[{"hash":"947794285923788469","title":"Vertebrate organogenesis and patterning","description":"The GO terms point to development and morphogenesis across multiple organs (cochlea, heart, liver, retina) and to pattern specification, with related signaling (Wnt) and transcriptional regulation. This suggests a cohesive theme of vertebrate organ development and tissue patterning rather than a single-tissue function. ","confidence":"High","size":29,"edges":7,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090103","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0000122","count":7},{"id":"GO:2000288","count":6},{"id":"GO:0009952","count":6}]},{"hash":"1179399467550374171","title":"Vision-Related GPCR Signaling","description":"The terms cluster around G protein-coupled receptor signaling and vision-related processes, including opsin signaling and insect visual development, indicating a vision-focused GPCR module. Some items relate to other developmental or glycosylation processes, but the strongest theme is light-sensing GPCR signaling.","confidence":"Medium","size":29,"edges":7,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071880","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0016056","count":2},{"id":"GO:0001973","count":2},{"id":"GO:0075015","count":2}]},{"hash":"306424457145092716","title":"Neural signaling and behavior modulation","description":"The top GO terms center on neuronal communication and excitability (EPSP, ion transmembrane transport, membrane depolarization, calcium import) alongside neural signaling pathways (GABA) and behavioral/circadian processes (conditioned taste aversion, locomotion, startle, sleep/wake regulation). This pattern indicates proteins involved in neural signaling that influence behavior and circadian rhythms.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":16},{"id":"GO:0035725","count":14},{"id":"GO:0071805","count":13},{"id":"GO:0001661","count":13},{"id":"GO:0007214","count":13}]},{"hash":"2038284330889217944","title":"Diverse Transmembrane Sugar and Ion Transporters","description":"GO terms indicate multiple transmembrane transport activities for a range of substrates (sugars like xylose and trehalose, dehydroascorbic acid, nitrate, potassium, sialic acid, and organic anions), suggesting a cluster of membrane transporter proteins with broad substrate specificity rather than a single pathway. This reflects a transporter-focused group handling diverse nutrient and ion transport across membranes.","confidence":"High","size":29,"edges":23,"triangles":21,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0015753","count":7},{"id":"GO:0070837","count":7},{"id":"GO:0071805","count":7},{"id":"GO:0071332","count":7},{"id":"GO:0015706","count":7}]},{"hash":"1240168983945544391","title":"Ribosome biogenesis and cytoplasmic translation","description":"The cluster is dominated by GO terms for ribosome production and use\u2014ribosome biogenesis, export of the large ribosomal subunit from the nucleus, cytoplasmic translation, and tRNA modification\u2014alongside related cell-cycle/division terms, indicating a cohesive group of proteins involved in ribosome assembly and protein synthesis during cell growth.","confidence":"High","size":29,"edges":29,"triangles":13,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051301","count":15},{"id":"GO:0000055","count":12},{"id":"GO:0007049","count":11},{"id":"GO:0090529","count":10},{"id":"GO:0042254","count":10}]},{"hash":"2083638284428338206","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":16},{"id":"GO:0001731","count":16},{"id":"GO:0000398","count":12},{"id":"GO:0045292","count":11},{"id":"GO:0070306","count":10}]},{"hash":"1137695169944822286","title":"Unknown","description":"The top GO terms span epithelial ion transport, nervous system signaling, vascular/immune processes, and even plant development, with little coherence to a single function or organism; zero edges further suggests unrelated proteins, so there is no clear shared theme to name a meaningful cluster.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030321","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0045907","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0001975","count":3}]},{"hash":"113217091925258141","title":"Photoreceptor development and transcriptional regulation","description":"Most of the top GO terms point to transcription and RNA processing (mRNA splicing, polyadenylation, transcription initiation/elongation by RNA Pol II), while retina- and photoreceptor-specific terms (photoreceptor maintenance, retina development, localization to photoreceptor outer segment) suggest these proteins function in photoreceptor cell development and maintenance. Together, they indicate a cluster of factors coordinating gene expression in photoreceptor cells, rather than a single isolated process; a few non-retina terms appear but are less representative. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0045899","count":2},{"id":"GO:0006368","count":2},{"id":"GO:0045494","count":1}]},{"hash":"2295982416874686989","title":"Neuronal GPCR-cAMP-Ca2+ signaling","description":"The terms are dominated by neural signaling themes: amphetamine response, long-term memory, visual perception and opsin signaling, GPCR pathways, adenylate cyclase activation (cAMP), and calcium release. Although a heart development term appears, the core pattern is neuronal signal transduction via GPCRs with cAMP and calcium dynamics, including retina/vision-related processes.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":5},{"id":"GO:0022400","count":4},{"id":"GO:0007616","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0043950","count":4}]},{"hash":"2205813512049386922","title":"Immune system development and signaling","description":"The top GO terms are dominated by immune-related processes (thymus development, B cell proliferation, innate immune response) with supporting signals for cell migration and signaling (Rho signaling, phosphorylation). A few terms touch cardiovascular development and metabolism, but the cluster appears best characterized by immune system development and related signaling pathways.","confidence":"Medium","size":29,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":5},{"id":"GO:0030890","count":4},{"id":"GO:0015937","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0014911","count":3}]},{"hash":"513241466300846148","title":"Ribosome Biogenesis and Cell Cycle","description":"This cluster is dominated by GO terms for ribosome biogenesis and ribosomal subunit assembly (GO:0042254, GO:0042274) and tRNA transcription by RNA polymerase III, along with several cell-cycle and cell-division terms (GO:0007049, GO:0051301, GO:0007064). The strongest signal is ribosome biogenesis, with accompanying growth-related and division-related processes, suggesting proteins involved in assembling ribosomes and coordinating growth with division.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0042797","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000747","count":3}]},{"hash":"2028643487003636027","title":"Neural development and synaptic adhesion","description":"This cluster is dominated by GO terms related to nervous system development, synapse assembly, and synaptic transmission, alongside both heterophilic and homophilic cell\u2013cell adhesion. The presence of terms like inner ear development and planar hair orientation suggests broader developmental roles, but the strongest signal is neural differentiation and synaptic connectivity guided by cell adhesion. Therefore, a concise label focusing on neural development and synaptic adhesion best represents the cluster.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007157","count":8},{"id":"GO:0051965","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0072006","count":6},{"id":"GO:0043931","count":6}]},{"hash":"1489036591667603706","title":"Neuronal axon guidance and synapse assembly","description":"The terms point to nervous system development and precise axon pathfinding\u2014axon extension, fasciculation and anterior/posterior guidance\u2014along with cell adhesion and semaphorin-plexin signaling that regulate synapse assembly, indicating a cohesive role in guiding axons and establishing neural connections.","confidence":"High","size":29,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":3},{"id":"GO:0048846","count":3},{"id":"GO:0007157","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0007156","count":2}]},{"hash":"895314097739118652","title":"Viral integration and proviral latency","description":"The cluster centers on RNA-templated DNA biosynthesis, DNA recombination, DNA integration, and viral entry/latency terms (e.g., establishment of integrated proviral latency, viral penetration into host nucleus). Together these GO terms point to retroviral-like genome integration and maintenance of a latent state, with some related host-symbiont interaction signals. This suggests a cohesive theme of viral genome integration and latency rather than unrelated cellular processes.","confidence":"High","size":29,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006278","count":4},{"id":"GO:0006310","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0015074","count":3}]},{"hash":"2085558316013071625","title":"Cholinergic GPCR Signaling in Heart and Lung","description":"This cluster is driven by GO terms for G protein-coupled acetylcholine receptor signaling, GPCR internalization, and PLC-related pathways, with links to lung development and regulation of heart contraction, indicating a cohesive role for cholinergic GPCR signaling in cardiac and pulmonary contexts.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007213","count":3},{"id":"GO:0030324","count":3},{"id":"GO:0014065","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0010920","count":2}]},{"hash":"1498897181876898289","title":"Neural development and synaptic assembly","description":"The cluster centers on neural development and synaptic maturation: axonal fasciculation, corpus callosum development, positive regulation of synapse assembly, and AMPA receptor activity, with supporting signals like Rac pathway regulation. While there are a few unrelated terms (bone/notochord development and innate immune/apoptotic processes), the dominant theme ties to neural differentiation and synaptic communication.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0022038","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0048681","count":3}]},{"hash":"2124842108905365053","title":"Calcium-regulated cardiac contraction and heart morphogenesis","description":"The dominant GO terms point to calcium-dependent regulation of cardiac muscle contraction, heart tissue development (including left ventricle and outflow tract morphogenesis), and calcium sensing, with some drug-responsive terms reflecting modulation of cardiac function; a skeletal muscle term and other outliers are present but the core theme is excitation-contraction coupling in cardiac muscle and heart development.","confidence":"High","size":29,"edges":6,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010881","count":5},{"id":"GO:0048741","count":5},{"id":"GO:0007613","count":5},{"id":"GO:0098735","count":5},{"id":"GO:0005513","count":5}]},{"hash":"1325216503898109670","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010976","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0033629","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0048169","count":2}]},{"hash":"1352793410425806856","title":"Neural development and synaptic signaling","description":"This cluster's GO terms largely reference neural processes: brain development, adult locomotory behavior, sensory perception of sound, and synaptic vesicle priming, plus regulation of signaling pathways (Rho/Ras) that influence neuronal signaling. Some terms touch vasculature or epithelial polarity, but the strongest signal is neural development and synaptic function, supporting this label.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060313","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0008344","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0045199","count":2}]},{"hash":"74177546486587235","title":"Developmental Morphogenesis Across Tissues","description":"The cluster centers on developmental processes across diverse tissues and organisms. Notch signaling regulation appears prominently, along with tissue-specific morphogenesis terms such as ovarian follicle development, egg chamber adhesion, imaginal disc leg segmentation, and root hair development. While a few terms are less obviously connected (e.g., infection structure formation), the dominant theme is developmental patterning and organogenesis, suggesting a common function in growth and tissue patterning.","confidence":"Medium","size":29,"edges":41,"triangles":10,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045747","count":4},{"id":"GO:0075015","count":4},{"id":"GO:0001541","count":3},{"id":"GO:0032092","count":3},{"id":"GO:0055016","count":3}]},{"hash":"1317254359967292487","title":"Unknown","description":"The top GO terms are a patchwork of diverse processes (ECM constituent secretion, DNA repair, nucleoside transport, phosphorylation, antibiotic response, methionine salvage, threonine biosynthesis, and proteolysis) with no clear unifying function. The lack of network structure (edges/triangles = 0, max degree = 0) further suggests there isn\u2019t a cohesive biological module to name beyond Unknown.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003331","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0015861","count":2},{"id":"GO:0015860","count":2},{"id":"GO:0016310","count":2}]},{"hash":"2213791554935880777","title":"MAPK-driven development and inflammatory response","description":"This cluster centers on MAPK/ERK signaling (positive regulation of ERK1/ERK2 cascade) and includes developmental processes across tissues (lung connective tissue development, nipple morphogenesis, metanephric glomerulus development) as well as inflammatory and immune responses (inflammatory response, defense against Gram-positive bacteria). Calcium signaling, translational regulation, and mechanotransduction (cellular response to mechanical stimulus) further link signaling to proliferation, supporting a cohesive role in MAPK-mediated development and immune/regenerative responses.","confidence":"High","size":28,"edges":8,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0060427","count":5},{"id":"GO:0060658","count":5},{"id":"GO:0072224","count":5},{"id":"GO:0006954","count":5}]},{"hash":"173374983073898736","title":"Rho GTPase\u2013driven neuronal morphogenesis and filopodium dynamics","description":"The cluster prominently features GO terms for Rho/small GTPase signaling, regulation of filopodium assembly, and synaptic transmission in a neuronal/midbrain context, along with cell spreading. This points to coordinated cytoskeletal remodeling and neurite outgrowth in neurons, with filopodia dynamics and morphogenesis. Mitochondrial fission may reflect energy and organelle remodeling during neurite development. Overall, a neuronal morphogenesis module regulated by Rho GTPases.","confidence":"High","size":28,"edges":42,"triangles":0,"max_degree":11,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":14},{"id":"GO:1904693","count":13},{"id":"GO:1900026","count":13},{"id":"GO:0051932","count":13},{"id":"GO:0046847","count":13}]},{"hash":"1634297386377591638","title":"Antibiotic response and beta-lactam metabolism","description":"Top GO terms show strong enrichment for antibiotic-related processes, especially response to antibiotic, beta-lactam antibiotic catabolic process, and regulation of beta-lactamase activity, suggesting the cluster centers on microbial mechanisms for antibiotic degradation and resistance. The presence of nylon catabolic process also aligns with broader catabolic/enzymatic activities that can encompass antibiotic metabolism. A few other terms (synaptic signaling, T cell receptor signaling, Wnt signaling, mitotic cell cycle) appear ancillary or cross-annotational and do not define the core function, but do not override the primary antibiotic-centric theme.","confidence":"High","size":28,"edges":49,"triangles":31,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046677","count":13},{"id":"GO:0019876","count":12},{"id":"GO:0030655","count":12},{"id":"GO:0033252","count":12},{"id":"GO:0060079","count":4}]},{"hash":"257609801284019218","title":"Neuroimmune signaling","description":"The cluster shows strong representation of innate immune and antiviral defense terms (innate immune response, defense response to virus) alongside neural-related terms (excitatory postsynaptic potential, optic nerve morphogenesis, neuronal death, responses to cocaine and ethanol, microtubule localization). This pattern suggests proteins involved in immune signaling that also participate in neural processes or neuroinflammation, with proteostasis components (ubiquitin-dependent protein catabolic process) tying in. Given the mixed but thematically linked signals and limited connectivity, the label is a best-fit umbrella for neuroimmune/synaptic interaction functions.","confidence":"Medium","size":28,"edges":3,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0060079","count":7},{"id":"GO:0051092","count":6},{"id":"GO:0051607","count":6},{"id":"GO:0035372","count":6}]},{"hash":"63607038016755642","title":"Unknown","description":"The proteins have a mix of GO terms spanning DNA replication, repair, recombination, tRNA processing, and transcriptional regulation, along with development- or tissue-specific terms (insect visual primordium formation and follicle epithelium polarity/adhesion) and glycosylation. This broad, heterogeneous set lacks a single cohesive function or pathway, suggesting no clear shared theme for a meaningful cluster name. Therefore, Unknown with None is most appropriate.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0008033","count":3},{"id":"GO:0075015","count":3},{"id":"GO:0006284","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0006310","count":3}]},{"hash":"558394943443451562","title":"DNA replication and repair cluster","description":"Top GO terms cluster around DNA replication, replication-associated processes, and DNA repair (including SOS response), indicating a genome maintenance function. Some RNA-processing terms appear but do not override the main theme of replication/repair and genome integrity. ","confidence":"Medium","size":28,"edges":20,"triangles":4,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006268","count":13},{"id":"GO:0009432","count":12},{"id":"GO:0000184","count":12},{"id":"GO:0006306","count":11},{"id":"GO:0006265","count":11}]},{"hash":"1325816304831792669","title":"Potassium Transport and Membrane Potential Regulation","description":"The top GO terms highlight potassium ion transmembrane transport together with regulation, hyperpolarization, stabilization, and repolarization of membrane potential, pointing to a core function in cellular excitability and ionic homeostasis. Additional terms for sensory perception of pain and skin development may reflect tissue-specific contexts or pleiotropy but do not outweigh the central membrane potential\u2013ion transport signal.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0060081","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0007275","count":6}]},{"hash":"325736982775849461","title":"Transmembrane Ion and Xenobiotic Transport","description":"The cluster is dominated by transmembrane transport GO terms, especially potassium and sodium ion transport, along with nitrite and xenobiotic transport, and a few additional small-molecule transport terms (e.g., 4-hydroxyphenylacetate transport). There is one item related to chloroplast protein targeting, which aligns with localization rather than transport, and a couple of regulatory terms that are less cohesive with the main theme. Overall, the common theme ties to membrane transport functions rather than a single pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0031047","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0045036","count":1}]},{"hash":"285934095026784148","title":"Arabinogalactan protein glycosylation and plant development","description":"The top GO terms cluster around arabinogalactan proteins (AGPs), their O-linked glycosylation, and related polysaccharide biosynthesis (mucilage in seed coats, root hair development, poly-N-acetyllactosamine), suggesting a cohesive theme of glycoprotein-based cell surface components influencing plant development and cell-wall-associated processes; a few terms from other organisms may reflect broader glycan-mediated adhesion contexts.","confidence":"High","size":28,"edges":6,"triangles":0,"max_degree":3,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0075015","count":11},{"id":"GO:0010493","count":8},{"id":"GO:0048354","count":8},{"id":"GO:0001744","count":8},{"id":"GO:0042248","count":8}]},{"hash":"2244296139139156323","title":"Unknown","description":"The terms span immune signaling, xenobiotic response, metabolism, sensory perception, and developmental processes (heart and vision), with no clear single theme or enriched pathway connecting them, and no edges to suggest a cohesive module. Therefore a unified, meaningful label cannot be assigned.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071347","count":2},{"id":"GO:0006032","count":2},{"id":"GO:0060316","count":2},{"id":"GO:0022900","count":2},{"id":"GO:0042493","count":2}]},{"hash":"1275954313972151181","title":"Developmental signaling with innate immune sensing","description":"These proteins appear enriched for signaling pathways governing development and tissue morphogenesis (e.g., canonical Wnt signaling, Rho signaling, hair follicle maturation, metanephros development, connective tissue) and also for innate immune sensing (TLR3 signaling and response to exogenous dsRNA). The combination suggests a role in coordinating developmental processes with immune readiness. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060427","count":2},{"id":"GO:0060658","count":2},{"id":"GO:0043330","count":2},{"id":"GO:0034138","count":2},{"id":"GO:0008285","count":2}]},{"hash":"1412928752011470525","title":"ECM remodeling and anti-angiogenesis","description":"The top GO terms cluster around collagen fibril organization and negative regulation of angiogenesis/endothelial migration, with supporting links to mechanical stimulus response. This suggests ECM remodeling that suppresses blood vessel growth as the dominant theme, with secondary stress-related signals.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030199","count":5},{"id":"GO:0034198","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0016525","count":4},{"id":"GO:0010596","count":4}]},{"hash":"561546586801157535","title":"Developmental Regulation and Epigenetic Control","description":"The proteins appear tied to developmental differentiation across multiple tissues (muscle, ovarian, brain, reproductive traits) and to transcriptional/epigenetic regulation (DNA methylation, histone modification, transcription regulation), with involvement also suggested for TGF-beta signaling. The collection points to a broad theme of developmental regulation coupled with epigenetic control rather than a single signaling pathway, even though edges are not present to imply direct interactions.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":2},{"id":"GO:0071560","count":2},{"id":"GO:0035914","count":1},{"id":"GO:0001541","count":1},{"id":"GO:1900111","count":1}]},{"hash":"2156662752152822166","title":"Unknown","description":"The GO terms are very diverse (retina development, cell proliferation, GTPase regulation, mucus secretion, serotonin signaling, mitotic spindle assembly, ubiquitination, PAR-based energy) with no obvious common function. Because there is no consistent biological theme and the connectivity is zero (Edges 0, Triangles 0, Max Degree 0), a specific, representative label cannot be confidently assigned.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0008284","count":3},{"id":"GO:1904659","count":2}]},{"hash":"2188810778401761595","title":"Metabolic Biosynthesis and Xenobiotic/Neural Signaling","description":"The cluster mixes metabolic biosynthesis processes (triglyceride catabolic process, biotin, menaquinone, and antibiotic biosynthesis) with xenobiotic and neural signaling terms (cellular response to xenobiotic stimulus, response to morphine, endocannabinoid signaling regulation, and excitatory postsynaptic potential). This points to a broad theme of metabolism intertwined with chemical signaling and drug/ xenobiotic response, rather than a single cohesive function.","confidence":"Low","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0019433","count":7},{"id":"GO:0009102","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0009234","count":5},{"id":"GO:0035690","count":4}]},{"hash":"1520007447469512417","title":"Transmembrane transporters (ions and metabolites)","description":"The top GO terms all point to transport across membranes for a wide range of substrates\u2014nitrite, nitrate, galactose, phosphate, vitamins, sialic acid, xenobiotics, and ions like potassium. This pattern suggests a cluster of membrane transporter proteins handling diverse substrates, rather than enzymes or signaling proteins.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0071805","count":4}]},{"hash":"307309281590080403","title":"ECM remodeling and cell adhesion during development","description":"This cluster centers on extracellular matrix remodeling and cell-ECM interactions: metallopeptidase activity regulation, integrin signaling, hyaluronan metabolism, and matrix adhesion and migration, all of which are key drivers of morphogenesis. The accompanying development terms (endodermal differentiation, cartilage condensation, stamen formation) support a theme of ECM-guided tissue formation across contexts, while ubiquitin-dependent catabolism suggests general protein turnover in these processes.","confidence":"Medium","size":28,"edges":31,"triangles":34,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1905050","count":11},{"id":"GO:0007229","count":11},{"id":"GO:0030212","count":11},{"id":"GO:0071226","count":11},{"id":"GO:0001502","count":11}]},{"hash":"1753076416984695051","title":"Mitochondrial Translation and Oxidative Phosphorylation","description":"The cluster shows strong enrichment for translation-related GO terms, including multiple aminoacyl-tRNA synthetases (methionyl-, valyl-, leucyl-, isoleucyl-) and translation fidelity regulation, pointing to protein synthesis. Coupled with terms for mitochondrial electron transport and ATP synthesis, this suggests a coherent theme of mitochondrial protein synthesis linked to energy production, potentially reflecting coordination between translation machinery and respiration within mitochondria. Some other terms (e.g., fatty acid beta-oxidation, antibiotic biosynthetic process) appear incidental rather than central. ","confidence":"Medium","size":28,"edges":351,"triangles":2855,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006635","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0006431","count":2},{"id":"GO:0006438","count":2}]},{"hash":"2121671755439090892","title":"Neural development and transcriptional regulation","description":"This cluster is dominated by terms for neuron and corpus callosum development and DNA-templated transcription, indicating a neural developmental program governed by transcriptional control. Additional terms for mitotic cell cycle, apoptosis, proteasomal regulation, and stress response to cadmium suggest coordinated housekeeping and stress-responsive regulation in neural contexts.","confidence":"High","size":28,"edges":20,"triangles":1,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":17},{"id":"GO:0071276","count":15},{"id":"GO:0046826","count":15},{"id":"GO:0022038","count":14},{"id":"GO:0000278","count":14}]},{"hash":"1516190001771270021","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"The cluster is enriched for ubiquitin-dependent protein catabolic processes, protein polyubiquitination, and SCF-dependent proteasomal ubiquitin-dependent protein catabolic processes, indicating a primary role in the ubiquitin-proteasome system for regulated protein turnover. Additional terms such as third ventricle development and circadian rhythm regulation appear less central but suggest broader cellular contexts; overall, the dominant theme is ubiquitin-mediated proteolysis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0000209","count":9},{"id":"GO:0031146","count":8},{"id":"GO:0021678","count":8},{"id":"GO:1903378","count":7}]},{"hash":"32713723225735771","title":"Calcium-Mediated Mechanosensory Signaling","description":"The top GO terms emphasize release of sequestered calcium into the cytosol and detection of mechanical and chemical stimuli related to pain, plus cellular responses to mechanical stimulus, pointing to calcium-dependent signaling underlying mechanosensory/pain pathways. Other terms like mRNA processing and fat cell differentiation appear less central to this core theme, suggesting a mix of housekeeping functions alongside the main signaling cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":4},{"id":"GO:0050966","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0050968","count":4},{"id":"GO:0072660","count":3}]},{"hash":"785763409925935993","title":"Neuroimmune signaling and vascular regulation","description":"This cluster shows a convergence of neural signaling (sensory pain, neuropeptide signaling, GPCR signaling), immune/inflammatory responses (response to LPS, inflammatory response), and vascular control (vasoconstriction, regulation of smooth muscle contraction), suggesting a theme of coordinated neuroimmune-vascular signaling. Energy metabolism and cell wall catabolism appear as ancillary terms but do not define the central theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0022900","count":5},{"id":"GO:0045907","count":5},{"id":"GO:0010579","count":5},{"id":"GO:0032496","count":5}]},{"hash":"780087767476127787","title":"Developmental and Immune Signaling (ERK)","description":"These proteins appear linked to tissue development (heart, lung, angiogenesis) and immune responses (defense against bacteria, adaptive immunity), with regulation of the ERK1/ERK2 cascade as a central signaling mechanism. The cluster likely represents a module coordinating developmental processes and immune signaling through ERK pathway activity.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0070374","count":3},{"id":"GO:0042742","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0002250","count":3}]},{"hash":"2258852051583096517","title":"TLR4-NF-\u03baB Innate Immune Signaling","description":"The cluster is dominated by GO terms related to innate immunity and inflammatory signaling, notably positive regulation of TLR4 signaling, NF-\u03baB activation, innate immune response, and neutrophil extravasation, suggesting a cohesive function in coordinating innate immune responses. Some development terms appear among the top terms but likely reflect broader gene roles rather than a primary function of this cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034145","count":3},{"id":"GO:0090073","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0043123","count":3}]},{"hash":"2260672002437554413","title":"Embryonic Development and Morphogenesis","description":"This cluster centers on developmental differentiation across tissues\u2014placental/trophoblast, heart cushion formation, left-right patterning, cartilage morphogenesis, and endocrine system development\u2014pointing to a shared theme of embryogenesis and tissue morphogenesis rather than a single motor or signaling pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060707","count":3}]},{"hash":"1128264759225098803","title":"Adipocyte differentiation and signaling regulation","description":"This cluster features fat cell differentiation (GO:0045444), cellular response to mechanical stimulus (GO:0071260), and maintenance of protein location in the plasma membrane (GO:0072660), suggesting adipocyte-related differentiation and membrane-associated signaling. Additional terms on mRNA processing/stability and kinase activity regulation point to broader post-transcriptional control and signaling modulation, reinforcing a theme around adipocyte biology and membrane signaling. However several terms are obsolete or broad, so the connection is moderate rather than tight.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0072660","count":5},{"id":"GO:0043488","count":5}]},{"hash":"2063639231557503338","title":"Glutamatergic synapse assembly and signaling","description":"The ensemble of top GO terms centers on excitatory neuronal synapses: assembly, presynaptic vesicle clustering, terminal button organization, and AMPA receptor activity, together with enhanced synaptic transmission and learning. While a few terms touch on broader neural development, the dominant theme is glutamatergic synapse formation and function in information transfer and plasticity.