. These point to a coordinated role in mitotic progression and protein turnover. Peripheral terms like ER unfolded protein response, circadian rhythm regulation, and metal-response signals may reflect broader cellular stress contexts rather than core function. Overall, the proteins likely participate in mitotic control and ubiquitin-proteasome\u2013driven proteolysis.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0030968","count":2},{"id":"GO:0001556","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0042752","count":2}]},{"hash":"1496304506636634133","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0007286","count":1},{"id":"GO:0018406","count":1},{"id":"GO:0014883","count":1}]},{"hash":"1925498631928206076","title":"Leukocyte trafficking and ECM remodeling","description":"This cluster\u2019s GO terms cluster around immune cell movement (neutrophil/eosinophil migration and extravasation), integrin-mediated adhesion, and extracellular matrix organization (collagen fibril organization), along with endothelial morphogenesis and membrane ectodomain proteolysis. The combination points to a theme of inflammatory cell trafficking and remodeling of the ECM and vasculature, rather than a single metabolic or enzymatic function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010765","count":2},{"id":"GO:2000391","count":2},{"id":"GO:0045780","count":2},{"id":"GO:0051044","count":2},{"id":"GO:2000418","count":2}]},{"hash":"2119254112797403508","title":"Developmental morphogenesis","description":"The top GO terms point to broader developmental and organogenesis processes, spanning spinal cord (dorsal/ventral), hindbrain rhombomere development, heart (AV node), and muscle (myoblast proliferation) formation, with supporting cytoskeletal regulation. This suggests the proteins act in embryonic tissue differentiation and morphogenesis across multiple tissues rather than a single tissue-specific function.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021920","count":3},{"id":"GO:0021516","count":3},{"id":"GO:0060527","count":3},{"id":"GO:0021913","count":3},{"id":"GO:2001055","count":3}]},{"hash":"741736598081402728","title":"Lipid and steroid metabolism","description":"The GO terms show fatty acid elongation, very long-chain and methyl-branched fatty acid biosynthesis, and estrogen/steroid biosynthetic or catabolic processes, indicating a cohesive theme around lipid metabolism and steroid biosynthesis. A few methylation-related terms are present but do not override the primary lipid/steroid signal.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0031167","count":2},{"id":"GO:0018027","count":2},{"id":"GO:0006706","count":1},{"id":"GO:0030497","count":1}]},{"hash":"173954755323870568","title":"Neural and Eye Development","description":"The top GO terms are dominated by neural and eye-related development (retina development, retinal ganglion cell axon guidance, forebrain development, multicellular organism development), with some general development and gene-regulation processes also present. This suggests the proteins are involved in broader developmental pathways, particularly neural/eye morphogenesis, rather than a single specific function. ","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0035195","count":2},{"id":"GO:0045617","count":2},{"id":"GO:0031290","count":2}]},{"hash":"1785800367530240009","title":"Flavonoid glycoside biosynthesis","description":"The GO terms show biosynthesis of flavonoid glycosides, specifically quercetin O-glucoside and cyanidin 3-O-glucoside, indicating a theme around flavonoid glycoside production. Related glycosylation/degeneration terms (glucuronidation, lipid glycosylation) support a broader glycosylation/metabolism context, while other terms like cell cycle/division and cell wall organization appear more generic. Overall, the cluster seems centered on flavonoid glycoside biosynthesis and associated glycosylation processes.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0033303","count":4},{"id":"GO:0052697","count":4},{"id":"GO:0033485","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1318720686763567525","title":"DNA-Templated Transcription","description":"The dominant GO term is DNA-templated transcription (GO:0006351), appearing twice, suggesting nuclear transcriptional activity. Lipoprotein transport (GO:0042953) also appears twice, which may reflect multifunctional proteins or annotation noise; the other terms are mostly singletons and include various tissue morphogenesis and differentiation terms that don\u2019t form a coherent shared function. Overall, transcription emerges as the primary signal, but the small cluster size and mixed terms justify a moderate level of confidence.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0042953","count":2},{"id":"GO:0055010","count":1},{"id":"GO:0009444","count":1},{"id":"GO:0060527","count":1}]},{"hash":"1211902086005006155","title":"Embryonic development and organogenesis","description":"The top GO terms cluster around developmental processes such as eye morphogenesis, anterior/posterior axis specification, gastrulation, endodermal differentiation, and organ formation (inner ear development and endochondral ossification). These collectively point to embryonic development and morphogenesis, with regulatory processes like transcriptional repression supporting developmental control.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048593","count":3},{"id":"GO:0048103","count":2},{"id":"GO:0009948","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0001702","count":2}]},{"hash":"1629563445237522529","title":"Meiosis-related chromosome segregation and ubiquitin regulation","description":"Top GO terms indicate meiotic chromatid cohesion, DSB formation, recombination checkpoint signaling, and chromosome segregation, alongside ubiquitin-dependent protein catabolism and regulation of ubiquitin ligase activity, suggesting a cluster coordinating meiosis with protein turnover.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042177","count":1},{"id":"GO:0051177","count":1},{"id":"GO:0010719","count":1},{"id":"GO:1904667","count":1},{"id":"GO:0000070","count":1}]},{"hash":"1872776045220023007","title":"Vesicle Trafficking and Exocytosis","description":"The GO terms cluster around vesicle transport and exocytic fusion across cellular compartments (Golgi-to-plasma membrane transport, ERGIC/Golgi fusion, synaptic vesicle exocytosis, receptor insertion at postsynaptic membranes) and even NK cell degranulation, indicating a shared function in exocytosis and vesicle trafficking in diverse cell types.