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002076","count":17},{"id":"GO:0002087","count":17},{"id":"GO:0060041","count":17},{"id":"GO:1904861","count":15},{"id":"GO:0051968","count":15}]},{"hash":"1077497837492982851","title":"Developmental transcription regulators","description":"The cluster is dominated by GO terms for transcriptional regulation of RNA polymerase II and DNA-templated transcription, indicating a group of proteins that regulate gene expression. The accompanying developmental terms (pancreas morphogenesis, midbrain and eye development, multicellular growth, myoblast proliferation) point to roles in embryonic organogenesis and tissue development. Taken together, these proteins appear to be transcription regulators involved in developmental processes.","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:0006351","count":6},{"id":"GO:0061113","count":5},{"id":"GO:0035264","count":5},{"id":"GO:0030901","count":5}]},{"hash":"970335670678944098","title":"Vertebrate organogenesis and neural development","description":"This cluster centers on developmental processes across multiple organs (heart, liver, forebrain, retina, cerebellum) and neural/sensory system development (visual perception, pattern specification, neuron survival). The common thread is vertebrate embryonic organ formation and nervous system development, with emphasis on sensory structures and neural regulation of survival. ","confidence":"High","size":27,"edges":45,"triangles":7,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":12},{"id":"GO:0007601","count":11},{"id":"GO:0009952","count":10},{"id":"GO:0030900","count":10},{"id":"GO:0001759","count":10}]},{"hash":"654199014319633750","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms for ribosome assembly and protein synthesis\u2014ribosome biogenesis, cytoplasmic translation, translation, and tRNA processing\u2014indicating a core role in protein production. Additional terms point to related protein processing/trafficking (Golgi retention) and regulatory or stress-related processes (negative regulation of viral replication, regulation of cell proliferation), suggesting a broader coordination around ribosome-related function and protein handling.","confidence":"High","size":27,"edges":93,"triangles":196,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0008033","count":4},{"id":"GO:0002181","count":4},{"id":"GO:0006412","count":4}]},{"hash":"1777830862763232965","title":"Protein quality control and ER stress response","description":"This cluster is dominated by GO terms related to managing misfolded proteins and ER-associated degradation, such as unfolded protein response, ubiquitin-dependent ERAD, heat response, and chaperone/cofactor\u2013dependent refolding. These together point to a cohesive theme of protein quality control under stress, despite a few peripheral terms (e.g., DNA replication, mesoderm formation) that may reflect multifunctional proteins. Confidence: High","confidence":"","size":27,"edges":109,"triangles":249,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0030433","count":8},{"id":"GO:0001707","count":8},{"id":"GO:0006469","count":8},{"id":"GO:0006986","count":7}]},{"hash":"298429701129885675","title":"Steroid hormone biosynthesis and gonad development","description":"The top GO terms are dominated by reproductive hormone-related processes: androgen metabolic process, testosterone biosynthetic process, and female gonad development, pointing to a central theme of steroid hormone production and gonadal development. Although there are additional terms related to translation and xenobiotic metabolism, the strongest and most consistently represented functions relate to sex hormone biosynthesis and gonadal development, supporting this label as representative of the cluster.","confidence":"High","size":27,"edges":33,"triangles":17,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":5},{"id":"GO:0061370","count":5},{"id":"GO:0008585","count":5},{"id":"GO:0033076","count":5},{"id":"GO:0006412","count":4}]},{"hash":"831113840878074358","title":"Neural development and synaptic signaling","description":"The terms cluster around nervous system development and function, with several terms pointing to brain/neuronal development (thalamus development, adenohypophysis development, heart-related development appearing as broader developmental cues) and synaptic activity (glycinergic transmission, serotonin uptake). Overall, the dominant theme is neural development and neurotransmission, with a few outliers reflecting broader developmental processes. ","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0060012","count":4},{"id":"GO:0001525","count":3},{"id":"GO:0021794","count":3},{"id":"GO:1903346","count":3}]},{"hash":"803607853242814944","title":"Golgi-Directed Vesicle Trafficking","description":"This cluster is dominated by GO terms for Golgi organization and Golgi-to-ER and Golgi-to-plasma membrane transport, plus protein localization to endosomes and related vesicle trafficking steps, indicating a common role in Golgi-mediated vesicular trafficking within the endomembrane system.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006890","count":6},{"id":"GO:0007030","count":5},{"id":"GO:0010628","count":5},{"id":"GO:0055091","count":5},{"id":"GO:0090324","count":4}]},{"hash":"2280268989224437887","title":"Neuronal signaling and photoreception","description":"The top GO terms cluster around neuronal communication and sensory signaling: ionotropic glutamate receptor signaling, GPCR-PLC signaling, and general intracellular signal transduction, together with regulation of long-term synaptic plasticity. The presence of a light-detection term suggests photoreceptive signaling as well. Some terms touch on neural development (neural tube closure), which can accompany signaling during CNS formation. Overall, the set points to a neural signaling/photoreception theme rather than a single metabolic process.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050908","count":3},{"id":"GO:0048169","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0035235","count":3},{"id":"GO:0060770","count":3}]},{"hash":"757534615153727541","title":"Cardiovascular development and signaling","description":"This cluster shows strong enrichment for heart development, blood pressure regulation, and blood coagulation, along with GPCR-mediated and cAMP signaling, pointing to a cardiovascular development and signaling theme. The presence of electron transport chain terms may reflect energy metabolism supporting cardiac function, while a few terms are less central to this core theme.","confidence":"Medium","size":27,"edges":27,"triangles":3,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043950","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0008284","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0010579","count":4}]},{"hash":"1433534671174977388","title":"Embryonic development and morphogenesis","description":"The dominant GO terms cluster around embryogenesis and tissue morphogenesis\u2014placental and heart-related differentiation (including EMT in endocardial cushions), left-right patterning, trophoblast and cartilage formation, and broader endocrine system development\u2014suggesting a coherent developmental/organogenesis program. A couple of low-count terms pertain to ribosome export and transcription regulation, likely background noise.","confidence":"High","size":27,"edges":14,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0060972","count":5},{"id":"GO:0060707","count":5}]},{"hash":"2077137256236348080","title":"Cell Signaling and Cytoskeleton Regulation","description":"The top GO terms cluster around receptor- and kinase-driven signaling pathways (integrin, Wnt, T cell receptor, ephrin, ERK cascade, GH receptor) and cytoskeletal dynamics (actin cytoskeleton reorganization, PI3K regulation). This points to a group of proteins involved in broad signal transduction and subsequent cytoskeletal remodeling, rather than a single pathway, justifying a label focused on signaling networks and cytoskeleton regulation.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007229","count":20},{"id":"GO:0090263","count":19},{"id":"GO:0050852","count":19},{"id":"GO:0043366","count":19},{"id":"GO:0048013","count":19}]},{"hash":"1043942146607033676","title":"Dopaminergic Neuron Development and Signaling","description":"This cluster is dominated by GO terms related to substantia nigra development, dopamine uptake in synaptic transmission, neuronal synaptic plasticity, and signaling pathways (GPCR signaling and ERK cascade), indicating a cohesive theme around dopaminergic neuron development and dopamine-mediated signaling and plasticity.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":2},{"id":"GO:0061028","count":2},{"id":"GO:0048169","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0051586","count":2}]},{"hash":"1581039191000821162","title":"Unknown","description":"Top terms point to diverse processes across ubiquitin-mediated proteolysis, tissue-specific development (muscle, nervous system, kidney), plant development, and even a tRNA modification pathway, indicating no single functional theme tying the cluster together. With no interaction evidence (Edges: 0, Triangles: 0), there is no coherent label to assign beyond Unknown.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0035914","count":9},{"id":"GO:0050853","count":9},{"id":"GO:2000312","count":9},{"id":"GO:0007399","count":9}]},{"hash":"1904717859039756178","title":"Hypoxia-responsive kinase signaling","description":"This cluster centers on proteins with GO terms related to cellular response to hypoxia and broad kinase-regulated signaling (autophosphorylation, GTPase activity, serine/threonine kinase activity) as well as regulation of apoptosis and cell cycle. While it also includes terms like memory and visual perception, the dominant theme is hypoxia-driven signaling and kinase-mediated regulation of cell fate, making a concise label focused on hypoxia-responsive kinase signaling appropriate.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":6},{"id":"GO:0007596","count":6},{"id":"GO:0031954","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0071902","count":5}]},{"hash":"1893800929681216379","title":"Fungal filamentous growth under nutrient stress","description":"Top GO terms indicate filamentous/invasive growth in response to glucose limitation, i.e., morphological adaptation in fungi under nutrient stress; the other terms suggest supporting roles in signaling and RNA/protein regulation, but the dominant theme is growth form change in nutrient-limited conditions.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0035544","count":3},{"id":"GO:0009408","count":3},{"id":"GO:0035556","count":3}]},{"hash":"233676049325883103","title":"Cell Cycle Control and Neural Development","description":"The terms cluster around mitotic checkpoints, meiosis, kinetochore localization, telomere maintenance, and proliferation control, plus neural development processes like cortical layer formation and axon guidance, indicating proteins coordinating cell division with neurodevelopment.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016477","count":24},{"id":"GO:0007095","count":23},{"id":"GO:0051321","count":23},{"id":"GO:0034501","count":23},{"id":"GO:0030517","count":23}]},{"hash":"718568165527775064","title":"Cardiac and Kidney Developmental Regulation","description":"GO-term profile centers on organ development, especially heart and kidney morphogenesis (regulation of heart rate by cardiac conduction; regulation of ventricular cardiac muscle cell action potential; metanephric morphogenesis; kidney development) plus broader multicellular development. Additional signals of regulatory signaling (negative regulation of protein kinase activity; regulation of cell cycle) support a developmental-regulatory theme, with one incidental term for low-light response. Therefore this label best fits the cluster's core function.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0007050","count":2},{"id":"GO:0086091","count":2},{"id":"GO:0098911","count":2},{"id":"GO:0072287","count":2}]},{"hash":"2240767644165619960","title":"Developmental signaling and COPII transport","description":"The cluster combines GO terms related to COPII-mediated vesicle loading with multiple developmental processes (cranial skeletal system, blood vessel development, neuron differentiation) and IGF signaling, suggesting a theme where vesicle trafficking interfaces with developmental signaling cues. While not all terms are tightly connected, the prominent COPII and developmental signals point to a coordinated transport-signaling role during development.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090110","count":3},{"id":"GO:1904888","count":3},{"id":"GO:0035156","count":3},{"id":"GO:0021773","count":3},{"id":"GO:1990314","count":3}]},{"hash":"1547137529012721658","title":"Carbohydrate and metabolite transporter cluster","description":"The top GO terms are dominated by transmembrane transport of sugars and related metabolites (D-xylose, dehydroascorbic acid, fructose, trehalose, glucose, urate) and other organic anions, indicating a group of transporter proteins specialized for nutrient uptake and metabolite exchange. A couple of terms about senescence and intestinal structure maintenance appear but do not define the core function; the common thread is membrane transport of carbohydrates and small molecules.","confidence":"High","size":27,"edges":19,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0015753","count":24},{"id":"GO:0070837","count":24},{"id":"GO:0071332","count":24},{"id":"GO:0015771","count":24},{"id":"GO:1904728","count":24}]},{"hash":"265869151208667446","title":"GPCR-Mediated Signaling","description":"Based on the top GO terms, the proteins cluster around G protein-coupled receptor signaling pathways, including GPCR internalization, adenylate cyclase modulation by serotonin and adrenergic receptors, opsin-related signaling, prostaglandin response, mucus secretion, and downstream regulation of Rho signaling. The term set collectively points to GPCR-driven signal transduction with downstream effects on secretion and cytoskeletal regulation, supporting a cohesive GPCR signaling cluster.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":23},{"id":"GO:0007198","count":23},{"id":"GO:0070963","count":23},{"id":"GO:0002031","count":23},{"id":"GO:0071799","count":23}]},{"hash":"2212537810760318394","title":"Actin cytoskeleton regulation and mechanotransduction","description":"Most represented GO terms center on actin cytoskeleton dynamics: promoting actin filament polymerization, stress fiber assembly, and formin-nucleated actin cable assembly, which underlie muscle contraction and cellular mechanical responses. The presence of positive regulation of ERK1/2 cascade indicates signaling integration with these cytoskeletal processes, suggesting coordinated regulation of actin dynamics and signaling. A few terms reflect broader stress and hormonal signaling, but the core theme is actin regulation linked to mechanotransduction.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0050821","count":4},{"id":"GO:0051496","count":3},{"id":"GO:0030838","count":3},{"id":"GO:0090338","count":3}]},{"hash":"84828904506868734","title":"Neural signaling and plasticity","description":"The top GO terms point to neural communication and synaptic modulation (excitatory postsynaptic potential, long-term potentiation) and sensory processing (visual perception), with supporting signals for Schwann cell development and stress-related responses (xenobiotic/glucocorticoid response, NF-kappaB signaling, translation, apoptosis regulation). This pattern suggests a cluster of proteins involved in neuronal signaling, synaptic strength regulation, and neural adaptability, with ancillary roles in glial development and stress responses, hence a cohesive label around neural signaling and plasticity.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0060079","count":4},{"id":"GO:0043123","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0014044","count":3},{"id":"GO:0035690","count":3}]},{"hash":"110729965602988649","title":"Vertebrate tissue development and cytoskeletal signaling","description":"The cluster is enriched for developmental GO terms spanning skin, lens, spinal cord, and neuron projection development, plus cytoskeletal signaling/modulation terms (GTPase activity, protein kinase activity, actin depolymerization). This suggests proteins collectively involved in vertebrate tissue development with cytoskeletal dynamics and signaling regulation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043588","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0070306","count":5},{"id":"GO:0007568","count":5}]},{"hash":"230923661066693669","title":"Dopaminergic synaptic signaling and auditory perception","description":"These proteins share GO terms centered on nervous system signaling, particularly dopaminergic synaptic transmission, regulation of nerve impulse transmission, and auditory perception. The presence of terms for action potential and inhibitory postsynaptic potential further supports a theme of neuronal excitability and synaptic communication, with auditory stimulus detection tying the cluster to sensory processing. Confidence: High","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":3},{"id":"GO:0001508","count":2},{"id":"GO:0043200","count":2},{"id":"GO:2000344","count":2},{"id":"GO:0071361","count":2}]},{"hash":"2009869709180050842","title":"Unknown","description":"The GO terms are highly diverse: they span mechanotransduction (response to muscle stretch, cellular response to mechanical stimulus, calcium release), developmental differentiation (hepatocyte and trophoblast giant cell differentiation), neural guidance, protein localization, and immune signaling (immunoglobulin production, IL-12 regulation). There is no single cohesive biological process or theme that clearly ties all terms together for this cluster, so a specific functional label cannot be assigned with confidence. The cluster therefore remains Unknown.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035994","count":3},{"id":"GO:0070365","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0033564","count":2}]},{"hash":"2203592849597071379","title":"Unknown","description":"The GO terms span nuclear DNA replication and repair and meiotic cell cycle, but also include diverse developmental and biosynthetic processes (seed coat mucilage, insect visual primordium formation, epithelial polarity, glycosylation), with no clear unifying function across the cluster.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0075015","count":4},{"id":"GO:0006281","count":3},{"id":"GO:0070940","count":3},{"id":"GO:0051321","count":3}]},{"hash":"128126544975793656","title":"Interferon-driven innate immune response","description":"The cluster is dominated by GO terms related to innate immunity and interferon signaling, notably cellular response to interferon-alpha and to type I interferon, indicating proteins involved in antiviral defense and IFN-stimulated pathways. Some other terms (e.g., necroptosis regulation, histone modification, ER-associated ubiquitin-dependent processes) appear ancillary or potentially annotation noise and do not redefine the core function. Overall, the primary theme is interferon-mediated innate immune activity.","confidence":"High","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0060546","count":3},{"id":"GO:0016570","count":3},{"id":"GO:1903071","count":3},{"id":"GO:1903070","count":3}]},{"hash":"1614665445471767564","title":"Core cellular machinery with innate immune signals","description":"The top terms indicate core housekeeping processes (DNA-templated transcription, ribosome biogenesis, mitotic cycle and microtubule dynamics) alongside innate immune/defense responses (to Gram-positive bacteria and viruses). With no network edges connecting the proteins, the cluster appears to combine fundamental cellular machinery with immune-related factors rather than a single coherent pathway, justifying a label that reflects both aspects.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0071276","count":3},{"id":"GO:0051607","count":3}]},{"hash":"1428171467974301674","title":"Vascular signaling and smooth muscle contraction","description":"The GO terms cluster around thrombin-activated receptor signaling, GPCR/PKC/DAG pathways, and Rho signaling, plus blood vessel development and regulation of smooth muscle contraction, suggesting a theme of signaling networks controlling vascular function and tone; inflammatory cues (TNF/NF-kB) appear but are secondary. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010800","count":3},{"id":"GO:0048146","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0070493","count":3}]},{"hash":"1782787361138068541","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms cluster around developmental processes across multiple tissues (pancreatic cell development, placenta and trophoblast formation, left-right patterning, EMT in heart structures, cartilage morphogenesis, and endocrine system development), plus transcriptional regulation and Rho/GTPase signaling, all pointing to broad roles in embryogenesis and tissue morphogenesis. This suggests the proteins act in diverse developmental differentiation and morphogenesis pathways rather than a single specific function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003323","count":4},{"id":"GO:0060806","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060707","count":3}]},{"hash":"340189530306430809","title":"Neural development and ion transport","description":"The top GO terms point to neural development (neuronal stem cell maintenance; cortical neuron migration) and neural signaling (sensory perception of sound; potassium and sodium ion transport), suggesting a cluster focused on neural development and function. A few immune-related and DNA repair terms appear, but they are less representative of the main theme, likely reflecting annotation noise or multifunction proteins. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070245","count":2},{"id":"GO:0010820","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2}]},{"hash":"213326103646047986","title":"Embryogenesis and Tissue Morphogenesis","description":"The dominant GO terms point to embryonic development, left-right patterning, placental/trophoblast differentiation, cartilage morphogenesis, and endocrine system formation, suggesting a cluster of proteins involved in early development and tissue formation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":6},{"id":"GO:0060806","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0060707","count":5}]},{"hash":"428724673220358792","title":"Unknown","description":"The GO terms span diverse developmental processes (uterus, female gonad, digestive tract, tongue muscle differentiation) and metabolism/hormone/response terms (isoquinoline alkaloid metabolism, coumarin catabolic process, androgen metabolism, ozone response, macrophage chemotaxis regulation). There's no single cohesive function or pathway linking these terms, so a specific, confident label cannot be assigned.","confidence":"","size":26,"edges":19,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033076","count":13},{"id":"GO:0060065","count":11},{"id":"GO:0008585","count":11},{"id":"GO:0048565","count":11},{"id":"GO:0010760","count":10}]},{"hash":"320595648568072154","title":"Angiogenesis and hormone-driven cell cycle","description":"The GO terms point to hormone-responsive growth and cell cycle progression, with strong signals for peptide hormone stimulus response, insulin signaling regulation, mammary gland epithelial proliferation, and key cell cycle transitions (G1/S and G2/M), along with DNA-templated transcription and angiogenesis. While apoptosis and autophagy regulation appear, the dominant pattern is hormone-triggered proliferation and cell-cycle control, consistent with mammary-related growth processes and vascular development.","confidence":"High","size":26,"edges":7,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":11},{"id":"GO:0071375","count":10},{"id":"GO:0001525","count":9},{"id":"GO:0016242","count":8},{"id":"GO:0000320","count":8}]},{"hash":"222923064888645370","title":"Cell Division and Cytoskeletal Dynamics","description":"The top terms cluster around mitosis and cytoskeletal organization: cell division, microtubule severing, sarcomere organization, and CENP-A\u2013containing chromatin assembly point to chromosome segregation and cytoskeletal architecture. Additional terms on ER-Golgi transport and ERAD suggest broader cellular logistics, while a few terms relate to cGMP signaling and olfactory perception; however, the dominant signal is mitosis/cytoskeletal dynamics.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0006888","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0010754","count":5},{"id":"GO:0071321","count":5}]},{"hash":"1420226435520596476","title":"RNA splicing and translation initiation regulation","description":"Reason: The cluster centers on RNA processing (splicing via spliceosome, rRNA maturation) and control of protein synthesis (translation initiation, reinitiation, IRES-dependent translation), indicating a combined theme of RNA processing and translational regulation.","confidence":"High","size":26,"edges":125,"triangles":264,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0000381","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0075522","count":4}]},{"hash":"364935767662549806","title":"Proteolysis and redox signaling cluster","description":"The cluster\u2019s top GO terms center on proteolysis and glutathione metabolism (biosynthesis and catabolism), with supporting signals from leukotriene biosynthesis, cellular responses to UV-B, and neuropeptide signaling, suggesting a core theme around protein turnover and redox/inflammatory signaling. Some developmental terms (kidney development, pollen exine formation, spermatogenesis) likely reflect broader annotation across species rather than a single cohesive function for all proteins. Overall, the proteolysis and redox-related processes appear to tie the cluster together.","confidence":"Medium","size":26,"edges":34,"triangles":4,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:1901750","count":3},{"id":"GO:0006751","count":3},{"id":"GO:0006750","count":3},{"id":"GO:0001822","count":3}]},{"hash":"1848367919024978174","title":"Mitochondrial energy production and translation","description":"This cluster is dominated by mitochondrial-related processes: calcium import into mitochondria and regulation of mitochondrial calcium, proton-motive force-driven ATP synthesis, ubiquinone and heme biosynthesis, and even translation (mitochondrial protein synthesis). Together, these indicate a cohesive theme of mitochondrial energy metabolism and biogenesis; brain-related terms like angiogenesis and substantia nigra development may reflect cellular context rather than core function.","confidence":"High","size":26,"edges":259,"triangles":1346,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0036444","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0006744","count":3},{"id":"GO:0006783","count":2}]},{"hash":"419669010008344309","title":"Cytoplasmic Translation and Cell-Cycle Metabolism","description":"The most represented GO terms are translation and cytoplasmic translation, including selenocysteine incorporation, indicating a core protein-synthesis function. The presence of cell cycle adds a related layer of cellular proliferation coordination. Metabolic pathways such as the TCA cycle and tetrahydrofolate metabolism suggest coordinating metabolism with growth and translation. Together these point to a cluster centered on protein synthesis with linked cell-cycle progression and metabolism.","confidence":"High","size":26,"edges":196,"triangles":588,"max_degree":22,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0007568","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0007049","count":3}]},{"hash":"1145152476958998638","title":"Developmental transcriptional regulators","description":"Proteins in this cluster are linked to transcriptional regulation (DNA-templated transcription; positive regulation of DNA binding; negative regulation of transcription by RNA polymerase II) and to developmental processes across several tissues (labyrinthine layer development; thalamus development; adenohypophysis development). The common theme appears to be transcriptional control guiding development, even though the specific tissues differ.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060711","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0045454","count":2}]},{"hash":"493799444158908128","title":"Bacterial membrane transport and peptidoglycan metabolism","description":"Top GO terms indicate multiple transmembrane transport processes for nutrients (biotin, myo-inositol, glucose, pantothenate) alongside peptidoglycan turnover and biosynthesis, with some broader processes. This points to a cohesive theme of membrane-associated transport coupled with cell wall metabolism in bacteria, justifying a label that emphasizes transport and cell wall processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":3},{"id":"GO:0015878","count":3},{"id":"GO:0015798","count":3},{"id":"GO:0008292","count":3},{"id":"GO:1904659","count":3}]},{"hash":"1175865087175592836","title":"Neuronal Ion Channels and Signaling","description":"Enriched for transmembrane ion transport (Na+, K+, Ca2+), action potential and EPSP, and GABAergic signaling, with related behavioral terms such as startle, locomotion, conditioned taste aversion, and circadian sleep regulation\u2014together pointing to neuronal excitability as the common theme.","confidence":"High","size":26,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":14},{"id":"GO:0001661","count":14},{"id":"GO:0007626","count":14},{"id":"GO:0007214","count":14},{"id":"GO:0060079","count":14}]},{"hash":"613321300041282453","title":"Immune and Developmental Signaling","description":"The top GO terms cluster around immune activation (complement lectin pathway, response to fungal origin, leukocyte tethering/rolling) while also highlighting developmental and remodeling processes (angiogenesis, cartilage condensation, cell-matrix adhesion, metanephric development) and signaling cascades (ERK). This suggests proteins involved in both immune responses and developmental signaling, rather than a single narrow function, making \"Immune and Developmental Signaling\" a concise, representative label.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":16},{"id":"GO:0071226","count":10},{"id":"GO:0050901","count":9},{"id":"GO:0072218","count":9},{"id":"GO:0010572","count":9}]},{"hash":"1041779590150952006","title":"Innate immune response to LPS","description":"The top GO terms concentrate on lipopolysaccharide signaling and innate immunity (lipopolysaccharide-mediated signaling, cellular response to lipopolysaccharide, innate immune response), suggesting a core function in responding to bacterial LPS; the neural development and synaptic terms may reflect pleiotropy or context-dependent roles but do not override the dominant immune signal.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031663","count":4},{"id":"GO:0071222","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0030517","count":4},{"id":"GO:0022038","count":3}]},{"hash":"776923664656210701","title":"TLR-driven innate immune signaling","description":"The cluster shows strong enrichment for innate immune processes, including innate immune response, defense against virus, MyD88-independent Toll-like receptor signaling, and detection of bacterial lipopeptide, with associated regulation of cytokine production. This indicates a coherent module of innate immune sensing and downstream signaling, despite a few outlier terms.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0045842","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0006351","count":2},{"id":"GO:2001246","count":2}]},{"hash":"746937447474044646","title":"Developmental and Neural Signaling Cluster","description":"The terms suggest a blend of broad developmental processes (lymphoid differentiation, salivary gland morphogenesis, thalamus and lung mesenchyme development, multicellular development) with neural and sensory activity (glycinergic synaptic transmission, mechanical-sound sensing, locomotion). This points to proteins involved in organismal development with a notable emphasis on neural signaling and sensory pathways, justifying a label that captures both aspects.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002320","count":2},{"id":"GO:0060445","count":2},{"id":"GO:0021794","count":2},{"id":"GO:0060484","count":2},{"id":"GO:0007275","count":2}]},{"hash":"71363172872038917","title":"Mitochondrial energy metabolism and insulin signaling","description":"These proteins cluster around mitochondrial function in liver metabolism: iron import into mitochondria, NAD transport, mitochondrial fission, oxidative stress response, and insulin/glucose\u2013related signaling/regulation, with some liver-specific processes like regeneration. This combination supports a cohesive theme of hepatic mitochondrial energy metabolism and stress response.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990314","count":4},{"id":"GO:0097421","count":4},{"id":"GO:0061179","count":3},{"id":"GO:0048250","count":3},{"id":"GO:0000303","count":3}]},{"hash":"565893091974910529","title":"Actin-Driven Mechanotransduction and Membrane Trafficking","description":"The terms cluster around actin filament bundle assembly, cellular response to mechanical stimulus, and membrane trafficking processes like maintenance of protein location in the plasma membrane and pinocytosis, pointing to a cohesive role for cytoskeletal remodeling driving endocytosis and membrane localization in response to mechanical cues.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":3},{"id":"GO:0035584","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0072660","count":2},{"id":"GO:0043488","count":2}]},{"hash":"2142859128858231033","title":"Glutamatergic synapse development and transmission","description":"The strongest signals are about excitatory synapse assembly, regulation of glutamatergic transmission, synaptic vesicle clustering, terminal button organization, and AMPA receptor activity, pointing to a coherent theme of glutamatergic synapse development and function. Some terms (retina development, xenobiotic response, osteoblast development) are present but less central, so the label focuses on the core synaptic biology.","confidence":"High","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":16},{"id":"GO:0042493","count":15},{"id":"GO:0002076","count":15},{"id":"GO:0002087","count":15},{"id":"GO:1904861","count":13}]},{"hash":"236111851491707142","title":"Actin cytoskeleton organization and muscle sarcomere assembly","description":"The cluster\u2019s top GO terms converge on actin-driven processes: patch assembly, cell polarity and shape maintenance, sarcomere organization, and skeletal muscle thin filament assembly/adaptation. Additional terms like mitotic cytokinesis and platelet aggregation also rely on actin remodeling, and organelle inheritance often involves cytoskeletal transport. Taken together, the proteins appear to be components of actin-dependent cytoskeletal organization with a muscle/sarcomere assembly emphasis.","confidence":"High","size":25,"edges":261,"triangles":1706,"max_degree":23,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000147","count":12},{"id":"GO:0000011","count":12},{"id":"GO:0071963","count":12},{"id":"GO:0000001","count":12},{"id":"GO:0042766","count":10}]},{"hash":"546466862119323614","title":"Host defense signaling and bacterial entry response","description":"This cluster centers on immune-related GO terms: defense response to Gram-positive bacteria, lipopolysaccharide-mediated signaling, and regulation of entry of bacteria into host cells, plus PI3K/AKT and NF-kappaB signaling\u2014hallmarks of host-pathogen interaction and rapid signaling responses. The presence of metabolic terms like fucose metabolism and glycoside catabolic process suggests concurrent metabolic reprogramming, which often accompanies immune activation. Overall, a coherent theme of host defense signaling with bacterial entry dynamics, with some metabolic context.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006004","count":5},{"id":"GO:2000535","count":5},{"id":"GO:0016139","count":5},{"id":"GO:0045444","count":3},{"id":"GO:0003323","count":3}]},{"hash":"882190433537780752","title":"Embryonic development and organ morphogenesis","description":"The proteins are tied to a broad set of embryonic development processes across multiple tissues: neural crest migration, heart cushion EMT, left-right patterning, pancreas and placenta lineages, hippocampus and cochlea formation, and cartilage morphogenesis. This points to a general theme of developmental morphogenesis and tissue patterning rather than a specific molecular pathway.","confidence":"High","size":25,"edges":25,"triangles":26,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":2},{"id":"GO:0001755","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0003323","count":2}]},{"hash":"157293558366932578","title":"Neurodevelopmental and Immune Signaling Network","description":"The cluster combines neural development cues (hippocampus development, cranial skeleton morphogenesis, excitatory postsynaptic potential) with key developmental signaling pathways (Wnt, ephrin receptor signaling) and also immune development signals (T cell receptor signaling, beta selection), alongside generic DNA replication/transcription processes. This suggests a broad developmental signaling module with neural and immune differentiation components.","confidence":"Medium","size":25,"edges":58,"triangles":59,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":13},{"id":"GO:0048701","count":12},{"id":"GO:0021766","count":11},{"id":"GO:0006351","count":11},{"id":"GO:0090263","count":10}]},{"hash":"729144725448227525","title":"Neural development signaling","description":"The proteins are enriched for terms tied to nervous system development and multiple signaling pathways (dopamine response, Wnt signaling, ERK cascade, and ephrin receptor signaling), suggesting a cohesive module focused on neural development and signal transduction; a few cell cycle terms may reflect proliferating neural progenitors.","confidence":"Medium","size":25,"edges":31,"triangles":8,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":17},{"id":"GO:0043366","count":17},{"id":"GO:1903351","count":17},{"id":"GO:0090263","count":17},{"id":"GO:0043304","count":17}]},{"hash":"1532195903542470253","title":"Ion and Nutrient Transmembrane Transporters","description":"The GO terms are all about transmembrane transport of various ions (potassium, sodium), nutrients and metabolites (nitrate/nitrite, sialic acid, fucose, vitamins) and a vesicular neurotransmitter loading process, pointing to a cluster of membrane transport proteins and related vesicular transport components. This suggests a cohesive theme around transport across membranes for ions and essential nutrients.","confidence":"High","size":25,"edges":44,"triangles":44,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071805","count":6},{"id":"GO:0015706","count":6},{"id":"GO:0042891","count":6},{"id":"GO:0015739","count":6},{"id":"GO:0006004","count":6}]},{"hash":"2071919086392516217","title":"Post-transcriptional RNA processing and translation control","description":"This cluster is dominated by GO terms related to post-transcriptional regulation: mRNA stability, poly(A) tail shortening, splicing, miRNA-mediated silencing, and translation initiation (including IRES). While some terms touch on embryonic development, the strongest signal is RNA processing and control of translation, suggesting these proteins function together in post-transcriptional regulation.","confidence":"High","size":25,"edges":7,"triangles":1,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":4},{"id":"GO:0060211","count":4},{"id":"GO:0001701","count":3},{"id":"GO:1905663","count":3},{"id":"GO:0001731","count":3}]},{"hash":"1303743416693416123","title":"Immune Response with Development Signals","description":"Most frequent GO terms cluster around innate immune activity: complement activation, defense response to Gram-positive bacteria, and Toll signaling, indicating a core immune function. However, several terms relate to organ morphogenesis (midbrain development, pancreas morphogenesis) and growth, suggesting pleiotropy or context-specific roles. Taken together, the label captures the dominant immune theme with ancillary developmental associations.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0035264","count":5}]},{"hash":"2214741044919338222","title":"AGP glycosylation and seed coat mucilage biosynthesis","description":"The terms point to arabinogalactan protein metabolism, hydroxyproline-linked O-glycosylation, and biosynthesis of seed coat mucilage and related cell-wall polysaccharides, with additional ties to root hair development. A few entries (e.g., infection structure formation, insect egg chamber adhesion) seem noise, but the dominant signal is plant extracellular glycoprotein production and secreted polysaccharide assembly.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":4},{"id":"GO:0010493","count":4},{"id":"GO:0048354","count":4},{"id":"GO:0001744","count":4},{"id":"GO:0042248","count":4}]},{"hash":"348463937071751140","title":"Wnt pathway regulators in muscle cells","description":"Top GO terms show strong enrichment for both positive and negative regulation of canonical Wnt signaling, along with linked processes such as cell migration, regulation of cell proliferation, and responses to muscle stretch. Additional terms point to telomere maintenance via telomerase and mRNA processing, suggesting a broader module involved in transcriptional/post-transcriptional regulation and cell cycle control in muscle contexts. Taken together, these proteins appear to function as regulators of Wnt signaling with downstream effects on muscle cell behavior and proliferation, rather than a single canonical pathway component.","confidence":"High","size":25,"edges":5,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0016477","count":17},{"id":"GO:0090263","count":16},{"id":"GO:0043065","count":16},{"id":"GO:0008285","count":16},{"id":"GO:0090090","count":16}]},{"hash":"515222424105323549","title":"TLR Signaling and LPS-Triggered Inflammation","description":"The top terms show strong involvement in MyD88-dependent TLR signaling, detection and response to lipopolysaccharide, and downstream inflammatory outcomes such as IL-6 production and defense against bacteria, indicating a cohesive theme of innate immune sensing of bacterial components. Some unrelated terms like myelination and actin filament severing may reflect broader cellular processes or annotation noise, but the central cluster clearly centers on TLR-mediated inflammatory responses to bacterial ligands.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002755","count":4},{"id":"GO:0071222","count":3},{"id":"GO:0032497","count":3},{"id":"GO:0034130","count":3},{"id":"GO:0045410","count":3}]},{"hash":"1103486386062978783","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":8,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034389","count":2},{"id":"GO:0007021","count":1},{"id":"GO:0007023","count":1},{"id":"GO:0051084","count":1},{"id":"GO:0045041","count":1}]},{"hash":"760542444945305075","title":"GPCR Signaling with Vascular and Immune Roles","description":"The top GO terms cluster around G protein-coupled receptor pathways\u2014internalization, adenylate cyclase-activating/inhibiting signaling, opsin- and prostaglandin-responsive signaling, and adrenergic signaling\u2014coupled with downstream effects on vascular and immune-related processes such as smooth muscle differentiation, coagulation, mucus secretion, and neutrophil activity. This suggests a cohesive theme of GPCR-mediated signaling in vascular/immune contexts.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":12},{"id":"GO:0070257","count":11},{"id":"GO:0007198","count":11},{"id":"GO:0070963","count":11},{"id":"GO:0002031","count":11}]},{"hash":"467110514355724388","title":"ER Stress and Secretory Pathway","description":"Proteins are enriched for endoplasmic reticulum\u2013related processes (UPR, ER localization, COPII vesicle budding, calcium homeostasis) pointing to ER function and secretory trafficking; some terms reflect host\u2013virus interactions with the ER. A single developmental term is less connected but does not override the ER/secretory theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044791","count":1},{"id":"GO:0044828","count":1},{"id":"GO:0006874","count":1},{"id":"GO:0044829","count":1},{"id":"GO:0030968","count":1}]},{"hash":"46815935905099548","title":"GPCR signaling and cardiovascular development","description":"Top terms indicate GPCR internalization, prostaglandin response, and heart/lung development as dominant themes, with related vasomotor regulation and morphogenesis. The cluster likely reflects GPCR-mediated signaling pathways that drive cardiovascular and organ development, especially heart and lung, with secondary links to neural and metabolic processes.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002031","count":4},{"id":"GO:0045907","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0071380","count":4},{"id":"GO:0060427","count":3}]},{"hash":"832780638810516089","title":"Unknown","description":"The terms span host-microbe dormancy, general stress response, RNA guanine-N7 methylation, antibiotic biosynthetic processes, and various tissue development terms, with no single dominant function tying them together. This diversity makes it hard to assign a coherent, representative label, so Unknown is most appropriate.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0085014","count":6},{"id":"GO:0006950","count":6},{"id":"GO:0036265","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0007519","count":3}]},{"hash":"1453795804040103648","title":"Unknown","description":"The GO terms span neuronal stimulus-response (startle, memory, conditioned taste aversion, pain regulation) and cell wall/glycosylation processes with signaling components, showing no single cohesive function to tie all proteins together. Therefore no reliable, specific label can be assigned.","confidence":"","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":2},{"id":"GO:0001661","count":2},{"id":"GO:0016998","count":2},{"id":"GO:0001964","count":2},{"id":"GO:0035725","count":2}]},{"hash":"1392246948784671853","title":"Developmental signaling and organ morphogenesis","description":"The proteins show enrichment in signaling pathways (Wnt, ERK/MAPK, AKT) and organ development processes (lung morphogenesis, placenta development, cardiac muscle proliferation, and cell polarity), indicating a cohesive role in signaling-driven development and tissue morphogenesis. DNA repair appears less central to the core theme, suggesting it may be a secondary association. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":7},{"id":"GO:0090263","count":7},{"id":"GO:0060045","count":7},{"id":"GO:0001890","count":7},{"id":"GO:0000187","count":7}]},{"hash":"2036570401722019307","title":"Innate immune defense and inflammatory signaling","description":"Dominant immune-related terms (defense response to bacterium; response to lipopolysaccharide; response to xenobiotic stimulus) plus signaling activities (positive regulation of ERK1/2 cascade; release of sequestered calcium into cytosol) and mucus secretion suggest a cluster centered on innate immune defense and inflammatory signaling; heart development and proliferation terms are present but secondary to the core immune-theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042742","count":11},{"id":"GO:0051209","count":10},{"id":"GO:0014063","count":10},{"id":"GO:0008283","count":10},{"id":"GO:0019835","count":10}]},{"hash":"1431447057100577464","title":"Neurovascular development with transcriptional regulation","description":"This cluster centers on developmental processes in the nervous system (neurogenesis, amacrine cell differentiation, floor plate development, somitogenesis) and vascular tissues (lung vasculature development, cardiac vascular smooth muscle cell development), all tied together by transcription by RNA polymerase II and transcriptional regulation (including circadian clock entrainment). The convergence of neural and vascular developmental terms alongside transcriptional control suggests a cohesive neurovascular development module governed at the transcriptional level.","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0060426","count":10},{"id":"GO:0035881","count":10},{"id":"GO:0033504","count":10},{"id":"GO:0001756","count":10}]},{"hash":"157514126810685554","title":"Retinoid and androgen metabolism in lung development","description":"This cluster centers on retinol/retinoic acid metabolism and androgen/steroid pathways (retinol and retinoic acid biosynthesis; androgen metabolism/catabolism; steroid catabolic), with supporting redox and transcription-regulation connections and the lung development term, suggesting a theme of vitamin A\u2013related signaling and hormone metabolism in lung development.","confidence":"Medium","size":24,"edges":145,"triangles":466,"max_degree":19,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":17},{"id":"GO:0042572","count":17},{"id":"GO:0030324","count":15},{"id":"GO:0042619","count":14},{"id":"GO:0008209","count":14}]},{"hash":"2225281851502782214","title":"Embryonic organogenesis and neural crest formation","description":"The terms indicate a focus on embryonic development and organ morphogenesis across multiple tissues (heart, eye, placenta, pituitary, prostate, ureteric bud) with neural crest involvement; the transcriptional regulation term fits the gene-expression control aspect of development, supporting a cohesive label for proteins participating in embryonic organogenesis and neural crest formation.","confidence":"High","size":24,"edges":19,"triangles":1,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:2000288","count":10},{"id":"GO:0090190","count":10},{"id":"GO:0021986","count":10},{"id":"GO:0021983","count":9}]},{"hash":"1570450849632774662","title":"Neural development and brain region specification","description":"The set of prominent GO terms centers on neural lineage and regional brain formation\u2014brain segmentation, rhombomere development, cortex interneuron differentiation, and spinal cord oligodendrocyte fate\u2014along with transcriptional regulation by RNA polymerase II. A few terms address pituitary and endocrine pancreas development, which reflect broader developmental transcription programs that can accompany neural development.","confidence":"High","size":24,"edges":97,"triangles":92,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0021983","count":8},{"id":"GO:0035284","count":7},{"id":"GO:0021571","count":7},{"id":"GO:0006990","count":6}]},{"hash":"904921124919136045","title":"Eye development and retinal synaptic signaling","description":"The top GO terms cluster around camera-type eye development, retina development, and embryonic eye morphogenesis, with related neuronal activity terms like excitatory synapse assembly and glutamatergic transmission, indicating a focus on visual system development and retinal neural connectivity. While there are some broader morphogenesis and tissue repair terms present, the eye-related terms are predominant. ","confidence":"High","size":24,"edges":243,"triangles":1419,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0060041","count":10},{"id":"GO:0002087","count":10},{"id":"GO:0002076","count":10},{"id":"GO:0048048","count":8}]},{"hash":"2110622503184980335","title":"Symbiont dormancy and stress-responsive metabolism","description":"The top GO terms point to dormancy entry of a symbiont in a host, a general stress response, detoxification, and various biosynthetic processes (menaquinone, biotin, and antibiotic biosynthesis) along with proteolysis. This combination suggests a microbial, host-associated context where dormancy and stress adaptation are linked to production of metabolites, rather than a single, narrow cellular function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0085014","count":5},{"id":"GO:0006950","count":5},{"id":"GO:0098869","count":4},{"id":"GO:0009234","count":4},{"id":"GO:0008284","count":4}]},{"hash":"283490056497549092","title":"Transcriptional Regulation and Developmental Epigenetics","description":"Top GO terms cluster around RNA polymerase II\u2013driven transcription and its negative regulation, pointing to a core role in gene expression control. The accompanying developmental terms for osteoblast and retina development, plus neural regulation of respiration, suggest involvement in tissue-specific developmental programs. The methylation-related terms further imply epigenetic or post-translational regulation associated with transcription. Together, these features indicate a cohesive theme of transcriptional regulation linked to development and chromatin modification.","confidence":"Medium","size":24,"edges":250,"triangles":1542,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0000122","count":5},{"id":"GO:0002076","count":5},{"id":"GO:0060041","count":5},{"id":"GO:0002087","count":4}]},{"hash":"1209567894101695515","title":"Placental and embryonic development with patterning","description":"This cluster centers on embryonic development and placental/trophoblast differentiation, with several terms tied to endocrine development, left-right patterning, and EMT-related processes, suggesting a developmental patterning program. The splicing and ribosome export terms are common housekeeping processes that accompany active gene expression in these contexts, reinforcing the developmental interpretation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0006888","count":3},{"id":"GO:1903026","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0035270","count":2}]},{"hash":"1652977042180235857","title":"Cell signaling and proliferation regulation","description":"GO terms indicate mitotic cell cycle, regulation of cell proliferation, calcium signaling, ER-stress\u2013induced apoptosis, and key signaling pathways (Rho, NF-kappaB, tyrosine phosphorylation), suggesting a coherent theme of cellular growth, division, and stress-response signaling. The presence of a couple of fungal-specific terms seems less connected and may reflect annotation noise, but the dominant pattern is signaling networks controlling cell fate and proliferation.","confidence":"Medium","size":24,"edges":8,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0045669","count":2},{"id":"GO:0071277","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0030437","count":2}]},{"hash":"1485739688189977742","title":"Muscle contraction and energy metabolism regulation","description":"The top GO terms center on skeletal muscle contraction (positive/negative regulation, fast-twitch), calcium-regulated contraction, heart rate modulation, and regulation of aerobic respiration/oxidative phosphorylation. These together point to a theme of muscle function coupled to energy metabolism and calcium signaling. Some unrelated terms (focal adhesion, tight junction, nuclear migration) appear less central, but the dominant pattern supports a muscle energetics/contraction regulatory theme. Confidence: Medium","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903715","count":2},{"id":"GO:0048041","count":2},{"id":"GO:1902396","count":2},{"id":"GO:0031448","count":2},{"id":"GO:0021629","count":2}]},{"hash":"2059820339610595493","title":"Wnt Signaling in Development and Neurogenesis","description":"Evidence suggests the proteins participate in Wnt-driven developmental signaling with roles in neural development and organogenesis (forebrain, embryonic, heart), and in regulating transcription and protein turnover during these processes. The convergence of canonical Wnt signaling with neurodevelopmental and embryonic development terms supports a label focused on developmental signaling rather than a tissue-specific function.","confidence":"High","size":24,"edges":197,"triangles":726,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:2000059","count":2},{"id":"GO:0060070","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0016080","count":2}]},{"hash":"1347609748240516020","title":"RNA decay and antiviral signaling","description":"This cluster centers on mRNA processing and decay (P-body assembly, deadenylation- and decapping-dependent pathways, translational initiation regulation) and innate immune signaling (RIG-I pathway, type I interferon). The overlap suggests a cohesive theme linking RNA metabolism to antiviral responses, with a few development terms likely incidental noise.","confidence":"Medium","size":24,"edges":36,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007289","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0061000","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0039529","count":2}]},{"hash":"1155227412011289219","title":"Synaptic signaling and spine morphogenesis","description":"The top GO terms point to synapse-related processes: receptor clustering, protein localization to synapse, and dendritic spine morphogenesis, along with Rho signaling and JNK pathway regulation. The inclusion of protein dephosphorylation further supports synaptic signaling regulation. Behavioral terms like vocalization, grooming, and social behavior suggest neural circuits underlying behavior, aligning with a neuronal/synaptic theme. ","confidence":"High","size":24,"edges":51,"triangles":43,"max_degree":13,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0043113","count":15},{"id":"GO:0007266","count":14},{"id":"GO:0060997","count":14},{"id":"GO:0035418","count":14},{"id":"GO:0008285","count":14}]},{"hash":"165878695667859071","title":"Neuronal gene expression and ion transport","description":"These proteins appear to be involved in gene expression regulation (transcription, RNA processing, splicing) as well as neural signaling (potassium/sodium ion transport and glutamatergic synaptic transmission), implying a cluster of factors bridging transcriptional control and neuronal activity.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0035249","count":2}]},{"hash":"814344841008600699","title":"Neural development and synaptic signaling","description":"Most terms point to nervous system development and synaptic function (central nervous system development; neuron projection development; regulation of GABAergic synaptic transmission; miRNA processing; ERK signaling; calcium release). While there are some non-neural terms (lens differentiation, heart development, xenobiotic response, defense to bacteria), the strongest signal is neural development and synaptic signaling, suggesting the proteins cluster around neuronal development and communication pathways.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0035196","count":2},{"id":"GO:0032228","count":2},{"id":"GO:0070306","count":2}]},{"hash":"513024435146511362","title":"Systemic signaling and metabolism","description":"The cluster includes GO terms spanning GPCR signaling and ERK/MAPK cascade regulation, cardiovascular physiology (blood pressure, heart trabecula formation), gut motility and enteric nervous system development, bone remodeling, immune and xenobiotic responses, and the electron transport chain. This pattern points to proteins involved in broad signaling networks and energy metabolism across multiple tissues rather than a single, cohesive function, hence a general systemic label.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010579","count":3},{"id":"GO:0045777","count":3},{"id":"GO:0022900","count":3},{"id":"GO:0006955","count":3},{"id":"GO:0046849","count":3}]},{"hash":"720700124511899002","title":"Retina and optic nerve development","description":"The top GO terms point to eye-related development, especially retina vasculature development in a camera-type eye and optic nerve morphogenesis, with supporting signals for transcription and neuronal excitability (excitatory postsynaptic potential). While some terms reflect broader development or stress responses (cellular responses to ethanol/cocaine, cartilage condensation), the strongest and most cohesive theme is ocular neural development and visual system formation.","confidence":"Medium","size":24,"edges":6,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0061298","count":6},{"id":"GO:0071226","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0001502","count":5},{"id":"GO:0071361","count":4}]},{"hash":"900323355647091276","title":"Transmembrane Transport and Secretion","description":"The top GO terms are dominated by various transmembrane transport activities (taurine, monoatomic anions, glycerophosphodiesters, methionine, phospholipids) and a Type I secretion system, suggesting the cluster groups proteins involved in membrane transport and secretion. Some outlier terms (e.g., nucleotide-excision repair) exist, but the overarching theme is membrane-associated transport/secretion.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015734","count":7},{"id":"GO:0099133","count":5},{"id":"GO:0001407","count":5},{"id":"GO:0045796","count":5},{"id":"GO:0045332","count":5}]},{"hash":"1771253930178843766","title":"DNA replication and repair cluster","description":"Many top terms describe DNA metabolism (replication, repair, recombination, transcription) and DNA integration, with a few terms related to host\u2013pathogen interactions. The dominant signal is DNA replication/repair machinery, so the cluster is best named \"DNA replication and repair cluster.\"","confidence":"High","size":24,"edges":134,"triangles":383,"max_degree":20,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006281","count":5},{"id":"GO:0006261","count":5},{"id":"GO:0006310","count":4},{"id":"GO:0006351","count":4}]},{"hash":"468296982198230549","title":"Opsin-GPCR Phototransduction Signaling","description":"The top GO terms indicate a strong enrichment for phototransduction and opsin-mediated signaling (e.g., GO:0007603, GO:0022400, GO:0018298) along with GPCR-related processes such as receptor internalization and signaling (GO:0002031, GO:0007198, GO:0035025). The presence of related regulatory processes (dopamine metabolism, prostaglandin response, mucus secretion) suggests a broader GPCR-signaling module anchored in phototransduction pathways. Confidence: High","confidence":"","size":24,"edges":13,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007603","count":20},{"id":"GO:0042053","count":20},{"id":"GO:0018298","count":20},{"id":"GO:0070257","count":19},{"id":"GO:0007198","count":19}]},{"hash":"1870116371772075741","title":"Unknown","description":"The top GO terms come from very different biological areas (plant hormonal signaling and development, telomerase assembly, animal signaling, neuroblast polarity, hypoxia response, etc.) with no single, shared function. The lack of edges (Edges: 0) further suggests these proteins do not form a cohesive, interpretable module. Therefore, Unknown with None confidence.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080037","count":1},{"id":"GO:1905323","count":1},{"id":"GO:0010449","count":1},{"id":"GO:0042921","count":1},{"id":"GO:0048642","count":1}]},{"hash":"1045700375112683310","title":"Angiogenesis Regulation and ECM Remodeling","description":"This cluster shows a convergence of GO terms for both negative and positive regulation of angiogenesis and core extracellular matrix processes like collagen fibril organization and elastic fiber assembly, pointing to a shared function in vascular remodeling and ECM assembly. Additional terms related to inflammatory signaling and exocytosis/synapse formation appear but do not outweigh the ECM/angiogenesis pattern. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0006334","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0048251","count":2}]},{"hash":"1193267610636268845","title":"Embryonic Development and Neural Formation","description":"The top GO terms cluster around broad developmental processes, including multicellular organism development, forebrain development, neural tube closure, and angiogenesis, suggesting a developmental program with neural and vascular formation. Some entries also touch on cell cycle regulation (mitotic CDKs), which fits the proliferative control needed during development. Overall, the set seems to describe a developmental, especially neural/embryonic, theme rather than a single, narrow pathway.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":8},{"id":"GO:0000278","count":7},{"id":"GO:0045736","count":7},{"id":"GO:0001525","count":7},{"id":"GO:2001275","count":7}]},{"hash":"1290060541930646903","title":"Skin inflammation and keratinocyte differentiation","description":"The Top Terms include inflammatory-related processes (chronic inflammatory response, leukotriene biosynthetic process, response to cytokine) and pain perception (detection of mechanical/chemical stimuli), plus epidermal differentiation signals (cornification, response to retinoic acid). This suggests a cluster of proteins tied to skin inflammatory responses and keratinocyte differentiation/barrier formation, rather than a single, cohesive metabolic pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050966","count":2},{"id":"GO:0050968","count":2},{"id":"GO:0002544","count":2},{"id":"GO:0043085","count":2},{"id":"GO:0019370","count":2}]},{"hash":"1850648232051348344","title":"Telomere maintenance and meiotic recombination","description":"Most frequent GO terms center on chromosome maintenance and meiosis: telomere maintenance via telomerase and via recombination, protein localization to chromosome, reciprocal meiotic recombination, and chiasma assembly. Some terms like mRNA processing point to general nuclear activity, while others (response to pain, behavioral response to ethanol, xenobiotic stimulus) appear as outliers. Overall, the cluster is best described as a chromosome maintenance and meiosis-related group.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0048265","count":2},{"id":"GO:0048149","count":2},{"id":"GO:1902042","count":2}]},{"hash":"1400765482454556103","title":"Acetylation-Driven Metabolic Biosynthesis","description":"The cluster is dominated by acetylation-related GO terms (several forms of peptidyl- and histone acetylation), suggesting a core theme of protein modification via acetylation. This is complemented by metabolic/biosynthetic terms (mycothiol, glucosamine, melatonin biosynthesis, and leaf formation regulation), pointing to a broader link between acetylation and metabolic regulation, possibly across plant-associated processes. Some terms appear obsolete or tangential (e.g., angiogenesis), likely reflecting GO annotation noise, but the central signal remains acetylation and related metabolism. ","confidence":"Medium","size":23,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":15},{"id":"GO:0010125","count":13},{"id":"GO:0009447","count":13},{"id":"GO:0017198","count":13},{"id":"GO:0043967","count":13}]},{"hash":"451727459053985453","title":"Nuclear RNA processing and transcription regulation","description":"This cluster is dominated by spliceosome-related terms (mRNA splicing via spliceosome; snRNP assembly) and transcription termination, plus nuclear import and P-body assembly, pointing to a core role in RNA processing and nuclear gene expression control. While there are also terms related to DNA replication, cell-cycle regulation, and plant stress responses (ABA, water deprivation), the strongest signal is RNA processing and transcription regulation in the nucleus.","confidence":"High","size":23,"edges":170,"triangles":628,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045292","count":5},{"id":"GO:0000387","count":5},{"id":"GO:0070317","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0009190","count":4}]},{"hash":"2183680328267526770","title":"Bacterial lipid biosynthesis and secondary metabolism","description":"The top GO terms skew toward fatty acid biosynthesis, long-chain fatty acid import, and lipoteichoic acid biosynthesis, suggesting lipid metabolism and Gram-positive cell-wall processes. Additional terms for antibiotic biosynthesis, bioluminescence, and retinal/retinol metabolism point to secondary metabolism and related energy pathways in bacteria, supporting a theme around lipid biosynthesis linked to secondary metabolite production. ","confidence":"Medium","size":23,"edges":124,"triangles":327,"max_degree":16,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0017000","count":6},{"id":"GO:0006633","count":6},{"id":"GO:0042574","count":5},{"id":"GO:0042572","count":5}]},{"hash":"1553075091613661735","title":"Central carbon metabolism and amino acid catabolism","description":"The cluster centers on core energy pathways, with GO terms for glycolysis, the TCA cycle, and 2-oxoglutarate metabolism, plus catabolic processes for leucine and alanine, pointing to central carbon metabolism and amino acid breakdown. The inclusion of biotin and porphyrin precursor biosynthesis suggests accompanying cofactor and pigment biosynthetic activities that often accompany metabolic networks. Confidence: High","confidence":"","size":23,"edges":226,"triangles":1308,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006099","count":9},{"id":"GO:0055114","count":7},{"id":"GO:0006103","count":7},{"id":"GO:0006096","count":7},{"id":"GO:0006552","count":5}]},{"hash":"1382213899772432671","title":"Cerebellar neural development and glial differentiation","description":"This cluster centers on nervous system development with a strong emphasis on cerebellar contexts: cerebellar cortex formation, Bergmann glial cell differentiation, neuron development, and Notch signaling\u2014together pointing to cerebellar neural development and glial maturation. While there are a few broader metabolic or immune-related terms (insulin receptor signaling, T cell receptor signaling) in the mix, the core signals converge on cerebellar neural development.","confidence":"High","size":23,"edges":15,"triangles":10,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007219","count":5},{"id":"GO:0021697","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0008285","count":5},{"id":"GO:0048679","count":5}]},{"hash":"765004530014659541","title":"Post-transcriptional mRNA processing and translation control","description":"This cluster centers on post-transcriptional RNA processing (splicing, polyadenylation) and regulation of translation (preinitiation complex formation, IRES-driven initiation) plus ncRNA/miRNA-mediated silencing. Even though some GO terms are marked obsolete, they reflect a cohesive theme of mRNA maturation and translational regulation shared by the proteins. ","confidence":"High","size":23,"edges":64,"triangles":39,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:1900363","count":4},{"id":"GO:1905663","count":3},{"id":"GO:0001731","count":3},{"id":"GO:1901407","count":3}]},{"hash":"2202104131849360789","title":"Actin Cytoskeleton Remodeling and Adhesion Signaling","description":"The cluster centers on actin dynamics and cell adhesion processes\u2014filopodium formation, actin filament branching, podosome assembly, and substrate-dependent cell spreading\u2014driven by small GTPase signaling. Immune and polarity-related signaling (T cell receptor, ephrin receptor, epithelial polarity) suggest integration of cytoskeletal remodeling with signaling pathways in immune and epithelial contexts. This combination points to a cohesive theme of actin-driven remodeling coordinating adhesion and signaling.","confidence":"High","size":23,"edges":37,"triangles":20,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090162","count":7},{"id":"GO:0071803","count":7},{"id":"GO:0007264","count":7},{"id":"GO:1900026","count":6},{"id":"GO:0090135","count":6}]},{"hash":"1034877742745697318","title":"Integrin signaling and actin cytoskeleton remodeling","description":"This cluster shows strong enrichment for integrin-mediated signaling, cortical actin cytoskeleton organization, and regulation of Rho signaling, stress fibers, and cytoskeletal reorganization, indicating a cohesive module of adhesion-related signaling and cytoskeletal dynamics. Bone mineralization and growth hormone receptor signaling terms appear but do not override the central cytoskeletal/adherence theme.","confidence":"High","size":23,"edges":169,"triangles":846,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":3},{"id":"GO:0030866","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0030500","count":3},{"id":"GO:0031532","count":3}]},{"hash":"1218280196262571345","title":"Dopaminergic neural signaling and cocaine response","description":"The cluster shows strong enrichment for neural signaling features, including dopaminergic synaptic transmission, ERK pathway activity in neurons, GTPase regulation, and behavioral responses to cocaine, along with associated visual perception and learning terms. While heart development and visual perception appear as terms, the recurring neural and drug-response themes point to dopamine-driven neural signaling and cocaine-related behavior as the core function of the group. Confidence: Medium","confidence":"","size":23,"edges":103,"triangles":178,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":16},{"id":"GO:0010759","count":15},{"id":"GO:0070374","count":15},{"id":"GO:0007601","count":15},{"id":"GO:0001963","count":15}]},{"hash":"985007920124719606","title":"Mitosis and cell division","description":"The top GO terms are dominated by mitotic processes (mitotic cell cycle, mitotic spindle assembly, cell division) and chromatin localization, indicating the proteins likely function together in chromosome segregation and cell-cycle progression. Some terms relate to cell polarity and cytoskeleton rearrangement, which can accompany division, while outliers like ascospore formation and viral RNA replication do not override the overall mitotic theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030437","count":3},{"id":"GO:0016311","count":3},{"id":"GO:0010719","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1834285303670810362","title":"Glycosphingolipid transport and metabolism","description":"The top GO terms cluster around ceramide transport, glycosphingolipid metabolic process, glycolipid transport, and ER-to-Golgi ceramide transport, pointing to a core theme of glycosphingolipid handling and membrane lipid trafficking. Additional transport-related terms (organic cation, ammonium, polyol transmembrane transport) support a broader membrane transport function, while stress granule assembly and defense response to bacterium are less central. Thus the label reflects the central lipid-transport/metabolic role of the cluster.