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":3},{"id":"GO:0098967","count":2},{"id":"GO:0048280","count":2},{"id":"GO:0043320","count":2},{"id":"GO:1990668","count":2}]},{"hash":"1276896889532827285","title":"Developmental Transcriptional Regulation","description":"The top GO terms show negative regulation of RNA Pol II transcription alongside multiple embryonic developmental processes (endocrine system development, left-right patterning, cartilage morphogenesis, placental/trophoblast differentiation), suggesting proteins involved in transcriptional control during development.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046022","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060707","count":2}]},{"hash":"645047695316880056","title":"Apoptosis Regulation and Stress Response","description":"Enriched for apoptosis regulation and stress responses: negative regulation of extrinsic apoptotic signaling, execution phase of apoptosis, glial/hepatocyte apoptotic processes, plus responses to UV, X-ray, hypoxia, and mechanical stimulus. This suggests a cluster of proteins that control cell death under stress, with possible links to inflammatory signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902042","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0032757","count":3},{"id":"GO:0009411","count":2},{"id":"GO:0097194","count":2}]},{"hash":"2065125092855200992","title":"Mitochondrial dynamics and ER tethering","description":"The Top Terms include multiple mitochondrial-related processes (outer membrane permeabilization, inheritance, organization) and mitochondrion-ER membrane tethering, pointing to a core theme of mitochondrial dynamics and inter-organelle contacts. Other terms (neural development, xenobiotic response, signaling) appear peripheral, so the central function is best represented by mitochondrial structure and ER contacts. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0097345","count":1},{"id":"GO:0051489","count":1},{"id":"GO:1902542","count":1}]},{"hash":"710040888093556357","title":"Chromatin Regulation and Gene Expression","description":"These terms cluster around epigenetic programming of gene expression (epigenetic control, histone catabolic processes) and transcriptional regulation through pathways like I-kappaB/NF-kB, indicating a core theme of chromatin dynamics and gene expression control. Ribosome biogenesis and cell division point to cellular growth and protein synthesis linked to gene expression, while immune-related terms (IL-17 signaling, chemokine production, suppression of viral release) reflect downstream transcriptional responses. Overall, the dominant theme is transcriptional regulation via chromatin remodeling with related growth and immune signaling aspects.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0043045","count":1}]},{"hash":"1678851103971095948","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006364","count":2},{"id":"GO:0034396","count":1},{"id":"GO:0034724","count":1},{"id":"GO:0035551","count":1},{"id":"GO:0030574","count":1}]},{"hash":"629847501707873482","title":"Glycan processing and glycosphingolipid biosynthesis","description":"The set of GO terms centers on N-glycan processing, oligosaccharide metabolism, glycosylceramide/ganglioside biosynthesis, and protein sialylation, indicating a shared role in glycosylation pathways and glycan modification. Some terms (pollen germination/tube growth, olfactory placode morphogenesis) are less central but could reflect broader developmental contexts or species-specific associations; overall, the dominant theme is glycan biosynthesis and modification.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006491","count":2},{"id":"GO:0006677","count":2},{"id":"GO:0071699","count":2},{"id":"GO:0018279","count":2},{"id":"GO:0006054","count":2}]},{"hash":"2292331555512650165","title":"Cardiovascular development and adhesion regulation","description":"This cluster shows multiple GO terms tied to heart and vessel formation (cardiac ventricle morphogenesis, cardiac muscle tissue growth, arterial endothelial differentiation) and to cell-substrate adhesion, suggesting a shared role in cardiovascular development and ECM interactions. A few terms point to immune cell differentiation, but the dominant signal is cardiovascular development and adhesion.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010811","count":3},{"id":"GO:0007275","count":3},{"id":"GO:1900127","count":3},{"id":"GO:0055017","count":2},{"id":"GO:0035754","count":2}]},{"hash":"1721906955467238620","title":"Ubiquitin-Proteasome and Cytoskeletal Regulation","description":"The terms point to ubiquitin-mediated proteolysis (SCF-dependent, K11-linked ubiquitination) alongside cytoskeletal and ciliary processes (microtubule severing, actin capping, intraciliary transport), with developmental signals represented, suggesting a cluster of proteins coordinating protein turnover with cytoskeletal/ciliary dynamics.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0010697","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0007369","count":4},{"id":"GO:2000011","count":4}]},{"hash":"1865040504632569393","title":"Spermatid differentiation and centrosome cycle","description":"The cluster is dominated by spermatid nucleus differentiation and centrosome cycle terms, suggesting a focus on germ cell development and cell division machinery; other terms are sparse or obsolete, so the core signal is this link between spermatid differentiation and centrosome regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007289","count":2},{"id":"GO:1901097","count":1},{"id":"GO:0007098","count":1},{"id":"GO:1901726","count":1},{"id":"GO:0034720","count":1}]},{"hash":"2003714215852669563","title":"Cardiac ion channel regulation and conduction","description":"The top GO terms point to ion channel regulation and cardiac electrical activity: positive regulation of cation channel activity, membrane repolarization in atrial cardiac muscle cell action potential, cardiac muscle cell action potential involved in contraction, regulation of resting membrane potential, and regulation of heart rate by cardiac conduction. While a few terms are less directly tied to the heart (e.g., nicotine response, wing disc development, CNS myelination), the cardiac-related terms clearly dominate