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034063","count":2},{"id":"GO:0009816","count":2},{"id":"GO:0035621","count":2},{"id":"GO:0015695","count":2},{"id":"GO:0006687","count":2}]},{"hash":"1151435495971239030","title":"Unknown","description":"The top GO terms span glycosylation, immune defense and leukocyte migration, neuronal development, epigenetic regulation, and ribosome biogenesis. The set does not point to a single cohesive biological function or pathway, making a confident, representative label unreliable.","confidence":"","size":23,"edges":33,"triangles":15,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0042355","count":3},{"id":"GO:0097150","count":3},{"id":"GO:0021799","count":3}]},{"hash":"802765423126254812","title":"Neuronal Membrane Trafficking and Cytoskeleton Remodeling","description":"This cluster centers on membrane dynamics and cytoskeletal remodeling: endocytosis (including caveolin-mediated and its regulation), membrane invagination and tubulation, and filopodium/actin cortical patch assembly, plus coordinated protein localization at adherens junctions and neuron development, with a note on membrane-associated ion transport. Collectively, these terms point to a membrane trafficking and remodeling program, likely relevant to neuronal contexts.","confidence":"Medium","size":23,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051044","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0046847","count":2},{"id":"GO:0000147","count":2},{"id":"GO:1904703","count":2}]},{"hash":"1264716817303647145","title":"Neuronal signaling and survival pathways","description":"The GO terms cluster around neuronal signal transduction and survival: Wnt signaling and ERK cascade regulation point to neuronal signaling and plasticity; responses to mechanical stimuli and dopamine indicate neural signal processing; regulation of neuron apoptotic processes, along with engulfment of apoptotic cells, suggests neuron\u2013glia interactions and survival mechanisms. This combination supports a coherent theme of neuronal signaling paired with cell-survival and cleanup processes.","confidence":"Medium","size":23,"edges":5,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0043547","count":3}]},{"hash":"861570357307584658","title":"Oxidative Stress and Inflammation Regulation","description":"The cluster centers on detoxification and redox defense (cellular oxidant detoxification; glutathione metabolism), DNA repair (nucleotide-excision repair), and stress responses (response to starvation, toxin catabolic processes). It also includes prostaglandin biosynthesis and recurrent signals that dampen inflammatory pathways (negative regulation of TNF signaling, MCP-1 production, and ERK cascade), suggesting a coordinated role in protecting against oxidative/dna damage while modulating inflammatory signaling.","confidence":"Medium","size":23,"edges":208,"triangles":1275,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":10},{"id":"GO:0006289","count":9},{"id":"GO:0042594","count":9},{"id":"GO:0009407","count":8},{"id":"GO:0006749","count":8}]},{"hash":"2294339818565282162","title":"Lipid Metabolism and Immune Regulation","description":"This cluster\u2019s top GO terms include prostaglandin catabolic process, glucuronoside catabolic process, and biotin biosynthetic process, which highlight metabolic handling of lipids and small molecules. The presence of macrophage-derived foam cell differentiation further emphasizes a lipid-immune context. While there are also proteolysis and transcription regulation terms, the lipid metabolism and macrophage-related signals seem to be the most coherent theme across the cluster, justifying a label centered on lipid metabolism intertwined with immune regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019391","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0010742","count":3}]},{"hash":"1071981337601243531","title":"Unknown","description":"The top GO terms are highly diverse and span plant-specific (stamen formation, chlorophyll biosynthetic process) and mammalian processes (blood coagulation, complement activation) as well as general cellular functions (ubiquitin-dependent proteolysis, proteasome assembly, cell migration/adhesion). With no edges connecting proteins, there isn\u2019t a single coherent function tying the cluster together, so a specific, representative label can\u2019t be justified.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0048455","count":5},{"id":"GO:0006511","count":5},{"id":"GO:0043248","count":5},{"id":"GO:0015995","count":5}]},{"hash":"384604191201308503","title":"Lipid, pigment, and cofactor biosynthesis","description":"This cluster shows strong enrichment for diverse biosynthetic processes, including lipid biosynthesis (sphingolipids), polymer biosynthesis (poly-hydroxybutyrate), pigment formation (melanin, retinoic acid) and cofactor biosynthesis (tetrahydrobiopterin). While there are related regulatory and stress-response terms, the dominant theme is multiple biosynthetic pathways spanning lipids, pigments, and cofactors, supporting a label focused on biosynthesis.","confidence":"Medium","size":23,"edges":89,"triangles":145,"max_degree":17,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":15},{"id":"GO:0046677","count":13},{"id":"GO:0042619","count":12},{"id":"GO:0008209","count":12},{"id":"GO:0002138","count":12}]},{"hash":"746116684970868099","title":"Immune Activation and Angiogenesis","description":"The top GO terms show strong signals for immune responses (complement activation via the lectin pathway, adaptive immune response, cellular response to fungal origin) and vascular remodeling processes (angiogenesis, endothelial cell migration, platelet activation, vasoconstriction, cartilage condensation, ERK signaling). This pattern suggests proteins involved in immune activation that are tightly linked to vascular development and remodeling. The label captures the co-occurring immune and angiogenic processes without overcommitting to a single, narrower function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0071226","count":10},{"id":"GO:0001867","count":9},{"id":"GO:0001525","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0043536","count":9}]},{"hash":"125701969819361217","title":"Mitochondrial Metabolism and Stress Signaling","description":"The top GO terms cluster around mitochondrial functions: membrane fission, iron import into the mitochondrion, NAD and phosphate transporter activities, and responses to oxidative stress. Also present are signals tied to cellular energy status (amino acid starvation response and insulin secretion regulation in response to glucose). Together, these terms suggest a cohesive focus on mitochondrial metabolism, transport, and stress signaling.","confidence":"Medium","size":23,"edges":20,"triangles":0,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0034198","count":11},{"id":"GO:0035435","count":11},{"id":"GO:0061179","count":10},{"id":"GO:0048250","count":10},{"id":"GO:0000303","count":10}]},{"hash":"831366306060767118","title":"Neuropeptide signaling and feeding behavior","description":"The top terms cluster around neuropeptide signaling, appetite regulation, eating and locomotory behavior, and serotonin receptor signaling, suggesting a neuroendocrine network that modulates feeding and movement. Despite one retina development term appearing, the dominant theme is GPCR/neuropeptide\u2013driven behavioral regulation, with appetite and locomotion as core features.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":14},{"id":"GO:0042493","count":14},{"id":"GO:0042755","count":13},{"id":"GO:0007626","count":13},{"id":"GO:0032100","count":13}]},{"hash":"1634007388613573882","title":"Ribosome biogenesis and rRNA processing","description":"This cluster is dominated by terms for large subunit ribosome assembly, LSU rRNA maturation and export, indicating it mainly contains ribosome biogenesis factors. A few outliers (e.g., cuticle-related processes) are present but do not change the core theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902626","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0000466","count":1},{"id":"GO:0000027","count":1}]},{"hash":"1672823778713057077","title":"Neural development and neurotransmitter signaling","description":"Top terms show brain-related development (thalamus development, adenohypophysis development, perineurial glial growth) and neurotransmission activities (glycinergic synaptic transmission, serotonin uptake, dopamine catabolic process). While a term like proline transport is peripheral, the overall pattern supports a neural development and synaptic signaling theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043066","count":2},{"id":"GO:0021794","count":1},{"id":"GO:1903346","count":1},{"id":"GO:0021984","count":1},{"id":"GO:0015824","count":1}]},{"hash":"2282436617846788538","title":"Neuronal Synaptic Receptor Trafficking and Ion Transport","description":"The top GO terms converge on neuronal signaling and membrane dynamics: receptor internalization and recycling point to synaptic receptor trafficking, while excitatory postsynaptic potential and regulation of short-term synaptic plasticity highlight neuronal communication. Ion transport terms for potassium and sodium further support a role for neuronal membrane channels. Some terms (bone development, gluconeogenesis regulation, mitotic cell cycle) are broader or less specific to neurons, but the dominant theme is synaptic signaling and receptor regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001919","count":2},{"id":"GO:0031623","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2}]},{"hash":"1255673850215003642","title":"Unknown","description":"The top GO terms span glycosylation/proteoglycan biosynthesis, reproductive development and lactation, wound healing, infection structure formation, and neural development, with no single biological theme tying them together. Because the terms reflect diverse, tissue-specific processes rather than a cohesive pathway or function, there is no clear functional label for this cluster.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018146","count":4},{"id":"GO:0006808","count":2},{"id":"GO:0005989","count":2},{"id":"GO:0060054","count":2},{"id":"GO:0075015","count":2}]},{"hash":"1059471485042407832","title":"Developmental Gene Expression and Splicing","description":"The top GO terms cluster around broad development across tissues (multicellular organism development, forebrain/retina/brain development, male gonad development) together with core gene expression processes (DNA-templated transcription, mRNA splicing) and protein complex formation (homooligomerization). This suggests a set of proteins involved in developmental regulation coupled with basic transcription/splicing machinery, rather than a single, narrowly defined pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0060041","count":3}]},{"hash":"2291440542106068350","title":"Embryonic organ development and morphogenesis","description":"Multiple top GO terms cluster around embryonic development across several organs (eye, heart, lung, pituitary) and growth processes, with transcriptional regulation terms suggesting these proteins act as regulators of developmental programs. This coherence across diverse organ systems supports a label focused on embryonic organogenesis and developmental regulation.","confidence":"High","size":22,"edges":29,"triangles":2,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":9},{"id":"GO:0048048","count":8},{"id":"GO:0021983","count":7},{"id":"GO:0006366","count":7},{"id":"GO:0006355","count":6}]},{"hash":"1163897019836619118","title":"Embryonic and Neural Development","description":"This cluster shows strongest signals for developmental processes\u2014pituitary gland development, in utero embryonic development, and neuron maturation\u2014along with positive regulation of stem cell proliferation. While there are also stress/immune-related terms (response to xenobiotic stimulus, lipopolysaccharide) and redox homeostasis, the dominant theme appears to be embryonic and neural development, including neural maturation and stem cell growth. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":10},{"id":"GO:0007568","count":9},{"id":"GO:0042493","count":9},{"id":"GO:0071320","count":9},{"id":"GO:0032496","count":9}]},{"hash":"787265008849575537","title":"Unknown","description":"The GO terms span apoptosis, various embryonic development processes (in utero development, placenta-related differentiation, neuron and pancreatic development), and diverse stress responses (ethanol, fungicide, LPS), with no single cohesive function tying all proteins together. The lack of edges and a unifying theme makes a precise, meaningful label unreliable, so I\u2019m labeling this cluster Unknown.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":5},{"id":"GO:0045471","count":4},{"id":"GO:0060992","count":4},{"id":"GO:0001701","count":4},{"id":"GO:0045654","count":4}]},{"hash":"2020721720148616314","title":"ERAD and ubiquitin-mediated protein quality control","description":"This cluster is dominated by GO terms tied to ubiquitin-dependent ER-associated degradation (ERAD), protein deubiquitination, and related protein processing like deglycosylation, pointing to a core function in protein quality control and turnover in the endoplasmic reticulum. While there are related terms touching on trafficking and repair, the strongest, most consistent signal is ERAD/ubiquitin-regulation of misfolded or damaged proteins. ","confidence":"High","size":22,"edges":176,"triangles":884,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:0016579","count":6},{"id":"GO:0030474","count":6},{"id":"GO:1903071","count":6},{"id":"GO:0006289","count":6}]},{"hash":"1304129219588639145","title":"Neural development and synaptic signaling","description":"Based on the prevalence of terms related to nervous system and brain development, along with synaptic transmission (GABAergic), and vesicle docking/apical localization, the cluster appears to reflect proteins involved in neural development and neuronal synaptic trafficking. While there are a few terms related to keratinization, ossification, and other processes, the strongest and most consistent signal is neural development and GABAergic synaptic signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0043931","count":2},{"id":"GO:0031424","count":2},{"id":"GO:0045176","count":2},{"id":"GO:0051932","count":2}]},{"hash":"1167596473018230841","title":"Biosynthesis and transcription regulation","description":"The cluster shows enrichment for multiple biosynthetic processes (poly-hydroxybutyrate, sphingolipid, melanin, retinoic acid, tetrahydrobiopterin) and metabolic activities (androgen metabolism/catabolism), plus a term for regulation of DNA-templated transcription. This pattern points to a set of proteins involved in diverse biosynthetic pathways with coordinated transcriptional regulation, rather than a single specific pathway. ","confidence":"Medium","size":22,"edges":85,"triangles":176,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0006355","count":7},{"id":"GO:0042619","count":5},{"id":"GO:0008209","count":5},{"id":"GO:0002138","count":5}]},{"hash":"475506010234566655","title":"Neural Development and Transcription Regulation","description":"The cluster is dominated by GO terms for transcriptional regulation and developmental processes, notably brain and spinal cord development, with additional tissue development terms (skin, prostate gland). This suggests the proteins share roles in controlling gene expression during neural development, rather than a single biochemical pathway. Some terms also touch on DNA replication/cell cycle, which may reflect housekeeping or proliferation-related functions that accompany development. Overall, the cohesive theme is developmental transcriptional control with emphasis on neural tissues.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0060770","count":3}]},{"hash":"108748158446113287","title":"RNA splicing and translation regulation","description":"The top GO terms cluster around spliceosome-mediated RNA processing (mRNA splicing, spliceosome, regulatory ncRNA silencing) and control of translation initiation/translation-related silencing (IRES-dependent initiation, miRNA-mediated silencing), indicating a post-transcriptional regulation theme spanning RNA processing to translation.","confidence":"High","size":22,"edges":7,"triangles":1,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006376","count":5},{"id":"GO:1905663","count":4},{"id":"GO:0001731","count":4},{"id":"GO:1901407","count":4},{"id":"GO:0035278","count":4}]},{"hash":"675308454088013007","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":46,"triangles":18,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0043278","count":3},{"id":"GO:0045842","count":3},{"id":"GO:0006458","count":3},{"id":"GO:0097428","count":3}]},{"hash":"475020102234096119","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3}]},{"hash":"657877708050778587","title":"Neurodevelopmental and apoptotic signaling cluster","description":"Top GO terms indicate a mix of developmental and neural signaling roles (forebrain development; multicellular organism development; skeletal system development; long-term synaptic potentiation) together with regulation of cell survival and death (mitotic cell cycle; positive regulation of apoptotic process; apoptotic cell clearance). The convergence on development and neural signaling, with apoptosis control, suggests a module involved in neurodevelopmental pathways and remodeling processes rather than a single pathway.","confidence":"Medium","size":22,"edges":13,"triangles":0,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":8},{"id":"GO:0007275","count":7},{"id":"GO:0030900","count":6},{"id":"GO:0043065","count":6},{"id":"GO:0043277","count":6}]},{"hash":"531951091789095913","title":"Neuronal synaptic signaling and ion transport","description":"This cluster is topically centered on nervous system development, glutamatergic synaptic transmission, postsynaptic density organization (PSD-95 clustering), and potassium ion transport, all pointing to neuronal communication and excitability. Some terms about ossification or nephron development may be broader developmental signals or cross-tissue associations, but the dominant theme is neural signaling and ion channel\u2013related function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0098911","count":2},{"id":"GO:0071805","count":2},{"id":"GO:1902897","count":1},{"id":"GO:1902355","count":1}]},{"hash":"268013429520871075","title":"Neural and cardiac development","description":"The top GO terms cluster around nervous system development and related neural processes (nervous system development, neuron migration, positive regulation of synapse assembly, visual perception) along with heart development (heart development, regulation of atrial cardiac muscle cell membrane depolarization). There are additional embryonic skeletogenic terms (cranial skeleton morphogenesis) that fit within a broad embryonic development theme. A single innate immune term may be an outlier. Overall, the cluster appears to reflect coordinated neurodevelopment and cardiogenesis during embryogenesis.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0001764","count":4},{"id":"GO:0051965","count":4}]},{"hash":"1926024247540939926","title":"Regulated vesicle exocytosis and signaling","description":"The cluster centers on processes that regulate vesicle trafficking and exocytosis, as evidenced by synaptic vesicle priming and exocytosis terms, acrosome reaction, and brain development. The presence of signaling pathway terms (Rho and Ras) supports cytoskeletal and vesicle dynamics regulation across neural, reproductive, and other contexts, with some immune-related exocytosis (neutrophil degranulation) appearing as related. Overall, a cohesive theme is regulation of vesicle trafficking/exocytosis and linked signaling.","confidence":"Medium","size":22,"edges":5,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:0043314","count":7},{"id":"GO:0016082","count":7},{"id":"GO:0035023","count":7},{"id":"GO:0060313","count":7}]},{"hash":"2242565811236585577","title":"Unknown","description":"The top GO terms span neuronal development, cell adhesion, and synapse assembly, but also bacterial metabolism (poly-hydroxybutyrate biosynthesis), sporulation, tRNA modification, cocaine response, and transcriptional regulation. This broad, cross-kingdom mix lacks a single cohesive function, so a unified, intuitive label isn\u2019t supported.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0042619","count":3},{"id":"GO:0007157","count":3},{"id":"GO:0001764","count":3},{"id":"GO:0051965","count":3}]},{"hash":"2009588877720343624","title":"TNF/TGF-\u03b2 Innate Immune Signaling","description":"This cluster is dominated by GO terms for innate immune response, TNF-mediated signaling, and cellular responses to TGF-\u03b2, indicating a core theme of inflammatory cytokine signaling and defense against pathogens. While there are a few development-related terms, the prominent pattern centers on TNF/TGF-\u03b2\u2013linked innate immune pathways and NF-kappaB signaling, justifying a label focused on immune signaling with these cytokines.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0033209","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0007275","count":3}]},{"hash":"1586212009777991631","title":"Unknown","description":"The GO terms are highly diverse, spanning ubiquitination, neuronal development, signal transduction, epithelial-mesenchymal transitions, stress responses, muscle regeneration, mechanosensory pain detection, SNARE regulation, and telomere maintenance/localization. There isn't a single cohesive function or pathway linking these terms, so a precise, representative label cannot be assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0003198","count":2},{"id":"GO:0071446","count":2}]},{"hash":"427820864033529507","title":"Embryonic development and tissue morphogenesis","description":"The top GO terms point to processes in embryonic development, differentiation, and morphogenesis across tissues (placental/extraembryonic differentiation, EMT in heart development, left-right patterning, cartilage formation, endocrine system development, and PNS development). Apoptosis and transcriptional regulation further support a broad developmental program rather than a single pathway, suggesting these proteins function in diverse developmental contexts.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060707","count":2}]},{"hash":"1137125070720464244","title":"Steroid Hormone and Prostaglandin Biosynthesis","description":"These proteins are enriched for GO terms tied to steroid hormone production (androgen, aldosterone) and prostaglandin biosynthesis, plus female gonad development, suggesting a lipid/hormone biosynthetic module. While there are some xenobiotic catabolic terms and a few unrelated developmental prompts, the dominant signal is toward hormone biosynthesis and signaling pathways.","confidence":"Medium","size":22,"edges":15,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":8},{"id":"GO:0001516","count":8},{"id":"GO:0010760","count":7},{"id":"GO:0008209","count":7},{"id":"GO:2001037","count":7}]},{"hash":"1479204707197111740","title":"Unknown","description":"The top GO terms are highly diverse, spanning signaling (ERK cascade, protein binding), transcription, neuronal terms (glutamatergic transmission, excitatory potential, touch perception), development (cartilage condensation), and immune/stress responses, with no edges connecting the proteins. This lack of a cohesive functional theme and network connectivity makes it unclear what single shared function defines the cluster.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032092","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0071226","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001502","count":3}]},{"hash":"1386752001872099736","title":"Bone formation and cranial skeletal development","description":"The cluster is dominated by osteoblast differentiation and cranial skeletal system development, pointing to a core bone-forming and craniofacial morphogenesis theme. Additional terms like cell migration and calcium signaling (mitochondrial calcium, ER calcium regulation) fit the signaling and morphogenesis milieu typical of skeletal development, while vascular endothelial migration and ciliary motility reflect related developmental processes that often accompany bone formation. Overall, the strongest coherent function is bone formation and cranial skeletal development, with supportive signaling and motility aspects.","confidence":"High","size":22,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043536","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0015991","count":2},{"id":"GO:0060296","count":2},{"id":"GO:0051561","count":2}]},{"hash":"584180046802719298","title":"Cytoskeletal remodeling and filopodium assembly","description":"An explanation: The dominant GO terms point to actin-driven protrusions and cell shape changes, with multiple entries for filopodium assembly and its regulation, plus related processes like mating projection growth, cell spreading, and response to mechanical stimuli. This suggests a coherent cluster of proteins involved in cytoskeletal remodeling and formation of filopodia and polarized structures, with ubiquitination as a regulatory layer. Some apoptosis terms appear incidental to the broader cytoskeletal theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051489","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0043524","count":2}]},{"hash":"2109740763823379685","title":"Plasma membrane amino acid transporters","description":"This cluster's terms are dominated by imports of amino acids and related metabolites across the plasma membrane (arginine, ornithine, methionine, lysine, D-alanine, GABA, carnitine). This points to a cohesive function in amino acid and small-molecule transport at the cell surface. A couple of outliers (transcription regulation and nitric oxide production) may reflect multifunctional proteins or annotation noise, but the transport theme is clear.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0097638","count":1},{"id":"GO:0097640","count":1},{"id":"GO:0044690","count":1},{"id":"GO:1902274","count":1}]},{"hash":"1431986108068631811","title":"Membrane mechanotransduction and actin remodeling","description":"The GO terms point to sensing mechanical cues at the plasma membrane, calcium signaling, actin filament bundle assembly, and endocytic processes (pinocytosis), all of which fit a common theme of membrane-initiated signaling coupled to cytoskeletal remodeling. Maintenance of protein localization at the membrane and fat cell differentiation provide context but are less central to the core theme. Overall, the cluster seems to reflect membrane mechanotransduction coupled to cytoskeletal dynamics, potentially in adipocyte biology.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0072660","count":5},{"id":"GO:0043488","count":5},{"id":"GO:0045444","count":5},{"id":"GO:0006397","count":5}]},{"hash":"1089432070852219868","title":"Developmental Processes Across Tissues","description":"This cluster is dominated by GO terms related to development across multiple tissues (forebrain, skeletal system, multicellular organism development) with supporting signals such as GTPase regulation and neural-related plasticity, suggesting a general theme of developmental biology and broad cellular signaling rather than a single specific pathway.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0007568","count":5},{"id":"GO:0030900","count":4},{"id":"GO:0060528","count":4},{"id":"GO:0001501","count":4},{"id":"GO:0031915","count":4}]},{"hash":"253426714039987767","title":"Steroid biosynthesis and angiogenic signaling","description":"The cluster is enriched for androgen metabolism and testosterone biosynthesis terms, paired with VEGF production and VEGF signaling regulation, and endothelial morphogenesis/BMP response terms, suggesting a theme where steroid biosynthesis-related enzymes intersect with vascular development signaling. Epoxygenase P450 and proteoglycan catabolic terms further support lipid signaling and ECM remodeling linked to angiogenesis, while a glycinergic synaptic term may reflect broader annotation overlap. Overall, the core theme appears to be steroid production accompanying vascular/angiogenic signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":3},{"id":"GO:0061370","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0060012","count":3},{"id":"GO:0019373","count":3}]},{"hash":"1740631079891387222","title":"Unknown","description":"The GO terms are spread across ubiquitin-dependent proteolysis, muscle differentiation, B cell signaling, dendritic cell differentiation, nervous system development, immune responses, and renal morphogenesis, with no single dominant function tying the proteins together. There are no edges or obvious interactions to suggest a cohesive pathway, so a specific functional label cannot be confidently assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0035914","count":9},{"id":"GO:0050853","count":9},{"id":"GO:2001200","count":8},{"id":"GO:0045496","count":8}]},{"hash":"1126321538539538229","title":"Ubiquitination-Linked Cell Cycle Regulation","description":"The top GO terms are dominated by protein ubiquitination and cell cycle processes, pointing to roles in tagging regulatory proteins and controlling cell division. Additional terms touch on RNA processing and protein localization, suggesting supportive functions in post-transcriptional regulation and trafficking, but the strongest signals center on ubiquitin-mediated regulation and cell cycle control.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":6},{"id":"GO:0007049","count":6},{"id":"GO:0032088","count":6},{"id":"GO:0072660","count":5},{"id":"GO:0043488","count":5}]},{"hash":"1743957055386585549","title":"Neural signaling and phototransduction","description":"This cluster centers on neuronal communication and sensory signaling: ion transport (Na+, K+, Ca2+), excitatory postsynaptic potentials, and calcium dynamics underpin synaptic transmission, while phototransduction and opsin-mediated signaling point to retina-associated signaling. The inclusion of long-term memory and responses to amphetamine hints at broader brain neurotransmission and plasticity. Overall, the proteins likely participate in neural signaling with a retina/visual-processing emphasis.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007616","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0006816","count":4},{"id":"GO:0001975","count":4},{"id":"GO:0060079","count":4}]},{"hash":"2142927806283391686","title":"Adhesion and Signaling in Development","description":"The top terms point to cell-cell adhesion, various signaling pathways (GPCR, Fc receptor regulation), and processes in neural and vascular development (neuron migration, angiogenesis, synapse assembly, blood pressure regulation), along with immune regulation. The mix across immune, neural, and vascular processes, combined with no explicit shared pathway (edges), suggests a broad set of adhesion- and signaling-related proteins involved in development rather than a single cohesive pathway.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":2},{"id":"GO:0043031","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0010579","count":2},{"id":"GO:0001764","count":2}]},{"hash":"1272962304938587927","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning translation initiation (preinitiation complex formation, translational initiation, IRES-dependent initiation) and RNA processing (alternative splicing), with several unrelated terms (copper ion import, gravity detection, thyroid hormone generation, bone resorption). There is no clear, single functional theme uniting these terms, and no evident interaction pattern among the proteins, so the cluster cannot be given a specific cohesive function label. ","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0045794","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0000380","count":2}]},{"hash":"1670238246955357462","title":"Unknown","description":"The top GO terms span diverse organ developmental processes (heart, lung connective tissue, bone, nipple morphogenesis, metanephric glomerulus) and immune/inflammatory responses (defense against virus, innate and inflammatory). There is no single unified function or pathway that ties these terms together, and the lack of edges suggests no cohesive interaction pattern. Therefore a single, confident descriptive label cannot be assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0060427","count":2},{"id":"GO:0060658","count":2},{"id":"GO:0072224","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1050548945240558525","title":"Glycinergic signaling and monoamine uptake","description":"The cluster\u2019s top GO terms center on neural signaling, especially glycinergic synaptic transmission and uptake of monoamines like dopamine and serotonin, plus related catabolic processes. Although there are developmental terms (thalamus and adenohypophysis development), the shared theme among the proteins appears to be neurotransmitter transport and glycinergic synaptic signaling in the nervous system.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021794","count":3},{"id":"GO:1903346","count":3},{"id":"GO:0021984","count":3},{"id":"GO:0015824","count":3},{"id":"GO:1905847","count":3}]},{"hash":"1289327851917813383","title":"Immune-angiogenesis-neural signaling cluster","description":"The proteins cluster around signaling processes that link immune responses, blood vessel growth, and neural communication (ERK signaling, IL-6 response, synaptic transmission). This suggests a general theme of immune-vascular-neural signaling rather than a single narrow function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0070374","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0048701","count":2}]},{"hash":"589004646636205179","title":"TLR/LPS signaling and endocytosis","description":"This cluster is dominated by GO terms tied to innate immune recognition and signaling (TLR and LPS pathways, MyD88-independent signaling), cytokine regulation, and receptor-mediated endocytosis, suggesting proteins involved in sensing pathogens and internalizing ligands. The presence of oxidative stress (response to hydrogen peroxide) and cortisol response supports an overall stress-immune regulatory theme, while a couple of kidney development and amyloid-related terms appear ancillary or annotation-driven rather than core to the group.","confidence":"Medium","size":21,"edges":39,"triangles":18,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1990000","count":2},{"id":"GO:0042542","count":2},{"id":"GO:0006898","count":2},{"id":"GO:0051414","count":2},{"id":"GO:0050707","count":2}]},{"hash":"1321169050253609695","title":"Neuroimmune signaling and neural development","description":"The cluster\u2019s top GO terms span immune and inflammatory signaling (chemokine production, NF-kappaB activation, defense against Gram-positive bacteria) alongside neural development processes (oligodendrocyte differentiation, axonogenesis). This pattern suggests proteins involved in neuroimmune communication and its impact on neural development, rather than a single narrow function. Some terms are broader (cell cycle, mechanotransduction), but the pairing of chemokine regulation with neural differentiation points to a neuroimmune development theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0071651","count":3},{"id":"GO:2000340","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0048709","count":3}]},{"hash":"114636071108692205","title":"Actin Cytoskeleton Remodeling and Cell Motility","description":"Most of the top GO terms relate to actin-based structures and processes (filopodium and podosome assembly, actin cytoskeleton reorganization) and to cell movement and remodeling (cell motility, engulfment of apoptotic cells). Additional terms point to GTPase regulation and centrosome localization, all consistent with coordinated cytoskeletal dynamics during development and signaling. Therefore this label best captures the cluster.","confidence":"High","size":21,"edges":80,"triangles":115,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:1904179","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0071300","count":3},{"id":"GO:0060292","count":3},{"id":"GO:0051660","count":3}]},{"hash":"2052689003826292777","title":"Developmental and Cell Cycle Regulation","description":"The cluster\u2019s top GO terms are dominated by mitotic cell cycle, DNA replication, and DNA-templated transcription, with several development-related terms (forebrain, skeletal system, multicellular organism development) indicating differentiation programs. Additional terms reflect stress/immunity and apoptotic signaling, which can intersect with developmental regulation and proliferative control. Overall, the proteins appear linked to cell proliferation and developmental processes, with stress response as a secondary layer.","confidence":"High","size":21,"edges":5,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":14},{"id":"GO:0006351","count":13},{"id":"GO:0006260","count":12},{"id":"GO:0030900","count":12},{"id":"GO:0001403","count":12}]},{"hash":"1773007458032296501","title":"RNA Processing and Translational Initiation","description":"The dominant GO terms cluster around mRNA splicing via the spliceosome and initiation of translation (formation of the preinitiation complex, IRES-dependent initiation, and regulation of translational initiation). This points to a cohesive theme of RNA processing and control of protein synthesis. While terms for transcription and mitotic cell cycle appear, they are less central to the cluster\u2019s core signal.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0075525","count":3},{"id":"GO:0006446","count":3}]},{"hash":"1834531075463989732","title":"Ribosome Biogenesis and Translation","description":"The cluster is enriched for multiple ribosome-related GO terms, including ribosomal biogenesis, ribosome assembly, export of ribosomal subunits and mRNA export, and translation. This pattern signals a cohesive group of proteins involved in making and using ribosomes, i.e., protein synthesis. Some non-ribosomal terms (kinetochore localization, cell morphogenesis, lipid biosynthesis) may reflect broader cellular context but do not override the core ribosome-focused signal.","confidence":"High","size":21,"edges":124,"triangles":341,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042273","count":4},{"id":"GO:0000056","count":4},{"id":"GO:0006406","count":4},{"id":"GO:0006412","count":4},{"id":"GO:0034501","count":3}]},{"hash":"1376076836712797656","title":"Neuronal excitability and synaptic signaling","description":"Top terms center on excitatory synaptic signaling (EPSP regulation, prepulse inhibition) and potassium transport, indicating neuronal excitability; other terms imply oxidative stress and endocrine regulation that may accompany neural signaling within this cluster.","confidence":"Medium","size":21,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000463","count":2},{"id":"GO:0060134","count":2},{"id":"GO:0071805","count":2},{"id":"GO:2000379","count":1},{"id":"GO:2000609","count":1}]},{"hash":"888492681862837181","title":"Protein dephosphorylation signaling","description":"This cluster is dominated by GO terms related to phosphatase activity and dephosphorylation (peptidyl-serine dephosphorylation, dephosphorylation of RNA Pol II CTD, positive regulation of phosphoprotein phosphatase activity) and signaling cascades such as calcineurin-NFAT, which points to phosphatase-mediated regulation of signaling and cell cycle. Some tissue differentiation terms (lens fiber, skeletal muscle development) may reflect downstream or context-specific roles of these phosphatases.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032516","count":4},{"id":"GO:0070306","count":4},{"id":"GO:0043029","count":3},{"id":"GO:0051533","count":3},{"id":"GO:0000082","count":3}]},{"hash":"1927976030629077417","title":"Post-transcriptional RNA processing and translation control","description":"The cluster centers on spliceosome-mediated splicing and its regulation (alternative splicing, negative regulation of splicing) and on translation initiation and RNA silencing (formation of translation preinitiation complex, IRES-dependent initiation, miRNA- and ncRNA-mediated silencing). This combination indicates a cohesive post-transcriptional regulatory module affecting mRNA maturation and translation.","confidence":"Medium","size":21,"edges":57,"triangles":25,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000380","count":3},{"id":"GO:1905663","count":2},{"id":"GO:0001731","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0035278","count":2}]},{"hash":"276129237607130491","title":"Membrane Transporters and Signaling Regulators","description":"This cluster centers on proteins involved in transmembrane transport of nutrients (biotin, myo-inositol, pantothenate, glucose) and sodium export, plus components linked to acetylcholine biosynthesis and broader signaling regulation (GTPase activity, STAT phosphorylation, apoptotic signaling). The mix suggests a membrane-associated group that combines transport functions with regulatory signaling, potentially related to neuronal or sensory signaling processes. Confidence: Medium","confidence":"","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2001241","count":2},{"id":"GO:0042518","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0015878","count":1},{"id":"GO:0015798","count":1}]},{"hash":"661796642809273006","title":"Unknown","description":"The terms are spread across neurodevelopment (lateral ventricle development), RNA biology (tRNA/mRNA/rRNA-related processes and snRNA transcription), signaling (cellular response to cAMP), ion transport (potassium transmembrane transport), secretion, and kidney functions (glomerular filtration, transepithelial water transport), with no clear single function dominating and no network connections among proteins. This breadth prevents a coherent, specific label beyond Unknown.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021670","count":3},{"id":"GO:0030488","count":3},{"id":"GO:0071805","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0070476","count":2}]},{"hash":"951331203116007776","title":"Coagulation and fibrinolysis","description":"The top terms are dominated by blood coagulation, regulation of fibrinogen, plasminogen activation, and fibrinolysis, with supportive terms like Factor XII activation and lectin pathway complement activation, plus smooth muscle cell migration linked to vascular remodeling. A single digestion term is present but does not redefine the cluster's core; overall the proteins appear to cluster around coagulation pathways and their regulation, including clot breakdown and immune cross-talk. This label is representative and specific to the dominant function.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030194","count":6},{"id":"GO:0007586","count":5},{"id":"GO:0044537","count":5},{"id":"GO:0051919","count":5},{"id":"GO:0014909","count":5}]},{"hash":"1745074753959609997","title":"Embryonic development and morphogenesis","description":"This set of proteins is enriched for GO terms tied to early development: mesoderm formation, placenta and trophoblast differentiation, palate and left-right patterning, endocardial cushion EMT, and hair follicle morphogenesis, indicating roles in embryogenesis and organogenesis. The spliceosome term suggests gene expression regulation, but the strongest signal is developmental morphogenesis across tissues, supporting this label.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060021","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0003198","count":4}]},{"hash":"1690950779503446793","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0001824","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0045454","count":2}]},{"hash":"424283947276914825","title":"Unknown","description":"The top GO terms are highly heterogeneous (translation, TCA cycle, antibiotic response, lipid transport and biosynthesis, lipoteichoic acid biosynthesis, plant-specific seed germination and phenylpropanoid metabolism, bioluminescence), spanning bacteria, plants, and general metabolism. There is no clear, single functional theme tying these proteins together, so a cohesive label cannot be assigned. ","confidence":"","size":21,"edges":15,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0009698","count":1}]},{"hash":"661645641634061261","title":"Unknown","description":"The top GO terms span RNA editing, various nucleotide catabolic/metabolic processes, isoprenoid biosynthesis, and DNA repair regulation, with no dominant shared function or cohesive pathway, and there are no observed interactions among proteins, so a clear cluster theme cannot be inferred.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006382","count":1},{"id":"GO:0006203","count":1},{"id":"GO:0050992","count":1},{"id":"GO:2000781","count":1},{"id":"GO:0019677","count":1}]},{"hash":"229456595490042361","title":"Epithelial Polarity and Cytoskeletal Trafficking","description":"Top GO terms point to actin filament bundle assembly, COPII-coated vesicle cargo loading, and establishment of epithelial cell polarity, with supporting signals for cell migration and various signaling pathways. This suggests a cluster of proteins coordinating cytoskeletal dynamics, vesicle trafficking, and epithelial polarity rather than a single specific process, hence the label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":2},{"id":"GO:0090110","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0090162","count":2},{"id":"GO:0060368","count":2}]},{"hash":"1042284369109482987","title":"Golgi trafficking in neurons","description":"This cluster is dominated by GO terms for Golgi organization and vesicle transport between the ER and Golgi, plus Golgi-to-plasma membrane transport and protein localization to the Golgi, with supporting neuronal terms such as dendritic spine morphogenesis and brain development. The proteins likely function in Golgi\u2013dependent trafficking and membrane targeting in neurons.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007030","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0061001","count":2},{"id":"GO:0007420","count":2}]},{"hash":"370150753661475209","title":"Lipid biosynthesis and membrane transport","description":"This cluster is dominated by lipid-related processes: unsaturated fatty acid biosynthesis, regulation of ergosterol biosynthesis, and sphingolipid/inositol lipid metabolism, along with a membrane transport function (potassium ion transmembrane transport). The presence of a neural/myelin maintenance term and mitochondrial inheritance appears peripheral to the core lipid/membrane theme, suggesting a primary link to membrane biology and lipid metabolism with some secondary associations. Confidence: Medium","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":2},{"id":"GO:0006636","count":2},{"id":"GO:0000001","count":2},{"id":"GO:0001949","count":2},{"id":"GO:0006809","count":2}]},{"hash":"901956267167495136","title":"GPCR Signaling and Downstream Responses","description":"This cluster is dominated by GO terms linked to G protein-coupled receptor signaling and its downstream pathways, including GPCR internalization, modulation of adenylate cyclase (both activation and inhibition), Rho signaling, and responses mediated by GPCR ligands such as serotonin, adrenergic, and prostaglandin. Additional terms like mucus secretion and opsin signaling point to broader GPCR-driven physiological processes (immune, vascular, and sensory). The common thread appears to be GPCR-mediated signal transduction and its immediate downstream effectors.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":18},{"id":"GO:0007198","count":18},{"id":"GO:0070963","count":18},{"id":"GO:0002031","count":18},{"id":"GO:0071799","count":18}]},{"hash":"63881007495916539","title":"Unknown","description":"The proteins show a broad mix of GO terms (endocytosis, GPCR internalization, phototransduction, transcription, dopaminergic synaptic signaling, chemokine regulation, adipose development, Rho signaling) with no single shared pathway, and the cluster has no edges or connections, so there isn\u2019t a cohesive function to name.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072583","count":1},{"id":"GO:0060613","count":1},{"id":"GO:0032092","count":1},{"id":"GO:0032226","count":1},{"id":"GO:0032695","count":1}]},{"hash":"1239813559851903779","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":12,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0006879","count":2},{"id":"GO:0010040","count":2},{"id":"GO:0006121","count":2}]},{"hash":"1675221275965959674","title":"Neural development with ECM remodeling and immune signaling","description":"The top GO terms cluster around neural development (myelination, positive regulation of synapse assembly, otolith morphogenesis) alongside extracellular matrix processes (collagen fibril organization) and immune/inflammatory signaling (defense against Gram-positive bacteria, IL-8 production, LPS-mediated signaling). This suggests a broader theme where neural development intersects with ECM dynamics and immune responses, rather than a single, cohesive pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014068","count":6},{"id":"GO:0042552","count":6},{"id":"GO:0031663","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0016525","count":5}]},{"hash":"495992953540475392","title":"Angiogenesis and vascular signaling regulators","description":"This cluster centers on vascular biology and signaling, with GO terms for angiogenesis regulation (positive and negative), endothelial cell migration, vasoconstriction, platelet aggregation, and signaling pathways (ERK, Rho) plus cell adhesion and an adaptive immune component, suggesting coordinated vascular remodeling and signaling rather than a single static function.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090331","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0043536","count":5},{"id":"GO:0002250","count":5},{"id":"GO:0045907","count":5}]},{"hash":"1655422159929029145","title":"GPCR-mediated inflammatory and mucosal signaling","description":"This cluster is driven by GO terms centered on G protein-coupled receptor signaling (serotonin, adrenergic, opsin pathways; GPCR internalization) and downstream inflammatory/mucosal responses (positive regulation of IL-8 production, mucus secretion, prostaglandin response, neutrophil killing of bacteria), with related signal transduction such as Rho and vascular/heart tissue differentiation. The shared theme is GPCR-mediated signaling coordinating immune, mucosal, and vascular functions. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000484","count":18},{"id":"GO:0070257","count":17},{"id":"GO:0007198","count":17},{"id":"GO:0070963","count":17},{"id":"GO:0002031","count":17}]},{"hash":"417808403026378153","title":"Platelet activation and vascular inflammation","description":"The top GO terms cluster around platelet activation, blood coagulation, inflammatory response, and vasoconstriction, suggesting a module focused on platelet-driven coagulation and vascular inflammatory signaling. Additional terms point to signaling pathways (ERK cascade, GTPase activity) and transcriptional control, indicating a broader regulatory cluster. The retina development term appears less directly connected and may reflect multifunctionality of the proteins.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0045907","count":3}]},{"hash":"1151305137376000730","title":"Lysosome-related vesicle trafficking and SNARE regulation","description":"GO terms cluster around lysosome targeting, endosome-to-lysosome transport, vacuole fusion, vesicle tethering, and SNARE complex regulation, indicating a shared role in lysosome-related vesicle trafficking and fusion. The presence of eye pigment granule organization reinforces the link to lysosome-like organelles (LROs), suggesting involvement in LRO biogenesis rather than general signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006622","count":3},{"id":"GO:0042144","count":3},{"id":"GO:0071901","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0035556","count":3}]},{"hash":"1262409015581205515","title":"Unknown","description":"The top terms span diverse biology domains (neurotransmitter secretion, angiogenesis regulation, collagen fibril organization, various metabolic processes across kingdoms, and bioluminescence) with no unifying function. The cluster has no edges, suggesting the proteins are not functionally connected, so there is no coherent label beyond Unknown. ","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0007269","count":5},{"id":"GO:0009234","count":4},{"id":"GO:0016525","count":3},{"id":"GO:0045766","count":3}]},{"hash":"766682624279314384","title":"Spinal cord neural development and neuron migration","description":"The top GO terms cluster around nervous system development, especially spinal cord development and neuron migration (ventral spinal cord development, lateral motor column neuron migration, CNS development), with supporting signals of embryonic development and synaptic maturation (NMDA receptor regulation). A few cell cycle/DNA biosynthesis terms are present but appear secondary to the neural development theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0030324","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0070212","count":2}]},{"hash":"2034649271055389504","title":"Mammary gland development and lactation genes","description":"The cluster shows enrichment for lactation and mammary gland epithelial cell proliferation, suggesting a core theme around mammary gland biology. Transcriptional regulation terms (DNA-templated transcription, negative regulation of RNA Pol II) and signaling-related terms (regulation of insulin receptor signaling) further support a coordinated transcriptional control of mammary development and lactation, with ancillary stress/xenobiotic responses likely representing regulatory or contextual signals. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007595","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0019086","count":3}]},{"hash":"451311112590661616","title":"Unknown","description":"The cluster contains GO terms spanning immune response to lipopolysaccharide, response to mechanical stimulus, regulation of mitochondrial depolarization, bone resorption inhibition, Sertoli cell proliferation, negative regulation of protein kinase activity and cell cycle progression, odontogenesis, and fibroblast proliferation. This dispersion across immune, developmental, and signaling contexts suggests no single unifying function or pathway. Therefore I cannot assign a coherent functional label.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0051901","count":2},{"id":"GO:0045779","count":2},{"id":"GO:0060011","count":2}]},{"hash":"80089492418420120","title":"Craniofacial and neural development","description":"The top GO terms are dominated by developmental processes: face morphogenesis, cartilage condensation, and spinal cord development, with related perineurial glial growth. This suggests a shared theme of embryonic craniofacial and nervous system development, with additional terms like lipid metabolism and apoptosis representing less central or broader regulatory roles. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":2},{"id":"GO:0042994","count":2},{"id":"GO:0048147","count":2},{"id":"GO:0043651","count":2},{"id":"GO:0001953","count":2}]},{"hash":"2174723679050139628","title":"Developmental Signaling and Morphogenesis","description":"The proteins are linked to embryonic and neural development, including hedgehog signaling (Smoothened), neuron migration, axon region localization, and various morphogenetic processes (branching, ossification, embryonic development). While a few terms relate to immune function or taste, the dominant pattern points to development and tissue morphogenesis.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007224","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0071205","count":2},{"id":"GO:0002175","count":2}]},{"hash":"1372428961452401950","title":"Multicellular development and tissue differentiation","description":"The top GO terms cluster around developmental processes across tissues (multicellular organism development, lens fiber differentiation, paraxial mesoderm development, megakaryocyte development) and tissue organization (cell-cell adhesion, synapse organization). Calcium signaling and muscle stretch response hint at signaling regulation during differentiation. Although complement activation is present, the common theme appears to be broad development and structural tissue differentiation rather than a single pathway, supporting a label focused on developmental and tissue differentiation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035584","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0035855","count":2}]},{"hash":"1351568342707247337","title":"Unknown","description":"The GO terms cover aging, GTPase regulation, cell division, apoptosis, DNA repair, actin dynamics, proliferation, brain development, cellular fusion, and vesicle trafficking; this mix shows no clear, single functional signature for the cluster. Therefore a confident, cohesive label cannot be assigned.","confidence":"","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0006284","count":3}]},{"hash":"1470839079529853306","title":"Neurodevelopment and Visual System Signaling","description":"The terms cluster around brain and retina development, visual perception, and neurotransmission (GABAergic, dopamine), with regulation of synaptic transmission and related locomotor and myotome development, indicating a cohesive theme of neural development and visual system function.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0032228","count":3}]},{"hash":"1970492630548792951","title":"Cell-cycle regulation and multisystem signaling","description":"The top GO terms center on core cell-cycle processes (DNA replication, mitotic cell cycle, kinetochore localization) but also include a mix of signaling-related terms from neural (long-term synaptic potentiation, excitatory postsynaptic potential, potassium transport) and immune contexts (T cell receptor signaling, cellular response to lipopolysaccharide). This pattern suggests a cluster of proteins involved in cell-cycle control with broader signaling roles across neural and immune systems, justifying a combined label.","confidence":"Medium","size":20,"edges":50,"triangles":49,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":12},{"id":"GO:0046827","count":12},{"id":"GO:0043065","count":11},{"id":"GO:0060291","count":11},{"id":"GO:0034501","count":11}]},{"hash":"831438487777598156","title":"Decidualization-Associated ECM Remodeling and Hormone Response","description":"This cluster centers on processes linked to decidualization and extracellular matrix remodeling, as seen in collagen and bone catabolic activities, plus hormonal signaling (thyroid hormone response) and inflammatory/immune activity (T cell cytotoxicity, neuropeptide catabolism). The combination suggests reproductive tissue remodeling in response to hormonal cues, with matrix turnover and related signaling pathways driving endometrial preparation.","confidence":"Medium","size":20,"edges":134,"triangles":444,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0010813","count":12},{"id":"GO:0001913","count":12},{"id":"GO:0045453","count":12},{"id":"GO:0097067","count":12},{"id":"GO:0046697","count":12}]},{"hash":"1020180934861759586","title":"Dopaminergic Synaptic Transmission and Neuronal Excitability","description":"This cluster centers on neuronal signaling: action potential, regulation of nerve impulse, and various synaptic transmission terms (including dopaminergic), along with potassium ion transport and inhibitory postsynaptic potentials. These together point to proteins involved in neuronal communication and excitability. A few terms like acrosome reaction or ethanol response are outliers but do not dominate the theme.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0001508","count":2},{"id":"GO:0043200","count":2},{"id":"GO:2000344","count":2},{"id":"GO:0071805","count":2}]},{"hash":"71174493485885996","title":"Developmental growth and cell division","description":"The cluster is driven by terms related to developmental processes (brain development, multicellular growth) and core cell cycle events (mitotic spindle assembly, mitotic cell cycle, cell division, cell population proliferation). Vesicle trafficking (COPII budding, Golgi-to-ER transport) appears to support growth-related secretion, while Roundabout signaling adds a developmental signaling layer. Overall, the dominant theme is developmental growth intertwined with cell division machinery.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:0050852","count":6},{"id":"GO:0008283","count":6},{"id":"GO:0090307","count":6},{"id":"GO:0006890","count":6}]},{"hash":"41282999560281079","title":"ncRNA-mediated gene silencing and RNA processing","description":"The top terms cluster around regulatory ncRNA-mediated and miRNA-mediated gene silencing, splicing and translation initiation, indicating a coherent function in RNA-level gene expression control, with development-related terms suggesting a role during organismal development. Some actin-related terms appear but do not undermine the RNA-centric theme.","confidence":"High","size":20,"edges":186,"triangles":1072,"max_degree":19,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0045010","count":3},{"id":"GO:1905663","count":2},{"id":"GO:0001731","count":2}]},{"hash":"367933042507398172","title":"Embryonic Development and Morphogenesis","description":"The top GO terms point to broad developmental processes across multiple tissues\u2014embryonic patterning (left-right formation), organogenesis (EMT in heart cushion formation, cartilage morphogenesis, endocrine system development), placental/trophoblast development, and pancreatic cell development. The presence of positive regulation of GTPase activity fits signaling events that drive cell movement, adhesion, and morphogenesis. Together, these terms indicate a cohesive theme of developmental differentiation and tissue morphogenesis rather than a single specialized function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060972","count":3}]},{"hash":"113439338787088429","title":"Neural signaling and sensory perception","description":"The cluster is dominated by terms related to neuronal signaling, sensory processing, and plasticity (visual perception and learning, dopaminergic synaptic transmission, pain perception, cocaine response, ERK/MAPK signaling, and protein phosphorylation), suggesting a cohesive theme of neural activity and responsiveness. A few outlier terms (macrophage chemotaxis, heart development, prostaglandin signaling) reflect broader signaling roles but do not outweigh the neural focus.","confidence":"Medium","size":20,"edges":71,"triangles":124,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010759","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0007507","count":13},{"id":"GO:0001963","count":13}]},{"hash":"575907288508917867","title":"Organellar energy metabolism and translation","description":"This cluster shows strong signals for energy production pathways in organelles (mitochondrial respiration, electron transport, TCA cycle, ubiquinone biosynthesis) and chloroplast-associated processes (light-independent chlorophyll biosynthesis), along with translation- and ribosome-related functions (tRNA wobble modification, translation, N-terminal peptidyl-alanine trimethylation) and biotin biosynthesis. The common theme is metabolic activity and protein synthesis within organelles, reflecting mitochondria and chloroplast-associated functions, with occasional links to cellular stress responses like senescence.","confidence":"Medium","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0002098","count":3},{"id":"GO:0006744","count":3},{"id":"GO:0009060","count":3},{"id":"GO:0006121","count":2},{"id":"GO:0006099","count":2}]},{"hash":"1284820988711996779","title":"Cholinergic Synaptic Transmission and Vesicle Exocytosis","description":"The terms cluster around neuronal signaling and vesicle cycling\u2014sensory perception of sound, synaptic vesicle exocytosis, presynaptic endocytic budding, and GPCR-mediated acetylcholine signaling\u2014suggest a cohesive module of cholinergic synaptic transmission and vesicle trafficking, with membrane lipid remodeling supporting vesicle dynamics.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0009395","count":2},{"id":"GO:1990504","count":2},{"id":"GO:0016185","count":2}]},{"hash":"365859012036493064","title":"Vertebrate brain and eye development","description":"This cluster\u2019s top GO terms cluster around vertebrate neural and sensory organ formation, including brain and forebrain development, neural tube closure, retina and lens fiber differentiation, and pituitary gland development, suggesting a cohesive theme of neural/ocular development. There are a few broader or unrelated terms (e.g., defense response, single fertilization, male gonad development) that may reflect general annotations, but the dominant signal points to neural and ocular ontogeny.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0021983","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0030900","count":2}]},{"hash":"577803995566434422","title":"Insulin Signaling Regulation and Glucose Uptake","description":"The top GO terms center on insulin receptor dynamics and signaling (internalization, negative regulation of insulin signaling) as well as negative regulation of glucose import and PI3K/AKT signaling, suggesting a core theme of modulating insulin-driven glucose handling. Some terms like embryonic digit morphogenesis or zonula adherens assembly appear tangential, but the insulin-related terms collectively support this label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038016","count":1},{"id":"GO:0046325","count":1},{"id":"GO:0042733","count":1},{"id":"GO:0046627","count":1},{"id":"GO:0051898","count":1}]},{"hash":"553043255345822975","title":"Neuronal cytoskeleton and mitochondrial dynamics","description":"The terms point to processes in neurons, including cytoskeletal organization (microtubule bundle formation), dendrite morphogenesis, synaptic localization and calcium signaling, and mitochondrial dynamics (fission, membrane potential) with mention of neurofibrillary tangles, suggesting a cohesive theme of neuronal structure and mitochondrial-synaptic regulation.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001578","count":2},{"id":"GO:1903748","count":1},{"id":"GO:0048813","count":1},{"id":"GO:1902856","count":1},{"id":"GO:0050848","count":1}]},{"hash":"2194487923359181814","title":"Retina development and opsin signaling","description":"This cluster centers on visual perception and retina development (camera-type eye), with supporting terms for opsin-mediated signaling, GPCR internalization, and Rho/GTPase signaling, suggesting photoreceptor signaling and retinal maturation; ubiquitination may reflect receptor turnover.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0016567","count":2},{"id":"GO:0060770","count":2}]},{"hash":"120124462020684481","title":"Neuronal signaling and excitability","description":"The top GO terms cluster around neuronal activity: startle response, regulation of nerve impulse transmission, dopaminergic synaptic transmission, action potential, and ion transport (calcium and potassium) that underlie neuronal excitability. Additional terms about circadian sleep/wake regulation and responses to ethanol reflect modulation of neural circuits and behavioral states, suggesting a cohesive theme of neurons actively signaling and adapting to neuromodulatory cues.","confidence":"High","size":20,"edges":13,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001964","count":14},{"id":"GO:0098703","count":14},{"id":"GO:0045188","count":14},{"id":"GO:0071805","count":13},{"id":"GO:0001508","count":12}]},{"hash":"657257676018811554","title":"Dendritic spine morphogenesis and membrane trafficking","description":"The cluster is enriched for neuronal morphogenesis, especially dendritic spine development and morphogenesis, and involves Rac-mediated actin remodeling (Rac signaling, ruffle assembly). It also includes membrane trafficking processes between the Golgi, plasma membrane, and endosomes, reflecting dynamic membrane remodeling required for spine growth. Although some cell-cycle terms appear, the dominant theme centers on neuronal spine formation and trafficking rather than cell division.","confidence":"Medium","size":20,"edges":102,"triangles":196,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0048227","count":3},{"id":"GO:0016601","count":3},{"id":"GO:0045792","count":3}]},{"hash":"496093386966116778","title":"Ciliary Hedgehog Signaling in Development","description":"The GO terms point to developmental processes (skeletal, palate morphogenesis) and signaling components linked to cilia and Hedgehog signaling (cilium assembly, Smoothened pathway), suggesting a theme of developmental signaling with ciliary involvement. Some renal angiotensin terms appear as outliers but do not define the main theme. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0048705","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060021","count":2}]},{"hash":"538368932879959361","title":"Transmembrane Nutrient and Ion Transporters","description":"The top GO terms are dominated by various transmembrane transport processes (biotin, myo-inositol, glucose, pantothenate transport, and sodium ion export), indicating a coherent theme of membrane transport for small molecules and ions. A few non-transport terms appear but do not outweigh the transporter signal. Overall, these proteins likely function as transporters rather than enzymes or regulators.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015878","count":2},{"id":"GO:0015798","count":2},{"id":"GO:0008292","count":2},{"id":"GO:1904659","count":2},{"id":"GO:0015887","count":2}]},{"hash":"338577955665288608","title":"Unknown","description":"The GO terms are highly diverse (viral process, DNA replication, cortisol response, B cell chemotaxis, mechanical stimulus response, angiogenesis regulation, retinal axon guidance, luteolysis-related apoptosis, etc.) with no single shared function or pathway. The network has no edges to reveal a cohesive cluster theme, so there isn\u2019t a clear representative label beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0035754","count":2}]},{"hash":"762922019216966789","title":"Ubiquitin-Dependent Protein Turnover and NF-\u03baB Signaling","description":"This cluster centers on ubiquitination-related functions: ubiquitin-dependent protein catabolic process, polyubiquitination (including K6- and K63-linked), and general protein ubiquitination with autoubiquitination. It also shows links to signaling pathways influenced by ubiquitination, notably canonical NF-\u03baB activation and TNF-mediated signaling, with additional hints of circadian rhythm regulation and histone turnover through ubiquitin pathways. The shared theme is ubiquitin-mediated protein modification and turnover affecting signaling and chromatin-associated processes.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0085020","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0043123","count":5},{"id":"GO:0070534","count":5}]},{"hash":"1762988975910160910","title":"GPCR Signaling and Ca2+ Release","description":"This cluster is dominated by G protein-coupled receptor signaling terms (dopamine/serotonin receptor pathways, GPCR internalization, prostaglandin response) and by release of sequestered Ca2+ into the cytosol, linking signaling to vascular regulation and mucosal/immune outputs. The electron transport chain term is less central here but may reflect energy needs of signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":14},{"id":"GO:0022900","count":13},{"id":"GO:0010579","count":13},{"id":"GO:0007195","count":13},{"id":"GO:0045777","count":13}]},{"hash":"1484378489200477737","title":"Lipid metabolism and adipose regulation","description":"This cluster is dominated by GO terms tied to lipid metabolism and lipid transport (ether lipid, retinol/vitamin A, phosphatidylcholine/phosphatidylethanolamine metabolism, N-acylphosphatidylethanolamine, and positive regulation of lipid transport) and includes adipose tissue development regulation, suggesting a shared function in lipid handling and fat tissue biology. A few outliers (cellular response to lead ion, opioid receptor signaling regulation, protein secretion) are present but less central. Therefore, a label focusing on lipid metabolism and adipose regulation best captures the core theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046485","count":2},{"id":"GO:0042572","count":1},{"id":"GO:0006653","count":1},{"id":"GO:0006776","count":1},{"id":"GO:0070292","count":1}]},{"hash":"1689165953346979882","title":"Diverse Biosynthetic Pathways","description":"These proteins collectively show enrichment for a variety of biosynthetic and metabolic processes, including antibiotic biosynthesis, poly-hydroxybutyrate synthesis, sphingolipid and retinoic acid biosynthesis, tetrahydrobiopterin biosynthesis, androgen metabolism, and regulation of transcription. The broad, multi-pathway nature suggests a general biosynthetic/metabolic role rather than a single, unified function for the cluster. Note that one top term is an obsolete GO term, which may reflect annotation drift rather than a meaningful biology signal. ","confidence":"Low","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0046677","count":5},{"id":"GO:0042619","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0008209","count":4}]},{"hash":"2086214629183323574","title":"Immune signaling and inflammation","description":"Based on the prominent GO terms, the proteins collectively relate to immune activation and inflammatory signaling, including canonical NF-kappaB signal transduction and regulation of TGF-beta receptor signaling, as well as germinal center formation. While some terms touch on DNA-related processes or differentiation, the strongest cohesive theme is immune-related signaling and inflammatory responses. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030511","count":2},{"id":"GO:1902043","count":2},{"id":"GO:0010832","count":2},{"id":"GO:0032508","count":2},{"id":"GO:1990683","count":2}]},{"hash":"1235598454132858564","title":"Polarity, ciliogenesis, and axon guidance cluster","description":"The top GO terms point to microtubule-based processes: spindle orientation, cilium assembly, and axon extension, which together reflect cellular polarity and microtubule organization. Other Terms (transcription, proteolysis, metabolism, immune signaling) appear but do not dominate, so the core theme is polarity/structure rather than a single specific pathway. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000132","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060271","count":2}]},{"hash":"1073741989086698215","title":"Unknown","description":"The cluster's terms cover RNA metabolism (regulation of mRNA stability, mRNA processing) alongside diverse processes related to differentiation, membrane trafficking, mechanotransduction, and calcium signaling. With no strong functional cohesion and no network edges, there isn't a single clear theme tying these proteins together, so the appropriate label is Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043488","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0072660","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0006397","count":2}]},{"hash":"1013831739967914976","title":"Histone methylation and nucleosome assembly","description":"Most top GO terms point to histone methylation at several lysines (H4-K20, H3-K4, H3-K27, H3-K9) and to nucleosome assembly, indicating chromatin modification and packaging as the cluster's core function; minor glycan trimming and catabolic terms appear incidental.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034773","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0098532","count":2},{"id":"GO:0036124","count":2},{"id":"GO:0006334","count":2}]},{"hash":"1195963850544678715","title":"Calcium-Driven Signaling and Membrane Regulation","description":"Top GO terms cluster around calcium release into cytosol, vascular and neuronal signaling, membrane protein localization, and mechanical-stimulus responses, suggesting a core theme of calcium-dependent signal transduction and its effects on membrane dynamics and gene regulation. Some peripheral terms (RNA processing, adipogenesis) may reflect broader regulatory roles. Confidence: Medium","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0051209","count":4},{"id":"GO:0045907","count":3},{"id":"GO:0051968","count":3},{"id":"GO:0072660","count":3},{"id":"GO:0043488","count":3}]},{"hash":"875869735587495783","title":"Mechanotransduction and Innate Immunity","description":"The cluster's top GO terms cluster around cellular responses to mechanical stimulus and responses via NOD1/NOD2 signaling, with related immune signaling (IL-12 regulation) and NF-kappaB-related activity. This points to proteins involved in transmitting mechanical cues and activating innate immune pathways, alongside broader signaling roles at the membrane and in apoptosis. Thus, a label reflecting both mechanotransduction and innate immune signaling seems most representative.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072660","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0035994","count":6},{"id":"GO:0045083","count":6},{"id":"GO:0070427","count":6}]},{"hash":"353227936282569127","title":"Unknown","description":"The top GO terms span adipocyte differentiation, cardiac electrical activity, GPCR signaling, labyrinthine morphogenesis, and general RNA/protein processing; there is no single cohesive function linking these terms, and the cluster has no edges to support a shared pathway. Therefore, Unknown is the most appropriate label.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0060670","count":3},{"id":"GO:0072660","count":2}]},{"hash":"1932643746471973737","title":"Neuronal signaling and synaptic plasticity","description":"The set of GO terms highlights calcium ion transport, excitatory postsynaptic potential, sensory perception of touch, long-term memory, male mating behavior, and positive regulation of ERK signaling and serine phosphorylation. These point to neural signaling, synaptic activity, and activity-dependent plasticity as the cluster\u2019s core. A few terms, such as innate immune response or cell wall macromolecule catabolic process, are less typical for neurons and may reflect annotation breadth or cross-functional proteins, but they do not dominate the cluster.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006816","count":2},{"id":"GO:0016998","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0050975","count":2},{"id":"GO:0060179","count":2}]},{"hash":"336343829183159677","title":"Muscle and cardiovascular development and regeneration signaling","description":"The proteins are dominated by terms related to skeletal muscle regeneration, heart-field\u2013specific Notch signaling, ephrin signaling, and endothelial sprouting angiogenesis, suggesting a theme around muscle/heart development and vascular regeneration. Some terms touch on broader processes (pain perception, telomere maintenance, cytokine regulation) but the core cluster centers on developmental signaling for muscle and cardiovascular tissues.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050966","count":2},{"id":"GO:0071446","count":2},{"id":"GO:0043403","count":2},{"id":"GO:0032212","count":2},{"id":"GO:1901594","count":2}]},{"hash":"2065431138773064763","title":"Cytoskeleton dynamics and microtubule transport","description":"The cluster shows a balance of terms tied to cytoskeleton regulation (regulation of cytoskeleton organization, GTPase activity) and microtubule-based movement, plus specific transport roles (intracellular transport of viral material toward the nucleus). Developmental terms like neuron projection morphogenesis and spermatid development reflect cytoskeletal remodeling in differentiation, while entries about symbiont/virus interactions hint at cytoskeleton-mediated trafficking. Altogether, the dominant theme is cytoskeleton dynamics and microtubule-dependent transport.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0075521","count":1},{"id":"GO:0007399","count":1}]},{"hash":"1664003523579118816","title":"Unknown","description":"The top GO terms describe a mix of retina development, pain perception, cell proliferation, metabolism, autophagy, and ion transport, with no single dominant function tying the proteins together. The cluster also has no edges, indicating a lack of connectivity that would support a cohesive biological theme.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0002024","count":3},{"id":"GO:0071502","count":3}]},{"hash":"2020116836520713563","title":"Central carbon metabolism and energy generation","description":"Top terms point to glycolysis, TCA cycle, fatty acid beta-oxidation, and amino acid catabolism, with supporting menaquinone and related biosynthetic processes; together they indicate core carbon metabolism and energy generation in bacteria, with some secondary metabolite responses.","confidence":"High","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":6},{"id":"GO:0042853","count":6},{"id":"GO:0006096","count":6},{"id":"GO:0017000","count":5},{"id":"GO:0042493","count":4}]},{"hash":"1127540516333466355","title":"Neurodevelopment and Embryogenesis","description":"The top GO terms are dominated by neural development (midbrain development, peripheral nervous system neuron development, trigeminal ganglion development) and embryogenic processes (primitive streak formation, single fertilization), indicating a cohesive theme around neural formation and early development, with a few additional organ-development signals that are less central. Confidence in this label is high given the clear neural and embryonic emphasis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030901","count":6},{"id":"GO:0007338","count":5},{"id":"GO:0090009","count":5},{"id":"GO:0048935","count":5}]},{"hash":"953757506151205056","title":"Membrane Ion Transport and Sensory Perception","description":"This cluster is dominated by GO terms for membrane transport of ions (sodium, potassium, chloride) across epithelia, pointing to membrane transport activity. The presence of sensory-related terms (visual perception and thermosensory behavior) suggests a possible link to sensory signaling that can involve ion fluxes. Other terms (peptidoglycan/cell wall catabolism, viral release, triglyceride catabolism) appear less connected to the core theme, indicating the cluster is somewhat heterogeneous. Overall, the main signal is ion transport with potential sensory roles, so the label captures the core function but with some noise.","confidence":"Low","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0030321","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0009253","count":3}]},{"hash":"1788836839345741157","title":"Steroid and Xenobiotic Metabolism","description":"Enriched GO terms center on metabolic processing of steroids and lipids (androgen metabolic process, aldosterone biosynthetic process, cholesterol catabolic process) and detoxification/catabolic pathways for xenobiotics (coumarin and dibenzo-p-dioxin catabolic processes, obsolete oxidative deethylation), plus environmental response (response to ozone). A few terms relate to tissue growth or differentiation, but the dominant theme is metabolism and chemical detoxification.","confidence":"Medium","size":19,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010760","count":15},{"id":"GO:0008209","count":15},{"id":"GO:2001037","count":15},{"id":"GO:0010193","count":15},{"id":"GO:0046226","count":15}]},{"hash":"1400866421710600442","title":"Neural crest migration and axon guidance","description":"GO terms indicate neural crest cell migration and multiple aspects of axon guidance and sympathetic nerve development, including semaphorin-plexin signaling, trigeminal nerve organization, axonal fasciculation, and sympathetic neuron projection guidance. This cohesive theme points to a cluster centered on neural crest\u2013derived cell migration and subsequent axon pathfinding in nervous system development.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903045","count":2},{"id":"GO:0007338","count":2},{"id":"GO:1902287","count":2},{"id":"GO:0036486","count":2},{"id":"GO:0021785","count":2}]},{"hash":"572547304427476075","title":"Neural and Visual Development with Membrane Potential Regulation","description":"This cluster shows strong representation of neural development and vision terms: retina development, visual perception, GABAergic interneuron migration in the cerebral cortex, and locomotory behavior, indicating roles in neural circuit formation and function. It also includes potassium ion transmembrane transport and regulation of membrane potential, pointing to neuronal excitability as a core shared mechanism. While there are a few metabolic transport terms (xylose, dehydroascorbic acid, fructose), they appear secondary to the neural/vision-related themes. Overall, the cluster seems to group proteins involved in neural development and visual processing with regulation of neuronal membrane potential.","confidence":"High","size":19,"edges":9,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0007507","count":3}]},{"hash":"882865875352816351","title":"Cytoskeleton remodeling and vesicle trafficking","description":"These GO terms cluster around cytoskeletal dynamics, vesicle transport/processing, and cell movement, from actin stress fiber assembly and spindle-kinetochore attachment to presynaptic active zone structure, phagosome acidification, and mast cell chemotaxis. Although some items touch on ribonucleolar localization or development, the dominant theme is intracellular transport and structural remodeling that underlies migration, endocytosis/phagocytosis, and synaptic organization.","confidence":"Medium","size":19,"edges":47,"triangles":26,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060661","count":11},{"id":"GO:0099139","count":11},{"id":"GO:1903215","count":11},{"id":"GO:0021831","count":11},{"id":"GO:0048790","count":11}]},{"hash":"1835929580594420905","title":"Opsin signaling and vesicle trafficking","description":"Reasoning: The most represented terms point to vision-related biology and synaptic function: visual perception, regulation of opsin-mediated signaling, and regulation of synaptic vesicle exocytosis/endocytosis. These together suggest a cluster centered on retina/neuronal signaling and vesicle dynamics. Other terms like mitotic cell cycle, ubiquitin-dependent ERAD, and ossification appear less coherent with this core theme and may reflect annotation noise or broader functions of some cluster members.","confidence":"Medium","size":19,"edges":8,"triangles":0,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0022400","count":2},{"id":"GO:1900242","count":2},{"id":"GO:2000300","count":2}]},{"hash":"209004669481151064","title":"Lectin-pathway innate immunity","description":"The top GO terms cluster around innate immune responses initiated by lectin receptors: complement activation via the lectin pathway, C-type lectin receptor signaling, leukocyte tethering/rolling, basophil activation, and cellular responses to fungal origin. This points to a cohesive theme of lectin-mediated immune activation and leukocyte recruitment. Some terms related to kidney morphogenesis may be annotation noise or pleiotropy, while oxidative stress-related senescence can accompany inflammatory states but is not central to the core theme.","confidence":"High","size":19,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":10},{"id":"GO:0001867","count":10},{"id":"GO:0050901","count":9},{"id":"GO:0071226","count":9},{"id":"GO:0002223","count":9}]},{"hash":"867011574577124803","title":"Cardiac electrical activity and temperature stress","description":"The GO terms show a strong signal for cardiac electrophysiology (cardiac muscle cell action potential, Purkinje cell depolarization, regulation of delayed rectifier potassium channels) along with temperature-related stress responses (diet-induced thermogenesis, cellular response to temperature, hypoxia). While other terms touch on development, immune homeostasis, and protein interactions, the most representative cluster theme is cardiac electrical activity intersecting with temperature/hypoxia stress, justifying a label focused on cardiac electrophysiology under stress.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002024","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0051262","count":4},{"id":"GO:0007275","count":4}]},{"hash":"2036547441038063002","title":"Hormone and xenobiotic metabolism","description":"This cluster centers on biosynthetic and catabolic processes for signaling hormones (prostaglandins, aldosterone, androgens) and xenobiotic compounds (coumarin, dioxins), with related regulatory and detoxification themes (methylation, ozone response). While a few terms touch immune regulation, the dominant pattern is metabolic processing of hormones and external compounds.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":5},{"id":"GO:0032259","count":5},{"id":"GO:0010760","count":4},{"id":"GO:0008209","count":4},{"id":"GO:2001037","count":4}]},{"hash":"1457453611926241284","title":"Neurodevelopment and organogenesis","description":"The top GO terms point to developmental processes across multiple organs, especially brain and nervous system development, plus other organ development and multicellular organism development. The presence of vesicle transport and exocytosis terms suggests active secretory processes aligned with tissue morphogenesis. Together, these indicate a cluster of proteins involved in developmental programs, particularly neurodevelopment and organogenesis.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:0006888","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0001501","count":4}]},{"hash":"1586975687796140673","title":"Platelet and vascular GPCR signaling","description":"Many top GO terms point to G protein-coupled receptor signaling and its downstream effects (adenylate cyclase pathways, GPCR internalization, Rho signaling) with additional emphasis on platelet activation, prostaglandin response, adrenergic signaling, and vascular smooth muscle differentiation. This suggests a cohesive theme of GPCR-driven signaling in platelet and vascular/immune contexts.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030168","count":6},{"id":"GO:0070257","count":5},{"id":"GO:0007198","count":5},{"id":"GO:0070963","count":5},{"id":"GO:0002031","count":5}]},{"hash":"714852084478500308","title":"Neural retina and glial signaling","description":"The top GO terms cluster around retina formation and phototransduction, astrocyte activation, Schwann cell development, and synaptic potentiation, all pointing to neural and glial development and signaling. Calcium- and calcineurin-NFAT\u2013dependent regulation appears central, supporting neuronal activity and communication. A couple of terms reference electrical coupling in cardiac tissue, but the core theme is neural development and signaling in retina and glia.","confidence":"Medium","size":19,"edges":17,"triangles":0,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097274","count":9},{"id":"GO:0090281","count":7},{"id":"GO:0010842","count":7},{"id":"GO:0051531","count":6},{"id":"GO:1901844","count":6}]},{"hash":"644593127818639889","title":"DNA-binding Transcription Regulation and Stress Response","description":"The cluster is centered on transcription control and DNA-binding activities, highlighted by terms like DNA-templated transcription and negative regulation of transcription by RNA polymerase II, plus positive regulation of DNA binding. Supporting terms include NF-kappaB signaling regulation and viral process, suggesting involvement in transcriptional regulation with immune/host-response context. A few terms also touch on protein repair and oxidative detoxification, indicating broader stress-response roles. Overall, the dominant theme appears to be transcriptional regulation at the DNA level, with ancillary stress-related functions.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043388","count":4},{"id":"GO:0006662","count":3},{"id":"GO:0016032","count":3},{"id":"GO:0000122","count":3},{"id":"GO:1903026","count":3}]},{"hash":"476475595301894466","title":"GTPase signaling and cytoskeletal remodeling","description":"The cluster\u2019s top GO terms point to regulation of GTPase activity (both positive and negative), and several cytoskeleton- and adhesion-related processes (filopodium and podosome assembly, cell spreading, polarity maintenance) as well as endocytosis and phagocytic engulfment, all of which are driven by cytoskeletal dynamics and Rho-family GTPase signaling. The inclusion of heart development and Wnt signaling reflects broader morphogenetic regulation that ties into cytoskeletal organization and cell movement. Taken together, the proteins likely function in modulating GTPase-driven cytoskeletal remodeling and cell morphology.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0007507","count":4},{"id":"GO:0071963","count":4},{"id":"GO:0006897","count":4},{"id":"GO:0043652","count":3}]},{"hash":"1161311187511380128","title":"Vesicle trafficking and exocytosis","description":"The GO terms cluster around membrane trafficking steps\u2014docking, tethering, and exocytosis\u2014with involvement in Golgi-to-vacuole transport, acrosome assembly, and secretory granule processes (platelet degranulation). This points to a cohesive theme of vesicle trafficking in secretory pathways, despite some transporter-specific terms that may be packaged in vesicles. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022615","count":2},{"id":"GO:0015758","count":2},{"id":"GO:0006896","count":2},{"id":"GO:0001675","count":2},{"id":"GO:0032229","count":1}]},{"hash":"663709390585775592","title":"Endosome sorting and MVB formation","description":"The top GO terms are dominated by multivesicular body (MVB) pathways, intralumenal vesicle formation, and endosome-to-lysosome transport, pointing to a cohesive function in endosomal sorting and MVB formation. Cell cycle terms appear but are secondary to the vesicle trafficking theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0071985","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0036258","count":3},{"id":"GO:0070676","count":3}]},{"hash":"1024082812973350105","title":"Diverse membrane transporters for xenobiotics and nutrients","description":"The top GO terms are all about transmembrane transport of a wide range of substrates, including vitamins, xenobiotics, sugars, ions, and related nutrients (e.g., vitamin and dehydroascorbic acid transport, potassium ion transport, D-xylose and nitrate transport, sialic acid transport). This strongly suggests a cluster of membrane transporter proteins specialized for moving diverse compounds across membranes.","confidence":"High","size":19,"edges":73,"triangles":163,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035461","count":15},{"id":"GO:0006855","count":15},{"id":"GO:0042891","count":13},{"id":"GO:0071805","count":13},{"id":"GO:0042908","count":13}]},{"hash":"2219967074706528279","title":"GPCR-Mediated Signaling and Mucus Secretion","description":"The top GO terms cluster around G protein-coupled receptor signaling and its regulation (including adenylate cyclase pathways and receptor internalization), together with positive regulation of mucus secretion and prostaglandin/opsin-related signaling. This suggests a cohesive function focused on GPCR-driven signaling that modulates secretion and related physiological responses, with ancillary immune and contractile pathways (Rho signaling, neutrophil activity, smooth muscle differentiation) linked to this signaling axis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":18},{"id":"GO:0007198","count":18},{"id":"GO:0070963","count":18},{"id":"GO:0002031","count":18},{"id":"GO:0071799","count":18}]},{"hash":"479121768944073811","title":"Suppression of inflammatory signaling and leukocyte activity","description":"The cluster\u2019s top GO terms are dominated by negative regulation of immune and inflammatory processes (TNF signaling, ERK cascade, leukocyte proliferation, neutrophil aggregation, monocyte chemoattractant protein-1 production). This suggests these proteins function together to dampen immune signaling and leukocyte activity, with additional terms pointing to related metabolic/detoxification processes that support immune homeostasis. Confidence: High","confidence":"","size":19,"edges":169,"triangles":936,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0010804","count":19},{"id":"GO:0043200","count":19},{"id":"GO:0071638","count":19},{"id":"GO:0070373","count":19},{"id":"GO:1904706","count":19}]},{"hash":"78859576530231021","title":"RNA Methylation and Modification Enzymes","description":"The top GO terms are dominated by RNA modification and methylation processes (guanine-N7-methylation, tRNA wobble uridine modification, and N-terminal peptidyl-alanine trimethylation), pointing to a cluster enriched in methyltransferases and RNA/protein modification activities. While there are also biosynthetic and stress-related terms (biotin and cobalamin biosynthesis, xenobiotic response, senescence), these are less cohesive with the primary theme, so the strongest common thread appears to be RNA modification/methylation enzymes.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0009102","count":3},{"id":"GO:0090398","count":3},{"id":"GO:0018012","count":3},{"id":"GO:0006656","count":3}]},{"hash":"1247342150595534913","title":"Unknown","description":"The top terms show a mix of cell cycle, kidney-related development and filtration, epithelial migration, metabolic storage/transport, and xenobiotic response, with no single cohesive process linking all proteins. The lack of edges further suggests heterogeneous roles rather than a unified function. ","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0040037","count":2},{"id":"GO:0090305","count":2},{"id":"GO:0032836","count":2},{"id":"GO:0003094","count":2}]},{"hash":"1511856144426797229","title":"Unknown","description":"The top GO terms span bone mineralization, collagen organization, NF-kappaB and interferon-related signaling, neuromuscular/posture control, synaptic vesicle clustering, and insulin-responsive glucose uptake, without a single cohesive function uniting them; there isn't a clear label that accurately captures this mixed set of roles.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030282","count":2},{"id":"GO:0042346","count":2},{"id":"GO:0019221","count":2},{"id":"GO:0030199","count":2},{"id":"GO:1900155","count":2}]},{"hash":"1369089355480941761","title":"Unknown","description":"The GO terms are diverse, including auditory/mechanosensory perception (sensory perception of sound; detection of mechanical stimulus involved in sensory perception of sound), vascular/endothelial processes (positive regulation of endothelial cell proliferation; vascular smooth muscle differentiation), cell adhesion, ion-channel/membrane excitability (clustering of voltage-gated sodium channels; membrane depolarization), and inflammatory regulation (interleukin-1 beta production). There is no single cohesive biological process linking all items, and the proteins appear functionally heterogeneous, so a clear, specific label is not supported.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905065","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0050910","count":2},{"id":"GO:0045162","count":2}]},{"hash":"611703147820599164","title":"Ubiquitin-Dependent Proteolysis and Circadian Regulation","description":"Most of the top GO terms center on ubiquitin-mediated protein degradation (ubiquitin-dependent protein catabolic process, protein polyubiquitination and ERAD pathway) and regulation of circadian rhythm, pointing to a cluster of proteins involved in controlled protein turnover tied to circadian cycles. Additional terms suggest roles in innate immunity and cell differentiation, but these appear secondary to the dominant ubiquitin turnover/circadian theme.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0042752","count":10},{"id":"GO:0000209","count":7},{"id":"GO:0051260","count":7},{"id":"GO:0045087","count":7}]},{"hash":"1499512242137480965","title":"Stress-Response Signaling and Mechanotransduction","description":"This cluster centers on regulation of cellular signaling in response to stress and mechanical cues, as seen in negative regulation of kinase activity, serine phosphorylation, prostaglandin biosynthesis, and glucocorticoid response, with heart development and hypertrophy linking to mechanotransduction. Some terms touch immune signaling, but the common thread is stress-related signaling modulation.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0032088","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0048298","count":2},{"id":"GO:0014898","count":2}]},{"hash":"338258196535810376","title":"Endolysosomal vesicle trafficking and autophagy regulation","description":"The top GO terms converge on vesicle trafficking among the plasma membrane, endosomes, and lysosomes, including endosome-to-Golgi and plasma membrane-to-endosome transport, plus-end-directed movement along microtubules, lysosome localization, and autophagosome maturation. The recurrent regulation of Rab, Rap, and Rho signaling supports coordinated control of vesicle dynamics and autophagy.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0043553","count":3},{"id":"GO:0034499","count":3},{"id":"GO:1901098","count":3},{"id":"GO:1903527","count":3}]},{"hash":"1472230216814880584","title":"Unknown","description":"The top GO terms are dispersed across sensory perception, various developmental processes (ovarian follicle, placenta, thymus), immune homeostasis, signaling regulation, and stress responses, with no clear shared pathway or function linking the proteins. The lack of edges (no apparent interactions) and the heterogeneous terms suggest the cluster does not reflect a coherent, single biological theme. ","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:2000271","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0001541","count":1},{"id":"GO:0001890","count":1}]},{"hash":"392152839150701507","title":"Small Molecule and Ion Transmembrane Transporters","description":"The cluster centers on transmembrane transport of diverse substrates\u2014xenobiotics, biotin, myo-inositol, glucose, pantothenate\u2014and ions such as sodium and copper, with an additional note of cellular response to cisplatin. This suggests a group of proteins involved in moving small molecules and ions across membranes (and related metal homeostasis), rather than a single, specific metabolic pathway. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0015878","count":1},{"id":"GO:0015798","count":1},{"id":"GO:0008292","count":1},{"id":"GO:1904659","count":1}]},{"hash":"2290391098057767565","title":"Transcriptional and cell fate regulation","description":"The cluster is enriched for regulatory processes: transcriptional control (DNA-templated transcription, negative regulation of transcription by RNA Pol II), regulation of cell cycle, and regulation of apoptotic and necroptotic pathways, plus polyubiquitination and TLR signaling regulation, pointing to a theme of gene-expression and cell-survival/immune response regulation rather than core metabolism.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000209","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0005975","count":2},{"id":"GO:0006683","count":2},{"id":"GO:0034121","count":2}]},{"hash":"48185098119560198","title":"Developmental Regulation and Organogenesis","description":"This cluster centers on a broad set of developmental processes across multiple tissues, including brain/midbrain development, primitive streak formation, peripheral nervous system neuron development, cartilage development, male gonad development, single fertilization, and ureteric bud branching morphogenesis, along with a note on transcriptional regulation (negative regulation of RNA polymerase II). The common theme is developmental regulation and organogenesis rather than a single pathway, so the label reflects a general developmental role for the proteins.