the cluster\u2019s functional theme. Confidence: Medium","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2001259","count":2},{"id":"GO:0098914","count":2},{"id":"GO:1905965","count":2},{"id":"GO:0046676","count":2},{"id":"GO:0071316","count":2}]},{"hash":"189784344812319053","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070935","count":2},{"id":"GO:0033129","count":2},{"id":"GO:0046641","count":1},{"id":"GO:0010765","count":1},{"id":"GO:0010571","count":1}]},{"hash":"1950118780871301245","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0031146","count":2},{"id":"GO:0007369","count":2}]},{"hash":"1430866457120981329","title":"Neurodevelopment and Synaptic Plasticity Regulators","description":"The GO terms largely point to neural development and synaptic modulation, including radial glial scaffold formation, oligodendrocyte differentiation, dendritic spine morphogenesis, long-term potentiation regulation, and neuron migration. While a few terms touch on vascular signaling, the dominant theme is neurodevelopment and synaptic regulation across the cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038027","count":2},{"id":"GO:0021943","count":2},{"id":"GO:0045429","count":2},{"id":"GO:0001938","count":2},{"id":"GO:1904901","count":2}]},{"hash":"1416305492048238073","title":"Purine and folate one-carbon metabolism","description":"The top GO terms cluster around tetrahydrofolate interconversion, 10-formyltetrahydrofolate biosynthesis, and purine nucleotide/purine nucleobase biosynthesis, pointing to one-carbon metabolism linked to nucleotide production. While a few terms touch broader metabolism, the dominant signal is purine and folate metabolism.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035999","count":2},{"id":"GO:0000105","count":2},{"id":"GO:0009113","count":2},{"id":"GO:0009437","count":1},{"id":"GO:0033539","count":1}]},{"hash":"2188572282124549525","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090526","count":2},{"id":"GO:0003283","count":2},{"id":"GO:0019358","count":1},{"id":"GO:0034213","count":1},{"id":"GO:0034354","count":1}]},{"hash":"127092570654887128","title":"Nucleotide metabolism and cofactor biosynthesis","description":"Based on the top GO terms, the cluster converges on nucleotide metabolism and related cofactor biosynthesis: AMP salvage, nucleoside phosphorylation, ADP synthesis, purine ribonucleotide interconversion, and biosynthesis of NAD+ and CoA. The brain and liver development annotations are broad and likely incidental. The dominant theme is nucleotide metabolism and cofactor biosynthesis.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0015937","count":3},{"id":"GO:0015951","count":3},{"id":"GO:0006172","count":3},{"id":"GO:0001889","count":3}]},{"hash":"1589247457368073153","title":"Intracellular Protein Transport and Organelle Organization","description":"The top GO terms repeatedly point to movement and organization of cellular compartments: transport from Golgi to plasma membrane, localization to the cilium, nuclear envelope organization, and membrane-to-membrane transport. Although there are some cell cycle and phosphorylation terms, the dominant theme is intracellular trafficking and organelle maintenance, suggesting this cluster represents proteins involved in intracellular transport and organelle organization.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006468","count":2},{"id":"GO:0007049","count":1},{"id":"GO:0046909","count":1},{"id":"GO:0006998","count":1},{"id":"GO:0097499","count":1}]},{"hash":"209434730782046700","title":"Adaptive Immune Signaling and Cytoskeleton Regulation","description":"The proteins are enriched for adaptive immune terms (adaptive immune response, T follicular helper cell differentiation) along with actin cytoskeleton organization and signaling regulation (GTPase activity, JNK, ubiquitination). This points to a cohesive theme of immune cell signaling coupled with cytoskeletal dynamics, likely related to T cell help and immune synapse formation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030036","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0002635","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0016567","count":2}]},{"hash":"1391430177507546223","title":"Unknown","description":"The top GO terms are highly diverse, spanning deubiquitination, metabolic regulation, heart and ear development, transcription and RNA processing, and even obsolete DNA rewinding. With zero edges and no cohesive common function across the three proteins, there isn\u2019t a single interpretable theme to name the cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070536","count":1},{"id":"GO:0090526","count":1},{"id":"GO:0003203","count":1},{"id":"GO:0033132","count":1},{"id":"GO:1904404","count":1}]},{"hash":"2304178310165555423","title":"Ubiquitin-Proteasome System in Development","description":"This cluster is dominated by GO terms for ubiquitination and proteasomal degradation (polyubiquitination, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process, K11-linked ubiquitination, ERAD) and includes development-related terms (multicellular organism development, skin development, gastrulation). Together these suggest a group of proteins involved in ubiquitin-mediated proteolysis that influences developmental processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0043029","count":2}]},{"hash":"1313411535934951217","title":"Neuronal vesicle trafficking and actin remodeling","description":"The top GO terms cluster around neuronal functions (synaptic transmission, Roundabout signaling, bipolar cell growth) and intracellular trafficking with cytoskeletal remodeling (ER-Golgi transport, endosome-Golgi retrograde transport, mitochondrion-ER tethering, actin branching). This suggests proteins coordinating vesicle movement and actin dynamics to support neural signaling and neuron structure. Confidence: High","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050885","count":3},{"id":"GO:1990456","count":2},{"id":"GO:0043366","count":2},{"id":"GO:1902953","count":2},{"id":"GO:0035385","count":2}]},{"hash":"65388174605600487","title":"Unknown","description":"The proteins show GO terms across very diverse processes, including multiple metabolic catabolic pathways, carbon fixation, kinase activation, ribosome biogenesis, and tissue- or organism-specific functions (cardiac development, B cell chemotaxis, genistein response). With no edges or cohesive functional module linking these terms, there isn\u2019t a clear common function to name the cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033611","count":1},{"id":"GO:0043427","count":1},{"id":"GO:0042413","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0042254","count":1}]},{"hash":"1397158626341062397","title":"Nuclear transport and protein complex assembly","description":"The terms cluster around nuclear-cytoplasmic transport (NLS-bearing import, tRNA export, regulation of import) and protein complex formation (heterotrimerization, heterotetramerization, homooligomerization), with a note of mitotic nuclear membrane dynamics and intracellular transport of viruses. This suggests proteins involved in shuttling between nucleus and cytoplasm and in assembling protein complexes, justifying the label. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010827","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0007077","count":3},{"id":"GO:0075733","count":3},{"id":"GO:0006409","count":3}]},{"hash":"1524995585558131461","title":"Immune signaling and inflammatory responses","description":"The top GO terms cluster around immune-related processes: B cell receptor signaling, responses to lipopolysaccharide and muramyl dipeptide, and broader inflammatory signaling (including NF-kappaB-related terms). While some terms touch on growth factor or development pathways, the strongest and most frequent signals point to immune recognition and inflammatory response, making this a coherent label for the cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:0035729","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0071375","count":2},{"id":"GO:0071222","count":2}]},{"hash":"1844525787492480720","title":"Ubiquitin-dependent mitotic proteolysis","description":"The top terms point to ubiquitin-proteasome\u2013mediated degradation (SCF- and APC-dependent processes), deubiquitination, and regulation of the G2/M transition, including anaphase-promoting complex activity. This suggests the cluster comprises proteins functioning together in ubiquitin-dependent proteolysis that controls mitotic progression.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:0033209","count":2},{"id":"GO:0051437","count":2},{"id":"GO:0051436","count":2},{"id":"GO:0031145","count":2}]},{"hash":"1068128245128875313","title":"Golgi-ER-Endosome Vesicle Transport","description":"The top GO terms cluster around vesicle trafficking among Golgi, endosomes, and the ER, including Golgi-to-endosome, ER-to-Golgi, and retrograde Golgi-ER transport, indicating a core function in the secretory pathway and intracellular vesicle movement. Some terms are peripheral or broader (e.g., signaling or growth) but the dominant theme is vesicular transport within the secretory system.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006895","count":3},{"id":"GO:0035646","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0006888","count":3}]},{"hash":"2287550724125830603","title":"Neuronal membrane transport and polarity","description":"The terms cluster around membrane-associated processes (phospholipid translocation and dephosphorylation, vacuole organization, membrane repolarization) and neuron-specific architecture (neurofilament cytoskeleton organization, response to auditory stimulus, cell polarity), suggesting a group of proteins involved in membrane trafficking that supports neuronal polarity and signaling.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010996","count":2},{"id":"GO:0007163","count":2},{"id":"GO:0007033","count":2},{"id":"GO:0045332","count":2},{"id":"GO:1900082","count":2}]},{"hash":"1592744387543209297","title":"B cell activation and phagocytosis","description":"Most frequent GO terms are dominated by B cell receptor signaling, phagocytosis (recognition and engulfment), complement activation, and innate immune response, pointing to a cluster centered on adaptive B cell signaling coupled with phagocytic/immune effector processes. Some terms appear unrelated (sodium transport regulation, olfactory placode morphogenesis), likely background noise. Confidence: High","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:0006910","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0006911","count":3},{"id":"GO:0050871","count":3}]},{"hash":"1430040006041358667","title":"Neural development with glial differentiation and cell adhesion","description":"Based on GO terms emphasizing radial glial scaffold formation, oligodendrocyte differentiation, and dendrite morphogenesis, this cluster centers on neural development and glial lineage maturation, with supporting signals for cell adhesion and cytoskeletal remodeling (stress fibers, migration). While some terms also touch on lipid signaling, the dominant cohesive theme is neural development and glial differentiation coupled with adhesion-related processes.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038027","count":3},{"id":"GO:0021943","count":3},{"id":"GO:0048714","count":3},{"id":"GO:0048813","count":3},{"id":"GO:0090136","count":3}]},{"hash":"837631113684009234","title":"T cell activation and interferon response","description":"The terms cluster around immune regulation and cell trafficking\u2014especially CD4+ T cell proliferation, response to type II interferon, eosinophil/NK cell chemotaxis, and adhesion processes\u2014suggesting a group involved in modulating T cell\u2013mediated immunity and immune cell interactions, with some adhesion remodeling context.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034112","count":1},{"id":"GO:0071346","count":1},{"id":"GO:0051041","count":1},{"id":"GO:2000563","count":1},{"id":"GO:0032914","count":1}]},{"hash":"479819854791577280","title":"Vascular remodeling and hypoxia signaling with apoptosis","description":"The dominant GO terms point to vascular regulation (negative regulation of blood vessel remodeling, vasoconstriction), hypoxia response, and extrinsic apoptotic signaling, suggesting a core theme of stress- and signal-driven vascular and cell-survival pathways. Additional terms related to GPCR internalization and cytoskeletal assembly hint at broader signaling context but do not contradict this vascular/apoptotic focus.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":2},{"id":"GO:0008344","count":2},{"id":"GO:0001782","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0010765","count":1}]},{"hash":"1307232438363250225","title":"Developmental Growth and Stress Signaling","description":"The GO terms show development-related processes (head involution, regulation of heart looping) alongside growth and energy regulation (negative regulation of TOR signaling, negative regulation of glycolytic process, proton transport and ATP synthesis) and stress responses (response to dexamethasone, hypoxia, p53-mediated apoptotic signaling). This pattern suggests a theme of coordinating development with metabolism and cellular stress, rather than a single narrow function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008258","count":2},{"id":"GO:0045820","count":1},{"id":"GO:0032007","count":1},{"id":"GO:0071549","count":1},{"id":"GO:0042771","count":1}]},{"hash":"819349892694845841","title":"Dendritic spine actin remodeling","description":"Proteins are linked to Rac signaling, Arp2/3-mediated actin nucleation, filopodium and dendritic spine morphogenesis, and actin filament capping, pointing to actin cytoskeleton remodeling in neuronal dendrites and spines as the common theme. The cluster clearly centers on cytoskeletal dynamics rather than broader metabolic functions.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016601","count":1},{"id":"GO:0051694","count":1},{"id":"GO:0051491","count":1},{"id":"GO:0060997","count":1},{"id":"GO:0032233","count":1}]},{"hash":"1435370689327014058","title":"T and B cell activation and signaling","description":"This cluster is dominated by GO terms related to adaptive immunity, including positive regulation of T cell proliferation, gamma-delta T cell differentiation, B cell receptor signaling, and beta selection, suggesting a cohesive theme of T and B cell activation and signaling. A few non-immune terms appear among the terms, likely noise in a small cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046641","count":2},{"id":"GO:0010765","count":2},{"id":"GO:0010571","count":2},{"id":"GO:0010954","count":2},{"id":"GO:0045588","count":2}]},{"hash":"1940219002561593333","title":"Cell Polarity and Membrane Organization","description":"The terms converge on processes that regulate how membrane domains and receptors are organized and how the actin cytoskeleton supports polarity, including receptor clustering, raft polarization, planar polarity establishment, and neurite/hair cell structure (stereocilium), with links to neuronal projection development and signaling responses. This suggests a cohesive theme of membrane-associated signaling intertwined with cytoskeletal organization and cell polarity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903909","count":1},{"id":"GO:0003331","count":1},{"id":"GO:0035729","count":1},{"id":"GO:0090178","count":1},{"id":"GO:0060088","count":1}]},{"hash":"1046698141601901141","title":"Epithelial morphogenesis and hair follicle development","description":"The top GO terms point to morphogenesis and proliferation of epithelial structures (hair follicles, salivary glands) and regulation of key signaling pathways like Wnt and ERK that drive these developmental processes. Although there are broader development terms (nervous system, substantia nigra), the strongest signals are epithelial morphogenesis and hair follicle formation, suggesting the cluster proteins participate in epithelial tissue development via Wnt/ERK signaling.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":2},{"id":"GO:0060501","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0060661","count":2},{"id":"GO:0090263","count":2}]},{"hash":"200181087976567894","title":"Nucleotide Metabolism and Salvage","description":"Most of the shared GO terms point to nucleotide metabolism and interconversion (ADP/CDP biosynthesis, AMP salvage, purine ribonucleotide interconversion, ITP metabolism). A few tissue-development terms (brain and liver development) appear, but with only three proteins and a single edge, the dominant signal is nucleotide metabolism, making this label a reasonable representation of the cluster's function.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0015951","count":3},{"id":"GO:0006172","count":3},{"id":"GO:0001889","count":3}]},{"hash":"893421686436688316","title":"Nuclear transport and mitotic machinery","description":"The terms are dominated by nuclear import/export and nuclear pore-related processes (mRNA and snRNP import, ribosomal subunit export, mRNA export, nuclear pore assembly, NLS-bearing import), with additional terms for kinetochore localization and astral microtubule organization tied to cell division. This points to a cluster of proteins functioning in nuclear trafficking and mitotic/kinetochore machinery.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006608","count":3},{"id":"GO:0006609","count":3},{"id":"GO:0034501","count":3},{"id":"GO:0042176","count":3},{"id":"GO:0000055","count":3}]},{"hash":"1095773108171553433","title":"Unknown","description":"GO terms point to developmental patterning (bilateral symmetry, forebrain development, anterior/posterior specification) but also show diverse metabolic processes (proline, retinol, folate), with several obsolete terms; there isn't a single unifying function linking the proteins, so Unknown.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009855","count":3},{"id":"GO:0055129","count":3},{"id":"GO:0009258","count":3},{"id":"GO:0010133","count":3},{"id":"GO:0030900","count":3}]},{"hash":"1504951326608529580","title":"Redox Homeostasis and Oxidative Stress Response","description":"Top GO terms are dominated by cellular redox processes, redox homeostasis, and oxidant detoxification, with a strong signal for oxidative stress response; a few peripheral terms (migration, methylamine metabolism, deglutathionylation) are less representative. This suggests the cluster centers on redox regulation and oxidative stress handling.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0043535","count":1},{"id":"GO:0003147","count":1}]},{"hash":"308135543631475499","title":"Mitochondrial translation and tRNA aminoacylation","description":"The presence of mitochondrial-specific tRNA synthetase activities (valyl-, tyrosyl-, tryptophanyl-tRNA aminoacylation) together with the translation GO term strongly points to mitochondrial protein synthesis as the cluster\u2019s core function; other GO terms appear less connected and likely incidental.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0001525","count":1},{"id":"GO:0006412","count":1},{"id":"GO:0006438","count":1},{"id":"GO:0070184","count":1}]},{"hash":"1095443226885400406","title":"Calcium signaling and homeostasis","description":"The top GO terms are dominated by calcium-related processes (intracellular calcium homeostasis, calcium transport between cytosol and ER, membrane repolarization, and T-tubule organization), suggesting the proteins cluster around calcium signaling and calcium handling, with possible relevance to cardiac or muscle cell excitability; other terms appear ancillary.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900082","count":3},{"id":"GO:0006825","count":3},{"id":"GO:1901205","count":3},{"id":"GO:0086009","count":3},{"id":"GO:0033292","count":3}]},{"hash":"1808516351760407174","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019388","count":1},{"id":"GO:0035336","count":1},{"id":"GO:0035754","count":1},{"id":"GO:0009244","count":1},{"id":"GO:0009243","count":1}]},{"hash":"621678815541667610","title":"Heart and vessel morphogenesis with inflammatory signaling","description":"This cluster centers on developmental processes involving heart and arterial vasculature (cardiac ventricle morphogenesis, cardiac muscle growth, arterial endothelial differentiation) and includes signaling pathway activity (JNK cascade) along with immune/inflammatory responses (lipopolysaccharide response, IL-10 production). The combination points to developmental signaling in cardiovascular tissues coupled with inflammatory signaling.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0055017","count":1},{"id":"GO:0060665","count":1},{"id":"GO:0003208","count":1}]},{"hash":"717698036544140340","title":"Unknown","description":"The GO terms are spread across diverse animal developmental processes (gonad, mammary gland, hepatocyte differentiation) and hormone biosynthesis, stress response, xenobiotic metabolism, plus plant-specific pathways (ent-kaurene oxidation, brassinosteroid homeostasis), yielding no clear, single functional theme for the cluster. Therefore, Unknown with no confident association.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":1},{"id":"GO:0010241","count":1},{"id":"GO:0030879","count":1},{"id":"GO:0032259","count":1},{"id":"GO:0035902","count":1}]},{"hash":"408379069445660882","title":"Diverse Biosynthetic and Metabolic Processes","description":"The top GO terms point to a mix of biosynthetic and metabolic pathways across various compounds (phylloquinone, glucocorticoids, antibiotics, tropane alkaloids, retinal, melanin, androgens), with some catabolic processes and a few outliers. There is no single dominant pathway linking the proteins, and the lack of edges suggests a broad metabolism-related cluster rather than a specific function. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042376","count":2},{"id":"GO:0006704","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0045150","count":2}]},{"hash":"1404157024923862028","title":"RNA methylation and modification enzymes","description":"The top GO terms are dominated by RNA modification and methylation processes (rRNA methylation, guanine-N7 methylation, tRNA wobble uridine modification, N-terminal trimethylation), suggesting the proteins function predominantly as RNA/protein methyltransferases. A few terms (antibiotic biosynthesis, nodulation, cobalamin biosynthesis) are less connected to this theme, but do not override the main signal of methylation-associated activity.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0031167","count":1},{"id":"GO:0043985","count":1},{"id":"GO:0036265","count":1},{"id":"GO:0017000","count":1}]},{"hash":"646012711196415748","title":"Macrophage lipid metabolism and cholesterol efflux","description":"The top GO terms cluster around lipid handling in immune cells: positive regulation of fatty acid oxidation, positive regulation of cholesterol efflux, and negative regulation of macrophage-derived foam cell differentiation. This suggests a theme of macrophage lipid homeostasis and cholesterol processing, with some additional hints at heart development and innate signaling but the core signal is lipid metabolism in macrophages.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046321","count":3},{"id":"GO:0010745","count":3},{"id":"GO:0010875","count":3},{"id":"GO:0055010","count":2},{"id":"GO:0034162","count":2}]},{"hash":"1872213115036513972","title":"Chromatin remodeling and histone modification","description":"The top terms cluster around chromatin dynamics and epigenetic regulation\u2014chromatin remodeling, histone modifications (H3-K9 trimethylation, H4-K16 acetylation, H2A acetylation), and heterochromatin formation\u2014with related links to DNA repair and cell cycle control. This suggests proteins in the cluster share a core function in regulating chromatin state and genome accessibility, rather than a single metabolic or signaling pathway.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036124","count":2},{"id":"GO:0006338","count":1},{"id":"GO:0097368","count":1},{"id":"GO:0043984","count":1},{"id":"GO:0006302","count":1}]},{"hash":"1524552092937215350","title":"Unknown","description":"The top GO terms span immune signaling (B cell receptor signaling, germinal center formation, dendritic cell differentiation, mast cell regulation), ubiquitination and protein catabolic processes, developmental and morphogenesis terms, and even plant tropisms, with no cohesive functional theme tying the proteins together. The cluster has no edges, suggesting a non-specific or unrelated collection rather than a single module. Therefore no intuitive, specific label fits well.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":2},{"id":"GO:1990390","count":2},{"id":"GO:0009958","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0072156","count":2}]},{"hash":"1867420611389726866","title":"Developmental Morphogenesis and TNF Signaling","description":"The top GO terms point to developmental processes (embryonic skeletal system morphogenesis, camera-type eye morphogenesis) alongside immune-related signaling (tumor necrosis factor\u2013mediated signaling and its positive regulation), plus cell proliferation and protein turnover processes. This suggests a cluster centered on developmental regulation with concurrent involvement of TNF-family signaling and cell-cycle/maintenance activities, rather than a single narrowly defined function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048704","count":3},{"id":"GO:0033209","count":3},{"id":"GO:0048593","count":3},{"id":"GO:1903265","count":3},{"id":"GO:2000620","count":3}]},{"hash":"1764646785032553653","title":"Ig Diversification & Epigenetic Regulation","description":"The terms point to immunoglobulin gene diversification, including somatic hypermutation and isotype switching to IgA, together with epigenetic processes such as DNA methylation and histone methylation, suggesting a theme of epigenetic control in B cell antibody maturation. A few terms (e.g., DNA restriction-modification) appear as outliers, but the core signal centers on immunoglobulin diversification governed by epigenetic regulation.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043045","count":1},{"id":"GO:0016446","count":1},{"id":"GO:0009307","count":1},{"id":"GO:0010426","count":1},{"id":"GO:0051573","count":1}]},{"hash":"1022508333287576195","title":"Developmental transcription regulation","description":"These proteins are linked to RNA polymerase II\u2013mediated transcription and multiple developmental processes across craniofacial, spinal cord, hindbrain, and muscle development, suggesting a role in regulating gene expression during development across tissues.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0021920","count":1},{"id":"GO:0021516","count":1},{"id":"GO:0060527","count":1}]},{"hash":"1435472017841732142","title":"Integrin signaling and cell adhesion in development","description":"The top GO terms cluster around integrin pathways (positive regulation of integrin-mediated signaling; regulation of integrin activation) and cell\u2013cell adhesion (intermicrovillar adhesion), with several development- and polarity-related terms (endocardial cushion formation, nephron development, planar polarity, PSD-95 clustering, presynaptic active zone assembly). This points to a shared theme of adhesion-mediated signaling guiding development and organization of synaptic and polarity processes, even across different tissues. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":2},{"id":"GO:0003273","count":1},{"id":"GO:0070445","count":1},{"id":"GO:0090675","count":1},{"id":"GO:1904071","count":1}]},{"hash":"2056761488475588967","title":"Synaptic plasticity and dendrite development","description":"These proteins appear linked to neuronal signaling and synaptic remodeling: short-term potentiation, regulation of dendrite extension, and presynaptic signaling to the nucleus. Lipid signaling and membrane metabolism terms (phosphatidylinositol signaling, phosphatidylcholine metabolism, icosanoid biosynthesis) fit this neuronal context, while a few broader terms (salt-stress response, regulation of phagocytosis) may reflect stress-related or immune interactions in neural cells.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990926","count":1},{"id":"GO:1901002","count":1},{"id":"GO:0046456","count":1},{"id":"GO:0048015","count":1},{"id":"GO:0050764","count":1}]},{"hash":"2020460318308577703","title":"Mitochondria-ER contact and apoptosis regulation","description":"This cluster appears to be centered on mitochondria\u2013endoplasmic reticulum interactions, highlighted by terms such as mitochondrion-endoplasmic reticulum membrane tethering, mitochondrial outer membrane permeabilization, and regulation of mitochondrion organization/inheritance, which together point to membrane contact sites that coordinate mitochondrial function and intrinsic apoptotic signaling; a few other terms related to Golgi-ER transport or signaling pathways likely reflect broader membrane-associated processes, but the core theme is mitochondria-ER communication and apoptosis regulation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0097345","count":1},{"id":"GO:0051489","count":1},{"id":"GO:1902236","count":1},{"id":"GO:1902542","count":1}]},{"hash":"2145787692524705183","title":"Unknown","description":"The top GO terms span metabolics (urate, purine, allantoin, retinol), transport, extracellular matrix, RNA processing, immune/neutrophil activity, and neural regeneration, with no clear shared pathway or function among the three proteins. There are no interactions reported (Edges 0), so a cohesive, specific label isn\u2019t supported; thus Unknown best fits.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019628","count":1},{"id":"GO:0001560","count":1},{"id":"GO:0070327","count":1},{"id":"GO:0006144","count":1},{"id":"GO:0043312","count":1}]},{"hash":"1822916600591417199","title":"Neuronal migration and axon guidance","description":"The GO terms cluster around neuron migration, chemorepulsion, Roundabout (Robo) signaling, axon guidance, cell adhesion, and synapse assembly, all pointing to neural development and neuronal connectivity; a few outliers like ossification are minor noise.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021836","count":2},{"id":"GO:0060445","count":2},{"id":"GO:0035385","count":2},{"id":"GO:0030913","count":2},{"id":"GO:0032689","count":2}]},{"hash":"318384431681217189","title":"DNA Replication and Cell Cycle Regulation","description":"The top GO terms cluster around DNA replication and cell-cycle control (initiation and assembly of the pre-replicative complex, DNA replication, DNA replication initiation, G1/S transition), with links to DNA damage response during S-phase (break-induced replication, intra-S checkpoint). Together they indicate a core function in genome duplication and its regulation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":1},{"id":"GO:0000727","count":1},{"id":"GO:0006277","count":1},{"id":"GO:0072428","count":1},{"id":"GO:0032508","count":1}]},{"hash":"1630162128658426679","title":"T and B cell activation signaling","description":"This cluster is dominated by GO terms tied to adaptive immune cell activation and signaling, including positive regulation of T cell proliferation (alpha-beta), gamma-delta T cell differentiation, beta selection, and the B cell receptor signaling pathway, indicating shared roles in T and B cell activation processes.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046641","count":3},{"id":"GO:0010765","count":3},{"id":"GO:0010571","count":3},{"id":"GO:0010954","count":3},{"id":"GO:0045588","count":3}]},{"hash":"1393738205045793152","title":"Dopaminergic signaling and inflammatory responses","description":"Top GO terms center on dopaminergic receptor signaling and inflammatory cues, with neural phenomena such as prepulse inhibition and operant conditioning suggesting a neural signaling core. Although other terms touch on saliva secretion and smooth muscle, the strongest common thread appears to be dopamine-driven neural signaling modulated by inflammatory contexts. Therefore, this label captures the primary functional theme of the cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007191","count":3},{"id":"GO:0071380","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0002882","count":2},{"id":"GO:0035106","count":2}]},{"hash":"1296637433401735474","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000465","count":1},{"id":"GO:0035073","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0006412","count":1}]},{"hash":"866533660404185112","title":"Neural-immune regulation of airway physiology","description":"The terms cluster around neural functioning (regulation of membrane potential, prepulse inhibition, operant conditioning) and airway/vascular inflammatory and developmental processes (eosinophil chemotaxis, vasoconstriction, lung connective tissue development, saliva secretion). This suggests a theme where neural regulation intersects with inflammatory and tissue-level airway physiology, though some terms are only loosely related, resulting in moderate confidence.","confidence":"Low","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":3},{"id":"GO:0002882","count":2},{"id":"GO:0035106","count":2},{"id":"GO:0046541","count":2},{"id":"GO:0009253","count":2}]},{"hash":"412183879720543261","title":"Amino acid and NAD biosynthesis","description":"The top GO terms are dominated by biosynthetic processes for amino acids (threonine and homoserine, plus related pathways) and NAD/NADP biosynthesis, indicating the proteins cluster around fundamental metabolic biosynthesis roles. Some terms are obsolete or outliers (e.g., biofilm-related terms), likely annotation noise, but the core theme points to amino acid and cofactor biosynthesis. Confidence reflects this reasonable alignment but with minor noise.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0009088","count":2},{"id":"GO:0009435","count":2},{"id":"GO:0009086","count":2},{"id":"GO:0006742","count":2}]},{"hash":"1205140019160209827","title":"Neuronal cytoskeleton remodeling","description":"The top terms center on neuron development, axon injury response, and actin cytoskeleton regulation (negative regulation of actin filament binding and positive regulation of filopodium assembly), suggesting a core theme of neuronal cytoskeleton dynamics and neurite remodeling. The presence of several xenobiotic catabolic terms seems ancillary and does not override the neuron-cytoskeleton signal. Overall, the cluster likely reflects proteins involved in neuronal morphogenesis and actin-mediated remodeling.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019381","count":2},{"id":"GO:1904530","count":2},{"id":"GO:0048678","count":2},{"id":"GO:1900817","count":2},{"id":"GO:0051491","count":2}]},{"hash":"1580430391811631138","title":"Plant metabolism and nucleotide biosynthesis","description":"The GO terms point to biosynthetic and metabolic processes, including nucleotide (GTP, GMP, purine) and amino acid (glutamate) biosynthesis, along with fatty acid oxidation and plant-specific pathways like photorespiration and oxidative photosynthetic carbon metabolism. This suggests a cohesive theme of primary metabolism with emphasis on biosynthesis, possibly in a plant context. A noisy immune-related term (interleukin-4 response) likely reflects annotation noise rather than a shared function. Overall, the cluster aligns with a metabolic biosynthesis module.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0001561","count":2},{"id":"GO:0009854","count":2},{"id":"GO:0006183","count":2},{"id":"GO:0071353","count":2}]},{"hash":"2100472422763391803","title":"Hair Keratinization & Hair Cycle","description":"The cluster is dominated by GO terms specifically about keratinization and the hair cycle, pointing to proteins involved in hair shaft formation and turnover. With three proteins linked to these two hair-related processes, the label captures the central function represented by the cluster, despite the small size.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031424","count":3},{"id":"GO:0042633","count":3}]},{"hash":"543317380592371614","title":"Drosophila Developmental Signaling and Polarity","description":"This set mixes developmental processes (wing disc morphogenesis, retina development) with signaling pathways (TOR signaling, regulation of signal transduction) and cellular localization/polarity (basolateral plasma membrane localization), plus transcriptional regulation. The proteins appear to be involved in broad developmental signaling and epithelial/polarity contexts rather than a single cohesive function, so the label reflects a general developmental signaling theme in Drosophila rather than a specific pathway. ","confidence":"Low","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007472","count":1},{"id":"GO:0031929","count":1},{"id":"GO:0045943","count":1},{"id":"GO:1903361","count":1},{"id":"GO:0035308","count":1}]},{"hash":"566104861900685192","title":"Developmental Processes","description":"Most of the GO terms describe development- or tissue-patterning-related processes (gastrulation, adaxial/abaxial patterning, retina development, epithelial cell differentiation). A few terms touch on general cellular activities (proteasomal protein catabolism, microtubule severing, peroxisomal targeting) that can accompany development. The common thread appears to be broad developmental biology across tissues, making Developmental Processes a concise, representative label for this small cluster despite some non-specific terms.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":1},{"id":"GO:0007369","count":1},{"id":"GO:2000011","count":1},{"id":"GO:0034349","count":1},{"id":"GO:0051013","count":1}]},{"hash":"721385108974448641","title":"Cartilage and Craniofacial Skeletal Development with Angiogenesis","description":"The GO terms emphasize collagen fibril organization, skeletal system development, and chondrocyte differentiation, plus craniofacial-related terms like roof of mouth development and somite development, all pointing to cartilage/bone formation in the craniofacial region with accompanying angiogenesis. Other terms (cytokine regulation, ubiquitination) appear incidental to the core skeletogenic theme. ","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":2},{"id":"GO:0002040","count":2},{"id":"GO:0001501","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0010886","count":1}]}]