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030901","count":4},{"id":"GO:0090009","count":4},{"id":"GO:0048935","count":4},{"id":"GO:0051216","count":4}]},{"hash":"1227136320161226005","title":"Lymphocyte NF-kappaB signaling and homeostasis","description":"The prominent GO terms center on T and B cell homeostasis and NF-kappaB pathway regulation (positive canonical signaling, negative regulation of T cell proliferation) with ubiquitination linking to NF-kappaB activity, plus spleen development, indicating a cluster of immune signaling proteins involved in lymphocyte maintenance. Some non-immune terms (visual perception, LDL response) appear as noise, but do not override the dominant immune theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071404","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0046007","count":2},{"id":"GO:0060546","count":2}]},{"hash":"1213964003845390433","title":"Adrenergic signaling in heart and thermogenesis","description":"These proteins appear to cluster around GPCR-mediated signaling, especially adrenergic receptor pathways that activate adenylate cyclase and modulate cAMP and membrane potential. The top terms also emphasize heart development and diet-induced thermogenesis, linking sympathetic signaling to cardiac function and metabolic heat production, with some cross-talk to temperature and sensory signaling. ","confidence":"Medium","size":18,"edges":118,"triangles":406,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0007507","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0071502","count":10},{"id":"GO:0042391","count":10}]},{"hash":"1668684331731700265","title":"Centrosome-Mediated Cell Cycle and Growth Signaling","description":"The top GO terms cluster around centrosome function (mitotic centrosome separation, centriole replication), regulation of cell growth, and growth-factor\u2013related signaling (Rho signaling, PDGF response, tyrosine autophosphorylation), indicating proteins involved in centrosome dynamics linked to cell-cycle progression and growth signaling.","confidence":"High","size":18,"edges":141,"triangles":642,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007100","count":18},{"id":"GO:0009190","count":18},{"id":"GO:0061387","count":17},{"id":"GO:0007266","count":17},{"id":"GO:0060968","count":17}]},{"hash":"469963758714955025","title":"Broad developmental and immune regulation","description":"The protein set spans developmental processes (retina morphogenesis, endodermal differentiation, multicellular growth, stamen formation), cell adhesion/migration, immune signaling (lipopolysaccharide response, NF-kappaB regulation), and proteostasis (ubiquitin-dependent protein catabolic process, proteasome assembly), suggesting a broad regulatory role across development, immunity, and protein homeostasis rather than a single pathway.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0061299","count":3},{"id":"GO:0043124","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0035987","count":3}]},{"hash":"1560443229252257822","title":"Developmental processes and reproduction","description":"The cluster includes GO terms tied to developmental biology (heart morphogenesis, heart trabecula formation, cell division/cycle) as well as reproductive processes (single fertilization, oogenesis), suggesting a broad emphasis on development and reproduction rather than a single specific pathway. Some terms like locomotory behavior appear, but they are less central to the overall theme. Confidence: Medium","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0043278","count":2},{"id":"GO:0035584","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1715910917090269136","title":"Unknown","description":"The GO terms span metabolism, DNA repair, chromatin/telomere regulation, signaling, and hormone responses with no clear unifying theme; no edges connect the proteins, so a specific functional cluster is not evident.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":2},{"id":"GO:0051103","count":1},{"id":"GO:0008209","count":1},{"id":"GO:0090263","count":1},{"id":"GO:0035080","count":1}]},{"hash":"1880605018690426712","title":"Unknown","description":"The top GO terms span visual perception, heart and Schwann cell development, and general signaling/regulation processes, with no clear single function or pathway tying the cluster together, so a cohesive, specific label isn\u2019t supported.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0043388","count":3},{"id":"GO:0010800","count":3}]},{"hash":"838114437836515936","title":"Ribosome and Translation Machinery","description":"The top GO terms are dominated by translation-related processes: general translation, initiation, termination, elongation, and ribosome disassembly, with additional support from regulation of cytoplasmic translation and a link to mRNA decay (deadenylation-dependent). A couple of terms (glial proliferation, antibiotic response) are less central but may reflect broader regulatory or stress-related connections. Overall, the cluster appears to group proteins involved in the translation apparatus and its regulation, including coupling to mRNA turnover.","confidence":"High","size":18,"edges":58,"triangles":76,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006413","count":3},{"id":"GO:0006415","count":3},{"id":"GO:2000767","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1029297853228499158","title":"Glutamatergic synapse development and plasticity","description":"This cluster is dominated by GO terms related to glutamatergic synaptic transmission, synapse assembly, long-term potentiation, nervous system and inner ear development, and learning, suggesting a coherent theme of neuronal development and function centered on glutamatergic synapses, with supporting roles for signaling and phosphorylation pathways.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035249","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0010759","count":3}]},{"hash":"921723791632259935","title":"Unknown","description":"The GO terms across this cluster are diverse, including signaling pathway regulation (guanylyl cyclase and IGF receptor), lung development, protein tetramerization, magnesium and calcium-related processes, necroptosis, and multiple transport activities (nitrite, 4-hydroxyphenylacetate, xenobiotic). There is no single cohesive function or pathway uniting these terms, and the annotations are sparsely represented, so a concise, specific label cannot be assigned beyond Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010754","count":2},{"id":"GO:0043569","count":2},{"id":"GO:0030324","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0010961","count":2}]},{"hash":"1722406604957169189","title":"Developmental signaling and cell guidance","description":"The cluster aggregates proteins involved in multiple signaling pathways tied to development and directed cell movement, including Hedgehog (Smoothened), Roundabout signaling, and ERK cascade, plus terms for nervous system development, axon guidance, and organogenesis (kidney and spermatid development). Immune signaling terms (T cell receptor signaling, mast cell chemotaxis) appear alongside, suggesting shared signaling networks that coordinate cell fate decisions and migration across tissues. Overall, the common theme is developmental signaling and guided cellular movement.","confidence":"Medium","size":18,"edges":70,"triangles":85,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":9},{"id":"GO:0007224","count":9},{"id":"GO:0035385","count":9},{"id":"GO:0001822","count":9},{"id":"GO:0007399","count":9}]},{"hash":"1150830757403105100","title":"Cardiac development and calcium signaling","description":"The GO terms are dominated by heart development, ventricular morphogenesis, Purkinje/AV node signaling, and calcium handling in muscle, pointing to a cohesive set of proteins involved in cardiac development and calcium-dependent excitation-contraction in the heart.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0098904","count":2},{"id":"GO:0043588","count":2}]},{"hash":"155897101813175627","title":"Detoxification and Calcium Signaling in Muscle","description":"Cluster shows enrichment for chemical detoxification and stress responses (oxidant detoxification, toxin catabolic process, response to toxic substances, copper ion response) and inflammatory/metabolic signaling (prostaglandin biosynthesis, vitamin D response). A subset relates to calcium signaling in muscle (regulation of Ca2+ release channels and skeletal muscle contraction), suggesting a muscle-associated calcium signaling facet, while nucleotide-excision repair and aromatic amino acid metabolism indicate broader cellular maintenance. Overall, a detox/stress-response metabolic module with a muscle calcium signaling component.","confidence":"Medium","size":18,"edges":63,"triangles":100,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":8},{"id":"GO:0009636","count":5},{"id":"GO:0071280","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0060316","count":5}]},{"hash":"1766582699351412947","title":"Neural development and glutamatergic signaling","description":"The dominant GO terms point to neural development (midbrain development, axon target recognition) and synaptic function (excitatory postsynaptic potential, positive regulation of glutamatergic transmission), with supporting involvement of Wnt signaling. Immune-related terms (complement activation, LPS signaling) are present but appearPeripheral to the cluster\u2019s core neural theme, suggesting they may reflect annotation noise or multi-function proteins. Overall, the cluster seems best described by a neural development and synaptic signaling theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":4},{"id":"GO:0016055","count":3},{"id":"GO:0090238","count":3},{"id":"GO:0051968","count":3},{"id":"GO:0006888","count":3}]},{"hash":"1051733148898758422","title":"Neuronal ion transport and signaling","description":"The top GO terms point to ion transport across membranes (potassium, sodium, calcium), membrane depolarization, excitatory postsynaptic potentials, and action potentials, which together reflect neuronal excitability and synaptic signaling. The inclusion of startle response and circadian sleep/wake regulation suggests these ion-channel\u2013driven signals are linked to behavior and circadian control in neural circuits. Overall, this cluster appears to group proteins involved in neural excitability and signaling, with related behavioral/circadian regulation contexts.","confidence":"High","size":18,"edges":9,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":15},{"id":"GO:0001964","count":13},{"id":"GO:0098703","count":13},{"id":"GO:0045188","count":13},{"id":"GO:0035725","count":13}]},{"hash":"2197924510178146060","title":"Ribosome biogenesis and translation","description":"This cluster is strongly enriched for protein synthesis and ribosome-related processes (translation, ribosome biogenesis, ribosomal large subunit assembly, translational fidelity) with supporting signals from transcription-linked terms. The metabolic and developmental terms appear as secondary or pleiotropic associations, but the dominant theme centers on ribosome function and protein production.","confidence":"High","size":18,"edges":142,"triangles":659,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0042594","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0042254","count":2}]},{"hash":"947496203429022483","title":"GPCR Signaling and Downstream Responses","description":"The top GO terms converge on G protein-coupled receptor signaling (serotonin/adrenergic/opsin pathways, prostaglandin response) and downstream processes like GPCR internalization, Rho signaling, and cAMP modulation, plus related physiological outputs (locomotory behavior, mucus secretion, cardiac vascular smooth muscle differentiation). This suggests the cluster represents a GPCR signaling module affecting sensory, immune, and cardiovascular functions.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007626","count":12},{"id":"GO:0070257","count":11},{"id":"GO:0007198","count":11},{"id":"GO:0070963","count":11},{"id":"GO:0002031","count":11}]},{"hash":"384400362505891482","title":"Golgi\u2013endosome trafficking","description":"This cluster is dominated by GO terms for transport between Golgi and endosomal compartments (Golgi to endosome, late endosome to Golgi, early to late endosome transport) and related endomembrane processes, plus membrane remodeling (plasma membrane tubulation) and regulation of cell polarity/shape. While a few terms touch cell cycle aspects, the prevailing signals point to vesicular trafficking within the endomembrane system, making Golgi\u2013endosome trafficking a representative and specific label.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006895","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0045022","count":1},{"id":"GO:0000902","count":1},{"id":"GO:0000281","count":1}]},{"hash":"1195501948616878685","title":"Unknown","description":"The terms span neuronal signaling (excitatory postsynaptic potential, detection of mechanical stimulus for sound), stress responses (UV-C, gamma radiation), protein post-translational modification (neddylation/ubiquitin transferase activity), protein turnover, and ergosterol biosynthesis, with no single shared function. The lack of edges/triangles and the diverse GO terms suggest no cohesive biological theme for this cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":2},{"id":"GO:0050910","count":2},{"id":"GO:0051443","count":1},{"id":"GO:0010225","count":1},{"id":"GO:2000435","count":1}]},{"hash":"1399714473622756547","title":"Mitochondrial Protein Import and Proteostasis","description":"Top terms cluster around mitochondrial function and protein quality control: regulation of aerobic respiration, protein unfolding and processing, and a specific term for protein insertion into the mitochondrial inner membrane. Aggresome assembly and oxidation-dependent protein catabolic processes further point to proteostasis of mitochondrial proteins. While some terms relate to broader processes (development, transcription), the dominant theme appears to be mitochondrial protein handling and energy metabolism.","confidence":"Medium","size":18,"edges":7,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903715","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0001824","count":3},{"id":"GO:0043335","count":3},{"id":"GO:0016485","count":3}]},{"hash":"1775137679784990700","title":"Neurodevelopment and transcriptional regulation","description":"This cluster shows enrichment for transcription regulation (DNA-templated transcription; RNA polymerase III transcription) and multiple developmental/neural terms (neural precursor cell proliferation, pituitary development, embryonic development), with dopamine catabolic process linking to neural function. The combination suggests proteins involved in developmental transcriptional control, particularly in neurodevelopmental contexts, though the set is somewhat diverse across other lineages.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0042420","count":2},{"id":"GO:0001041","count":2},{"id":"GO:0021983","count":1},{"id":"GO:2000648","count":1}]},{"hash":"1995471623614595480","title":"Steroid hormone and xenobiotic metabolism","description":"These proteins cluster around metabolic and catabolic processes related to steroid hormones (androgen metabolism, aldosterone biosynthesis, prostate growth) and xenobiotics (coumarin, dibenzo-p-dioxin, cholesterol catabolic processes), plus related oxidative transformations. The dominant signal is hormone and detoxification metabolism, with a few unrelated terms present, but overall it suggests a metabolic enzyme module for processing steroids and foreign compounds.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010760","count":15},{"id":"GO:0008209","count":15},{"id":"GO:2001037","count":15},{"id":"GO:0010193","count":15},{"id":"GO:0046226","count":15}]},{"hash":"1794827534315248332","title":"Mechanosensitive Adipogenesis","description":"These proteins appear enriched for responses to mechanical stimulus and fat cell differentiation, suggesting a mechanotransduction-driven adipocyte differentiation theme. Additional terms on mRNA processing and stability imply post-transcriptional regulation supporting differentiation, while cell cycle and plasma membrane localization point to broader signaling and trafficking roles. Overall, the cluster seems related to mechanosensitive adipogenesis, though some terms are peripheral.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":5},{"id":"GO:1904357","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0007049","count":4},{"id":"GO:0072660","count":4}]},{"hash":"2075781197778228134","title":"Telomere maintenance regulation and telomeric localization","description":"The top GO terms are dominated by telomere-related processes, including positive/negative regulation of telomere maintenance via telomerase, positive regulation of telomere capping, and protein localization to the telomeric region, pointing to proteins involved in controlling telomere length and protection. Ubiquitination and ADP-ribosylation terms further support regulation of chromatin and DNA-associated telomere maintenance. Some terms like Wnt signaling and cellular response to mechanical stimulus appear but are less central, suggesting telomere maintenance as the core theme. The absence of edges indicates this is a functional annotation cluster rather than a tightly connected interaction module.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071260","count":2},{"id":"GO:1904743","count":2},{"id":"GO:0070198","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0016567","count":2}]},{"hash":"1247686699445508682","title":"Cytoskeleton remodeling and ubiquitination","description":"The top terms point mainly to actin and microtubule dynamics (Arp2/3 regulation, actin capping, microtubule severing) with a link to protein turnover via polyubiquitination. Developmental terms may reflect cytoskeletal roles in tissue morphogenesis, while some terms are peripheral; overall, the cluster centers on cytoskeletal remodeling intertwined with protein degradation pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070306","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0034316","count":1},{"id":"GO:0051016","count":1}]},{"hash":"2222252823329094126","title":"Cytokine production and neuropeptide signaling in innate immunity","description":"This cluster\u2019s top GO terms center on positive regulation of IL-1\u03b2, IL-6, and IL-18 production and innate immune response, with additional hints of neuropeptide signaling and hormone processing. This points to a theme where immune cytokine production is linked with neuroendocrine signaling, rather than a single narrow pathway, justifying a label that combines cytokine regulation with neuropeptide/hormone signaling in innate immunity.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":2},{"id":"GO:0050718","count":2},{"id":"GO:0032755","count":2},{"id":"GO:0016486","count":1},{"id":"GO:0007218","count":1}]},{"hash":"2110798589306834004","title":"Chromatin-regulated transcription repression and dosage compensation","description":"The terms cluster around transcriptional repression by RNA polymerase II, including negative regulation and elongation control, plus chromatin-related processes like heterochromatin formation and histone modification (X chromosome dosage compensation). Developmental terms may reflect broader roles of chromatin state in gene expression. With no edges among proteins, the best concise label is chromatin-regulated transcription repression and dosage compensation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0034244","count":3},{"id":"GO:0009048","count":3},{"id":"GO:0090055","count":3},{"id":"GO:0070535","count":3}]},{"hash":"2241309814541506147","title":"Heart and nervous system developmental signaling","description":"The top GO terms indicate broad developmental roles, especially heart development, nervous system development, and dendrite formation, with signaling pathways (Roundabout/ROBO) and adhesion and apoptotic processes aligning to morphogenesis and tissue patterning. This suggests a cohesive module driving organogenesis in neural and cardiac contexts rather than a single molecular function.","confidence":"High","size":17,"edges":15,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0007161","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0030948","count":3}]},{"hash":"1183012278579997403","title":"Inflammation and coagulation signaling cluster","description":"The terms cluster around inflammatory responses and innate immune signaling (positive regulation of inflammatory response; cellular response to lipopolysaccharide), along with coagulation (blood coagulation, fibrin clot formation). There are also signals of macrophage-related processes and apoptotic cell clearance, and a GPCR-PLC pathway connection, all pointing to immune/inflammatory and hemostatic processes. A few differentiation terms appear, but the dominant theme is inflammation and coagulation signaling.","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010745","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0072378","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0050729","count":3}]},{"hash":"1402213381049641014","title":"Unknown","description":"The GO terms are highly diverse, ranging from sensory perception of sound and brain development to signaling pathways (Ras, PKC-GPCR), platelet activation, erythrocyte maturation, and basic metabolism (pentose phosphate shunt, NADPH regeneration). There is no single coherent function or pathway that ties these terms together, and several terms are obsolete or only loosely related. Therefore, no specific, representative label can be confidently assigned.","confidence":"","size":17,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0046580","count":2},{"id":"GO:1901998","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0010572","count":2}]},{"hash":"409931812912716081","title":"Sugar and retinoid metabolic pathways","description":"The top GO terms indicate a metabolic cluster with emphasis on carbohydrate and retinoid metabolism (fructose biosynthesis, D-xylulose 5-phosphate biosynthesis, pyruvate fermentation, retinol and retinoic acid metabolism) and related redox processes; an immune-related term (response to lipopolysaccharide) may reflect metabolic-immune cross-talk but does not define the core theme. Overall, this cluster appears to group proteins involved in diverse metabolism and energy production.","confidence":"Medium","size":17,"edges":21,"triangles":7,"max_degree":6,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0019518","count":5},{"id":"GO:0046370","count":4},{"id":"GO:0003016","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0042572","count":4}]},{"hash":"1016834230619952251","title":"Vertebrate eye and forebrain development","description":"The top GO terms cluster around forebrain development, embryonic eye morphogenesis, inner ear differentiation, and broader multicellular organism development, indicating a vertebrate developmental program focused on neural sensory organs and associated structures. The presence of cell adhesion and Wnt-related terms supports tissue morphogenesis and patterning during early development.","confidence":"High","size":17,"edges":12,"triangles":1,"max_degree":7,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0030900","count":6},{"id":"GO:0014807","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0048048","count":5},{"id":"GO:0042491","count":5}]},{"hash":"1606047657823296545","title":"Collagen-ECM Remodeling and Tissue Development","description":"Cluster terms cluster around collagen-related signaling, collagen turnover, basement membrane formation, and skin/vasculature development, suggesting a shared theme of extracellular matrix remodeling guiding tissue morphogenesis and adhesion.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0038063","count":4},{"id":"GO:0045454","count":3},{"id":"GO:0060414","count":3},{"id":"GO:0042338","count":3},{"id":"GO:0032836","count":3}]},{"hash":"93556543886869921","title":"Negative regulation of MAPK and TCR signaling","description":"This cluster is enriched for GO terms that suppress signaling, notably negative regulation of the ERK/MAPK cascade and negative regulation of T cell receptor signaling, with additional related terms like IL-2 signaling and vascular permeability. The inclusion of immune- and hematopoietic-related processes (megakaryocyte development) and neuronal development (cerebellar cortex formation) suggests a broader, potentially cross-tomem regulatory role in signaling and cell\u2013cell interactions across cell types. Overall, the proteins appear to function in dampening signaling rather than activating pathways, supporting this label.","confidence":"Medium","size":17,"edges":68,"triangles":156,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":11},{"id":"GO:0050860","count":11},{"id":"GO:0000200","count":11},{"id":"GO:0050852","count":9},{"id":"GO:0043116","count":9}]},{"hash":"1380030428917350353","title":"RNA processing and translational initiation regulation","description":"This cluster is dominated by terms related to RNA metabolism and control of translation, including regulatory ncRNA-mediated gene silencing, spliceosome-driven mRNA splicing, formation of the translation preinitiation complex, regulation of translational initiation and reinitiation, and viral translation mechanisms. Together these suggest a cohesive theme around RNA processing and the regulation of protein synthesis, especially at initiation/reinitiation steps.","confidence":"High","size":17,"edges":93,"triangles":364,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":9},{"id":"GO:0048026","count":9},{"id":"GO:0001731","count":7},{"id":"GO:1901407","count":7},{"id":"GO:0075522","count":7}]},{"hash":"782299089015144144","title":"DNA Repair: DSB and SSBR","description":"The top GO terms are dominated by double-strand break repair via classical nonhomologous end joining and single-strand break repair, indicating a DNA damage repair theme for this cluster. A few other terms (fertilization, chorion development, sebaceous gland development) are less related and suggest some noise, but the core signal supports a DNA repair\u2013focused cluster.","confidence":"Medium","size":17,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097680","count":2},{"id":"GO:0006471","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0003014","count":1},{"id":"GO:0042144","count":1}]},{"hash":"352013836182037591","title":"Mitochondrial Translation and Respiratory Metabolism","description":"This cluster\u2019s GO terms are dominated by translation and mitochondrial energy production, including mitochondrial respiratory chain activity and assembly of Complex I, indicating a shared function in mitochondrial protein synthesis and respiration. Additional signals point to mitochondrial quality control (autophagy of mitochondrion) and regulation of cellular respiration, while terms about brain development and fibroblast proliferation seem secondary or incidental to the core mitochondrial theme.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0010259","count":1},{"id":"GO:0000422","count":1},{"id":"GO:0043457","count":1},{"id":"GO:0032981","count":1}]},{"hash":"894256690528919031","title":"DNA Repair and Anti-Inflammatory Signaling","description":"The GO terms emphasize nucleotide-excision repair and detoxification, together with multiple instances of negative regulation of inflammatory signaling (TNF, ERK cascade, MCP-1 production, neutrophil aggregation) and hormone-responsive processes (estradiol response, prostaglandin biosynthesis). This suggests a cluster that coordinates genome maintenance with anti-inflammatory and hormone-driven signaling, likely in vascular or immune contexts.","confidence":"Medium","size":17,"edges":74,"triangles":211,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006289","count":11},{"id":"GO:0001516","count":10},{"id":"GO:0032355","count":10},{"id":"GO:0098869","count":10},{"id":"GO:0010804","count":9}]},{"hash":"685202078760494677","title":"Neural and pituitary development","description":"The dominant GO terms describe brain development (midbrain/forebrain) and dopaminergic neuron differentiation, as well as neurohypophysis (pituitary) development. While there are some general embryonic morphogenesis terms, the core theme centers on neural system and pituitary formation. This makes \"Neural and pituitary development\" a specific and representative label for the cluster.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":4},{"id":"GO:0021983","count":3},{"id":"GO:2000288","count":3},{"id":"GO:0009952","count":3},{"id":"GO:0030900","count":3}]},{"hash":"109692454968691108","title":"Mitochondrial respiration and translation","description":"The preponderance of mitochondrial oxidative phosphorylation terms (NADH dehydrogenase to ubiquinone, TCA cycle, Complex II/III assembly) alongside translation and ribosome assembly terms suggests a cohesive group of proteins linked to mitochondrial energy production and protein synthesis.","confidence":"High","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006120","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0034551","count":2},{"id":"GO:0034553","count":2}]},{"hash":"1787327661231923903","title":"Wnt signaling and innate immune response","description":"This group shows enrichment for the Wnt signaling pathway and growth-related terms, together with several innate immune signals (response to LPS, Toll pathway activity, and defense against fungi/yeast), suggesting a signaling module that links developmental/growth processes with innate immune signaling.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0016049","count":3},{"id":"GO:0045752","count":3}]},{"hash":"947601185450902062","title":"Steroid Hormone and Lipid Metabolism","description":"Most frequent GO terms are steroid/hormone metabolic processes (androgen, progesterone, testosterone biosynthesis; cholesterol and bile acid catabolism; prostaglandin biosynthesis), indicating a cohesive function in lipid-based hormone production and processing. A few terms relate to immune modulation or development, which may reflect secondary roles but do not dominate the theme.","confidence":"High","size":17,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":16},{"id":"GO:0006707","count":16},{"id":"GO:0042448","count":16},{"id":"GO:0061370","count":16},{"id":"GO:0006699","count":16}]},{"hash":"969816560572724455","title":"GPCR Signaling and Mucosal Response","description":"Based on the top GO terms, the proteins cluster around G protein-coupled receptor (GPCR) signaling and its downstream effects, including cAMP modulation (adenylate cyclase pathways), receptor internalization, prostaglandin and opsin signaling, and Rho-mediated pathways. The presence of mucus secretion regulation and vascular smooth muscle differentiation suggests involvement in mucosal and vascular GPCR-mediated responses, making GPCR signaling a coherent, specific theme for this cluster.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":13},{"id":"GO:0007198","count":13},{"id":"GO:0070963","count":13},{"id":"GO:0002031","count":13},{"id":"GO:0071799","count":13}]},{"hash":"2217662747808082937","title":"Unknown","description":"The top GO terms span adipocyte differentiation, innate immune defense, telomere maintenance, regulation of cell cycle kinases, RNA processing, mechanical/stretch response, telomere capping, cell migration, and brain development. This broad and disparate mix shows no single cohesive function or pathway linking the proteins, so there is no reliable, specific label beyond Unknown. ","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045444","count":6},{"id":"GO:0050830","count":5},{"id":"GO:0032212","count":5},{"id":"GO:0045736","count":5},{"id":"GO:0006397","count":5}]},{"hash":"1241884873523347330","title":"Neural signaling and sensory responses","description":"These proteins cluster around signaling pathways involved in neural and sensory functions. Several top GO terms point to GPCR-mediated signaling (GO:0010579 and GO:0071880) and adrenergic receptor pathways, linking to autonomic control such as blood pressure. In addition, terms related to retina development, regulation of sensory perception of pain, and locomotory behavior support a theme of neural signaling and sensory processing; while terms like electron transport chain and defense response to Gram-positive bacteria are broader or outliers, they do not negate the central theme of signaling in neural/sensory contexts.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":5},{"id":"GO:0008283","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0010579","count":4}]},{"hash":"103446069993827578","title":"Ribosome biogenesis and translation","description":"The cluster shows strong enrichment for translation and ribosome biogenesis terms (translation, ribosomal large subunit assembly, ribosome biogenesis, and related processes), with a few stress-related terms (response to antibiotic, stringent response) indicating contextual links to stress. This suggests the proteins largely participate in ribosome assembly and protein synthesis, justifying the name.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0006415","count":3},{"id":"GO:0000027","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0046677","count":3}]},{"hash":"1339087144900977978","title":"Lipid catabolism and xenobiotic response","description":"These proteins clearly cluster around lipid metabolism, with triglyceride and monoacylglycerol catabolic processes and phosphatidylserine catabolism, plus regulation of endocannabinoid signaling (lipid-derived signaling). They also show responsiveness to xenobiotics and toxic substances. A few terms about antibiotic/menaquinone biosynthesis are peripheral to metabolism, but the core theme is lipid catabolism and xenobiotic response.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0071375","count":2},{"id":"GO:0014912","count":2},{"id":"GO:0006660","count":2}]},{"hash":"148144520992047217","title":"DNA replication checkpoint and mitotic cell-cycle control","description":"The cluster\u2019s terms cluster around DNA replication regulation, replication fork arrest, checkpoint signaling, and mitotic sister chromatid cohesion, pointing to a replication stress response and cell-cycle control theme. Some transport-related terms appear but are not predominant, so the main signal is replication and mitosis control.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048280","count":1},{"id":"GO:0032781","count":1},{"id":"GO:0006886","count":1},{"id":"GO:0043111","count":1},{"id":"GO:0033262","count":1}]},{"hash":"671120755740160835","title":"Membrane transporters and inflammatory signaling","description":"The top GO terms point to several transport activities (potassium ion, nitrate, sialic acid transport; fucose metabolism) alongside immune and signaling roles (inflammatory response; ERK cascade regulation; IL-8 production; neurotransmitter loading). This suggests a cluster of membrane transport proteins that also participate in inflammatory and signaling processes, rather than a single cohesive function. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":2},{"id":"GO:2000484","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0015706","count":2}]},{"hash":"1280083984557566291","title":"Diverse signaling, endocytosis, and transport proteins","description":"GO terms point to several related but not unified processes: endocytosis, intracellular transport, signaling regulation, innate immunity, and angiogenesis-related migration, with a couple of metabolism-related terms. Since no single function dominates, this cluster seems to group proteins involved in multiple cellular trafficking and signaling roles rather than one cohesive pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050873","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0030948","count":2},{"id":"GO:0051291","count":2},{"id":"GO:0006898","count":2}]},{"hash":"505373339848159737","title":"Signaling and Immune Activation Regulators","description":"This cluster centers on modulation of signaling pathways (phosphorylation, PKC activity, calcium signaling, ubiquitination, NF-kB) and immune-related processes (macrophage activation, hyaluronan turnover), suggesting proteins that fine-tune signaling and inflammatory responses rather than a single pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090314","count":2},{"id":"GO:0010800","count":2},{"id":"GO:0030214","count":2},{"id":"GO:0051281","count":2},{"id":"GO:0043030","count":2}]},{"hash":"1778357928881162493","title":"GPCR Signaling and Downstream Regulation","description":"The top GO terms cluster around G protein-coupled receptor signaling and its downstream effects, including modulation of adenylate cyclase (activating/inhibiting cAMP), GPCR internalization, opsin/vision-related signaling, prostaglandin responses, Rho pathway regulation, and related physiological processes such as mucus secretion and vascular smooth muscle differentiation. This cohesive set points to a cluster of proteins functioning within GPCR signaling networks and their downstream regulatory pathways.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":17},{"id":"GO:0007198","count":17},{"id":"GO:0070963","count":17},{"id":"GO:0002031","count":17},{"id":"GO:0071799","count":17}]},{"hash":"966513561255696451","title":"Mitochondrial Lipid Remodeling and Energy Metabolism","description":"This cluster is dominated by GO terms for lipid biosynthesis and remodeling (cardiolipin, phosphatidylcholine, ether lipids) and a mitochondrial energy term (mitochondrial ATP synthesis coupled electron transport), suggesting a shared function in membrane lipid metabolism linked to energy production. Some terms (cutin biosynthesis, IL-2 production) appear peripheral but do not override the core lipid-energy signal.","confidence":"High","size":17,"edges":47,"triangles":74,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0016024","count":5},{"id":"GO:0010143","count":5},{"id":"GO:0070970","count":5},{"id":"GO:0035965","count":5},{"id":"GO:0002071","count":5}]},{"hash":"382166257201901739","title":"Mitotic cell division machinery","description":"The top GO terms cluster around mitosis and cell cycle processes (establishment of spindle orientation, cell division, mitotic cell cycle, APC/C-dependent catabolic process, and anaphase-promoting complex activity), indicating proteins primarily involved in chromosome segregation and mitotic progression. While there are ancillary terms for vesicle transport, TORC1 signaling, and RNA methylation, they are less central to the core theme. This suggests a cohesive group centered on mitotic regulation, hence the label. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000132","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0060041","count":3},{"id":"GO:0038202","count":3}]},{"hash":"222899843587836003","title":"Retroviral DNA integration and latency","description":"GO terms center on retroviral genome processing: RNA-templated DNA biosynthesis (reverse transcription), DNA integration, DNA replication/recombination, and establishment of integrated proviral latency, along with viral entry into the host nucleus. While some symbiont-related host interaction terms appear, the dominant theme is the retroviral life cycle.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:2001171","count":2},{"id":"GO:1903704","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0075713","count":2}]},{"hash":"1165259388378315095","title":"Innate Immune Response and Interferon Signaling","description":"This cluster includes several GO terms related to innate immunity and antiviral signaling, such as defense response to Gram-positive bacteria, response to exogenous dsRNA, cellular response to lipopolysaccharide, and positive regulation of interferon-beta production, suggesting a shared role in immune signaling. Although there are also development-related terms present (forebrain, corpus callosum development) and broad transcriptional processes, the immune-related terms are the most recurrent and cohesive, guiding this label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0030900","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0001501","count":2}]},{"hash":"1442184212798835808","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006506","count":2},{"id":"GO:0009254","count":1},{"id":"GO:0009113","count":1},{"id":"GO:0097175","count":1}]},{"hash":"1725026852675548717","title":"Unknown","description":"The top GO terms cover ubiquitin-dependent protein catabolic process, various differentiation and development processes (muscle, nervous system, distal tubule), immune signaling (B cell receptor signaling, dendritic cell differentiation, type 2 immune response), and even odd terms like male genitalia development. The functions are highly disparate with no single coherent biological theme tying the proteins together, suggesting either a heterogeneous or misannotated cluster. Therefore there is no clear representative label to assign with confidence.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0035914","count":5},{"id":"GO:2001200","count":5},{"id":"GO:0045496","count":5},{"id":"GO:0050853","count":5}]},{"hash":"1706442941090254583","title":"Transmembrane Transporters","description":"All top GO terms describe transport across membranes for diverse substrates (nitrite, nitrate, sugars, vitamins, ions, xenobiotics). This convergence points to a cluster of membrane transporter proteins with broad substrate specificity, hence \"Transmembrane Transporters\".","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":4},{"id":"GO:1900754","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0015706","count":4},{"id":"GO:0071805","count":4}]},{"hash":"253220123209642494","title":"Heart and kidney development","description":"The top GO terms cluster around cardiovascular and renal organogenesis, with several entries for heart morphogenesis, heart looping, and outflow tract morphogenesis, plus renal system/kidney development. Supporting terms include roof of mouth development and cellular responses related to fluid shear stress, suggesting a vascular/organogenesis context. While there are a few outliers (e.g., spindle assembly), the dominant theme ties to heart and kidney development, justifying this label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071498","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0003151","count":2}]},{"hash":"1602265185017484649","title":"Transmembrane Ion and Metabolite Transporters","description":"Proteins in this cluster are enriched for GO terms describing transmembrane transport of multiple ions (potassium, sodium, nitrate, nitrite, phosphate) and small metabolites (galactose, vitamins) as well as xenobiotics. The common thread is movement of diverse substrates across membranes, consistent with membrane transporter proteins rather than a single substrate-specific enzyme. This suggests a cluster of membrane transporters with broad or varied substrate specificity.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0015707","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0006855","count":2}]},{"hash":"1620172136437170368","title":"Neural synaptic plasticity signaling","description":"Top GO terms indicate neural signaling and plasticity: learning, positive regulation of synapse structural plasticity, ephrin receptor signaling, and dopamine uptake modulation all point to synaptic function and dopaminergic signaling. Other terms in the list (ribosomal large subunit export, hair follicle morphogenesis, endothelial tube lumen extension, cell population proliferation, xenobiotic response) appear less related and may reflect broad functional annotations of proteins in this cluster, suggesting annotation noise rather than a single cohesive function. Overall, a neural synaptic plasticity theme best fits the predominant signals.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0007612","count":2},{"id":"GO:0048013","count":2},{"id":"GO:0051835","count":2}]},{"hash":"1151025502539243875","title":"Brain development and neuroendocrine signaling","description":"Reasoning: The most represented terms point to neural development and brain function (cerebral cortex regionalization; motor learning; maintenance of synapse structure) along with neuroendocrine regulation (corticotropin and corticosterone secretion; growth hormone secretion). Calcium signaling and GPCR-activated adenylyl cyclase are common neuronal signaling mechanisms. Although angiogenesis is present, it can reflect brain vascular development, reinforcing a neural context. Overall, the cluster appears to reflect brain development and neuronal signaling with hormonal control.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0032792","count":3},{"id":"GO:2000852","count":3},{"id":"GO:0021796","count":3},{"id":"GO:0051458","count":3}]},{"hash":"848892268412473791","title":"Developmental transcriptional regulation","description":"This cluster is enriched for GO terms related to DNA-templated transcription and regulation of transcription initiation, as well as several embryonic and organ development terms (in utero embryonic development, trachea cartilage development, Harderian gland development, male gonad development). The combination suggests a coherent theme of genes involved in controlling transcription during developmental processes across tissues, including neuronal maturation.","confidence":"High","size":16,"edges":63,"triangles":60,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0055114","count":5},{"id":"GO:0070384","count":5},{"id":"GO:2000020","count":5},{"id":"GO:0060534","count":5}]},{"hash":"1539866145891199846","title":"Embryogenesis and Tissue Differentiation","description":"The top GO terms point to a broad set of developmental events across multiple tissues (heart/endocardial cushion EMT, cartilage formation, left-right patterning, pancreatic cell development, placental/trophoblast differentiation, endocrine system development). Coupled with ubiquitin-dependent protein degradation terms, this suggests a cluster centered on embryonic development and lineage specification with some involvement of protein turnover. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0030433","count":3},{"id":"GO:2001200","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060536","count":2}]},{"hash":"212532125866327799","title":"Embryonic brain and skeletal morphogenesis","description":"The top GO terms cluster around embryonic development of the nervous system (forebrain, midbrain) and skeletal system/joint morphogenesis, along with organ induction and pituitary development, suggesting a cohesive theme of early developmental processes shaping brain and skeleton.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0030900","count":2},{"id":"GO:0001759","count":2},{"id":"GO:0060272","count":2}]},{"hash":"1101706844063289605","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0042594","count":2},{"id":"GO:0006694","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0006189","count":2}]},{"hash":"1474442666432215797","title":"Glycosylation and cell-surface polysaccharide biosynthesis","description":"The cluster\u2019s top GO terms are dominated by glycosylation-related processes (protein glycosylation, O-linked glycosylation, arabinogalactan protein metabolism, poly-N-acetyllactosamine biosynthesis, Lewis a epitope biosynthesis) and biosynthesis of mucilage and proteoglycan/AGP-type components, pointing to cell-surface and extracellular matrix glycoproteins involved in polysaccharide assembly. A few terms touch on developmental or pathogen-associated structures, which can be linked to glycoprotein-mediated formation of infection structures or epithelial polarity, but the unifying signal is glycosylation and synthesis of cell-surface polysaccharides. ","confidence":"Medium","size":16,"edges":16,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":4},{"id":"GO:0075015","count":4},{"id":"GO:0050650","count":3},{"id":"GO:0010493","count":3},{"id":"GO:0048354","count":3}]},{"hash":"468267973842731386","title":"Nucleic acid modification and biosynthesis","description":"This cluster\u2019s GO terms include RNA modification (guanine-N7 methylation; rRNA modification) and transcription, plus multiple biosynthetic processes (sterol, antibiotic, chlorophyll, biotin), suggesting a theme around nucleic acid processing and metabolism. The absence of strong interaction data (Edges 0) points to broad functional links rather than a single tight pathway, but the co-occurrence of RNA modification and biosynthesis terms justifies a label that covers both domains.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0036265","count":4},{"id":"GO:0035902","count":4},{"id":"GO:0016126","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0030961","count":4}]},{"hash":"2291510073265807799","title":"Apoptosis and Wnt/Hippo signaling cluster","description":"This cluster is strongly characterized by apoptotic process terms (and their positive regulation) alongside key growth-regulating pathways\u2014canonical Wnt signaling and Hippo signaling\u2014indicating a core theme of cell fate decisions involving survival, proliferation, and differentiation. Additional terms related to synaptic plasticity, long-term potentiation, keratinocyte differentiation, and sphingolipid biosynthesis suggest broader, multi-lineage differentiation and membrane signaling contexts, but the central thread remains apoptosis coupled with major developmental signaling. ","confidence":"High","size":16,"edges":61,"triangles":105,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":14},{"id":"GO:0090263","count":14},{"id":"GO:0090153","count":14},{"id":"GO:0035329","count":14},{"id":"GO:0043065","count":14}]},{"hash":"2173896677870721141","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around nervous system development, neurogenesis, and synapse organization, with related signaling pathways (e.g., smoothened/ Hedgehog and Roundabout/ROBO) suggesting roles in neural formation, axon guidance, and connectivity. While some immune-related terms appear, the dominant theme is neural development and synaptic maturation, justifying this label as representative of the cluster.","confidence":"High","size":16,"edges":62,"triangles":98,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":11},{"id":"GO:0007224","count":11},{"id":"GO:0035385","count":11},{"id":"GO:0001822","count":11},{"id":"GO:0007399","count":11}]},{"hash":"1614723999765206783","title":"Ribosome biogenesis and translation initiation","description":"The cluster is enriched for GO terms tied to ribosome assembly and translation initiation, including maturation of both SSU- and LSU-rRNA, ribosome biogenesis, and formation of translation preinitiation and cytoplasmic initiation complexes. Together these point to a coherent function in ribosome production and starting protein synthesis. Some terms (DNA-templated transcription, antibiotic response, LPS biosynthesis) are broader or context-dependent and do not negate the central ribosome/translation signal.","confidence":"High","size":16,"edges":107,"triangles":407,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0001731","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0000462","count":3}]},{"hash":"1758022227932366908","title":"Epithelial vesicle trafficking and membrane remodeling","description":"Based on the GO terms, the cluster centers on vesicle docking and exocytosis (secretory granule localization, vesicle docking in exocytosis), membrane repair, and GTPase-regulated trafficking, with additional hints of membrane-associated morphogenesis (brush border assembly, hair follicle maturation). Although the proteins aren\u2019t connected in the network (no edges/triangles), the shared theme is membrane trafficking and remodeling in epithelial or specialized surface contexts, including adhesion-associated processes (sperm binding) and mucosal/microvillar structures. This supports a cohesive label around vesicle dynamics and membrane remodeling in epithelia and related tissues.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":2},{"id":"GO:0043087","count":2},{"id":"GO:0032252","count":1},{"id":"GO:1904970","count":1},{"id":"GO:0000011","count":1}]},{"hash":"695040800591504340","title":"Neuronal development and axon guidance","description":"The cluster shows enrichment for neuronal development-related terms such as motor neuron axon guidance and retinoic acid biosynthesis, along with regulation of transcription and Notch signaling, suggesting a theme around neural development and signaling. Some accompanying metabolic terms (steroid/androgen metabolism, BH4 biosynthesis) are present but appear less cohesive with the core neural functions, so the label prioritizes neural development and signaling processes.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006355","count":4},{"id":"GO:0045746","count":3},{"id":"GO:0008045","count":3},{"id":"GO:0042619","count":3}]},{"hash":"1355852858270779804","title":"Unknown","description":"The top GO terms span diverse, sometimes unrelated areas (kidney development and filtration; CNS development; colon epithelial migration; cell proliferation; fibrinolysis; a bacterial lipoteichoic acid biosynthetic process; and even locomotory exploration behavior). This lack of a cohesive, shared function across the proteins makes it impossible to assign a precise, representative label. The presence of a bacterial-origin term also hints at contamination or misannotation.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":3},{"id":"GO:0042730","count":3},{"id":"GO:0035641","count":3},{"id":"GO:0070395","count":2},{"id":"GO:0040037","count":2}]},{"hash":"99515892042953329","title":"Unknown","description":"The top GO terms span innate immunity (positive regulation of Toll signaling, defense against fungi, response to yeast), development (exocrine pancreas development, multicellular organism growth), and vascular/hematologic processes (collagen catabolic, fibrinogen regulation, blood pressure via ANP), with a glucose response term as well. There isn\u2019t a coherent, single biological function tying these together, suggesting a heterogeneous or noisy cluster rather than a specific pathway.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045752","count":3},{"id":"GO:0050754","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0050832","count":3},{"id":"GO:0001878","count":3}]},{"hash":"1496311451749572599","title":"Unknown","description":"The terms are diverse (telomere maintenance and capping, mRNA processing, responses to cocaine and muscle stretch, synapse assembly, cell migration, differentiation), with no clear shared function or pathway binding the proteins, and there are no edges to suggest a cohesive module.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032212","count":4},{"id":"GO:0045736","count":4},{"id":"GO:0006397","count":4},{"id":"GO:0042220","count":4},{"id":"GO:0035994","count":4}]},{"hash":"2089488385120464296","title":"Embryonic Development and Signaling","description":"Top GO terms indicate a focus on tissue and organ development (skeletal system, heart, palate roof, ovarian follicle) combined with signaling regulation (ERK1/2 cascade, GTPase activity) and calcium signaling, plus an inflammatory response. This mix suggests a cluster centered on embryonic development and its associated signaling networks.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051209","count":2}]},{"hash":"1604060914187541716","title":"ER Stress and Protein Quality Control","description":"This cluster is enriched for GO terms related to the endoplasmic reticulum unfolded protein response, protein folding/unfolding, ubiquitination, and ER-associated degradation, indicating a cohesive role in ER proteostasis and directing misfolded proteins toward degradation, with additional links to lysosomal trafficking. The cell cycle terms are present but secondary to the primary theme of ER stress\u2013driven protein quality control.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0030968","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0030433","count":3}]},{"hash":"2071831796041677883","title":"Neuronal adhesion and synapse development","description":"The dominant GO terms cluster around neuronal connectivity\u2014nervous system development, cell\u2013cell adhesion (both homophilic and heterophilic), synapse assembly, and glutamatergic transmission with PSD95 clustering regulation. A few terms touch on ossification and endothelial lumen formation but are minor compared to the synaptic/neuronal signals. This supports labeling the cluster as neuronal adhesion and synapse development.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0007157","count":2},{"id":"GO:0007156","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0051965","count":2}]},{"hash":"1419154699839090809","title":"Unknown","description":"The top GO terms are heterogeneous: somite, thalamus, and pharyngeal system development indicate developmental processes, while SREBP signaling pathway suggests lipid metabolism regulation, nuclear pore localization is a cellular component, and several entries are membrane transport of nucleobases. This mix does not reveal a single cohesive functional theme for the cluster, so I label it Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061053","count":2},{"id":"GO:0021794","count":2},{"id":"GO:0060037","count":2},{"id":"GO:0032933","count":2},{"id":"GO:0031081","count":2}]},{"hash":"1472075982592980082","title":"Nuclear RNA processing and ribosome biogenesis","description":"The majority of terms point to nuclear RNA maturation and ribosome assembly: ribosomal subunit export from the nucleus, snRNA processing, and nonfunctional rRNA decay, plus related nuclear transport terms. These features suggest a cluster centered on nuclear RNA processing and ribosome biogenesis, with minor developmental GO terms that may reflect pleiotropy rather than core function.","confidence":"High","size":16,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042176","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0000060","count":2},{"id":"GO:0000056","count":2}]},{"hash":"1246582188755456645","title":"Unknown","description":"The top GO terms span mating/nuclear fusion events (karyogamy, nuclear migration in conjugation), microtubule dynamics, ion homeostasis, and diverse metabolic/hormonal processes, with no unifying function dominating the cluster. There isn\u2019t a coherent theme that ties the majority of the proteins together, so a specific, representative label cannot be confidently assigned.","confidence":"","size":16,"edges":12,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902455","count":1},{"id":"GO:0000743","count":1},{"id":"GO:0031534","count":1},{"id":"GO:0000742","count":1},{"id":"GO:0006874","count":1}]},{"hash":"238089719798751163","title":"Unknown","description":"The GO terms show a mix of biosynthetic processes (biotin, antibiotic, phosphatidylcholine biosynthesis), protein/post-translational modifications (peptidyl-arginine hydroxylation, N-terminal peptidyl-alanine trimethylation), RNA modification (tRNA wobble uridine modification), and stress/response signals (response to xenobiotic stimulus, tellurium ion, cellular senescence, cell growth) with no single unifying function. Because there isn\u2019t a coherent theme tying these functions together, a precise label isn\u2019t justifiable. ","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0016049","count":5},{"id":"GO:0035690","count":5},{"id":"GO:0030961","count":5}]},{"hash":"1955639659181169462","title":"TLR-driven antibacterial defense signaling","description":"The prominent GO terms indicate innate immune responses to bacteria, including defense against Gram-positive and Gram-negative bacteria, LPS-mediated signaling, and Toll-like receptor 2 pathways, supporting a shared function in bacterial recognition and innate immune signaling. Occasional terms for Rho regulation, ubiquitination, and otolith morphogenesis may reflect secondary roles or annotation noise.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0031663","count":2},{"id":"GO:0071222","count":2}]},{"hash":"502725572583527742","title":"Pole plasm mRNA localization","description":"This cluster highlights terms related to pole plasm oskar mRNA localization and pole plasm protein localization, along with mRNA processing and nonsense-mediated decay, suggesting a theme of germ-plasm\u2013associated RNA localization and RNA handling during early development. The presence of a number of unrelated terms (e.g., lung epithelial differentiation, memory, angiogenesis) indicates the annotations may be broad for individual proteins and do not point to a single cohesive pathway across all members, making the linkage moderate rather than strong.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060487","count":2},{"id":"GO:0007616","count":2},{"id":"GO:1900242","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0001525","count":2}]},{"hash":"1937354458764297465","title":"Developmental ECM Organization and Tissue Morphogenesis","description":"This cluster is dominated by developmental GO terms across multiple tissues (limb, kidney, retina, skin, male gonad) and by extracellular matrix organization, pointing to a common theme of tissue morphogenesis and ECM remodeling. Additional hints from cytoskeletal dynamics (actin cortex assembly) and signaling (positive regulation of GTPase activity) support processes that drive cell shape change and tissue formation during development.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060173","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0019800","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0030198","count":2}]},{"hash":"269782474037369108","title":"Neural Signaling and Sensory Processing","description":"The top GO terms cluster around sensory perception (pain, visual perception/learning) and neural signaling (dopaminergic synaptic transmission, ERK cascade), suggesting a central theme of neural processing. Additional terms point to thermal/metabolic cues (temperature stimulus, diet-induced thermogenesis) that can influence neural activity, though a few items like heart development are peripheral. Overall, the cluster seems best described by neural signaling integrated with sensory perception and thermal cues.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0002024","count":9},{"id":"GO:0071502","count":9},{"id":"GO:0010759","count":8},{"id":"GO:0008542","count":8}]},{"hash":"17652861232287904","title":"Cardiovascular inflammation and calcium signaling","description":"This cluster centers on cardiovascular-related processes (blood coagulation, heart development, inflammatory response) and calcium signaling (release of Ca2+ into cytosol, GPCR-PLC pathways). Additional terms on nitric oxide production and mechanical-stimulus response reinforce a vascular signaling/inflammation theme. Together, they point to a coherent cardiovascular inflammation and calcium-signaling program.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0051482","count":3},{"id":"GO:0051209","count":3}]},{"hash":"1769976744894779993","title":"Fungal translation initiation and proteostasis under stress","description":"The top GO terms point to translation initiation (formation of translation preinitiation complex, IRES-dependent translation), unfolded protein response regulation, and proteasome storage granule assembly, all of which tie into how cells manage protein synthesis and quality control under stress. Additional terms related to cell cycle, mitosis, and lipid metabolism (ergosterol biosynthesis) suggest a broader fungal growth and metabolic adjustment context, indicating a coordinated response that links translation, proteostasis, and growth signaling in fungi under challenging conditions.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046856","count":1},{"id":"GO:0070452","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0051726","count":1},{"id":"GO:0075522","count":1}]},{"hash":"533665575556834862","title":"Energy metabolism and storage biosynthesis","description":"The top GO terms point to a broad set of metabolic and biosynthetic processes tied to energy production, storage, and utilization (fatty acid beta-oxidation, glycogen and carnitine biosynthesis, poly-hydroxybutyrate biosynthesis), with supporting terms for gluconeogenesis regulation and developmental/metabolic adaptation contexts. While the interaction network is sparse, these terms collectively imply a cluster centered on metabolic energy metabolism and storage pathways.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0051262","count":3},{"id":"GO:0042619","count":3},{"id":"GO:0033539","count":2},{"id":"GO:1904070","count":2}]},{"hash":"1076854341814278666","title":"Thermal and sensory-response cluster","description":"The top GO terms cluster around temperature-related processes (diet-induced thermogenesis, cellular response to temperature stimulus, heat generation) and sensory perception (pain, vision), suggesting these proteins participate in thermoregulation and broader sensory signaling; a few other terms (xenobiotic response, mucus secretion, serotonin signaling, neutrophil activity) may reflect broader or pleiotropic roles, but the dominant theme is thermal/sensory response.","confidence":"Medium","size":16,"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:0042493","count":9},{"id":"GO:0007601","count":9}]},{"hash":"1998084384975559714","title":"Neurodevelopment and Ciliogenesis","description":"The cluster\u2019s top GO terms cluster around neural development (forebrain and retina development, neural tube closure) and ciliogenesis (cilium assembly), with supporting roles in cytoskeletal dynamics (microtubule-based movement) and cell cycle processes. This suggests proteins involved in neural tissue formation and ciliary structure/function, making a cohesive neurodevelopment/ciliogenesis theme appropriate.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0016477","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0060271","count":4},{"id":"GO:0051301","count":4}]},{"hash":"143962443203741709","title":"Unknown","description":"The top GO terms pull in both neural development (thalamus, adenohypophysis, perineurial glial growth) and cholesterol metabolism/transport (cholesterol homeostasis, intestinal absorption, efflux) with additional transport terms, showing no single dominant biological theme. This mix suggests the proteins do not cluster around one cohesive function, so an Unknown label best fits.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021794","count":4},{"id":"GO:0060037","count":4},{"id":"GO:0042632","count":3},{"id":"GO:0030299","count":3},{"id":"GO:0033344","count":3}]},{"hash":"798096117775449595","title":"Glutamatergic Synapse Regulation and Plasticity","description":"The prominent GO terms center on regulation of excitatory synaptic transmission, NMDA/AMPA receptor activity, and long-term potentiation, with PSD-95 clustering and cell-adhesion elements supporting synaptic contacts; Wnt signaling also relates to synapse development, while sarcomere organization reflects cytoskeletal components at postsynaptic sites. This supports a cohesive label focusing on excitatory synapse function and plasticity.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002087","count":3},{"id":"GO:0051968","count":3},{"id":"GO:2000969","count":3},{"id":"GO:2000463","count":3},{"id":"GO:2000310","count":3}]},{"hash":"720420565519684510","title":"Developmental differentiation and actin cytoskeleton regulation","description":"The GO terms show development-related processes (skin development, lens fiber differentiation, forebrain development) alongside cytoskeleton regulation (negative regulation of Arp2/3-mediated actin nucleation, barbed-end actin filament capping) and ubiquitination, suggesting proteins involved in developmental differentiation that also regulate actin dynamics and protein turnover.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007338","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0071397","count":3},{"id":"GO:0034392","count":3},{"id":"GO:0070306","count":2}]},{"hash":"1235970355080237673","title":"Unknown","description":"The GO terms are very diverse, including prostaglandin biosynthesis, vitamin D response, immune chemotaxis regulation, reproductive development, androgen metabolism, muscle differentiation, ozone response, and multiple xenobiotic/carcinogen degradation pathways. There isn't a single coherent function tying these terms together, so a concise, specific label can't be assigned.","confidence":"","size":16,"edges":20,"triangles":9,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001516","count":15},{"id":"GO:0033280","count":13},{"id":"GO:0010760","count":12},{"id":"GO:0008585","count":12},{"id":"GO:0008209","count":11}]},{"hash":"315126493109503382","title":"Unknown","description":"Top terms across the proteins are diverse, spanning calcium signaling, hormone response, muscle regeneration, mechanosensory pain, SNARE regulation, telomere maintenance, and membrane/telomere localization, with some terms obsolete. There is no single cohesive function tying these proteins together, so a clear, interpretable label cannot be assigned.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":5},{"id":"GO:0071446","count":3},{"id":"GO:0043403","count":3},{"id":"GO:0050966","count":3},{"id":"GO:0090501","count":3}]},{"hash":"47473541524293279","title":"Calcium-regulated cytoskeletal remodeling","description":"The top terms cluster around calcium signaling (release of sequestered calcium into cytosol) together with cytoskeletal dynamics (actin filament bundle assembly and cellular response to mechanical stimulus) and membrane/vesicle trafficking (pinocytosis, maintenance of protein location in plasma membrane). The mixture suggests a coherent theme where calcium flux drives cytoskeletal remodeling and related membrane processes, with auxiliary links to mRNA processing and differentiation signals. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":4},{"id":"GO:0072660","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0006397","count":2}]},{"hash":"1384302144336473442","title":"TLR-mediated innate immune signaling","description":"This cluster is dominated by GO terms tied to Toll-like receptor signaling (TLR2, TLR9), LPS response, MyD88-independent pathways, and I-kappaB/NF-\u03baB activation, plus defense against bacteria. These collectively point to innate immune recognition and inflammatory signaling, with a few outlier terms related to actin regulation or other processes that are less central to this theme but do not override the core TLR/NF-\u03baB signal. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034316","count":2},{"id":"GO:0031915","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0002756","count":2}]},{"hash":"1545193475902264410","title":"Immune Signaling and Cell-Cycle Regulation","description":"Proteins in this cluster show enrichment for signaling-related GO terms, including Fc-epsilon receptor signaling and positive regulation of NF-kappaB, along with regulatory functions such as phosphorylation, and cell-cycle-related processes like G2/M transition, plus defense/response terms, suggesting a broad theme of signal transduction that interfaces immune-like signaling with growth control.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0000086","count":2},{"id":"GO:0051000","count":2},{"id":"GO:0000920","count":1}]},{"hash":"855059144017413009","title":"Complement Activation and Inflammatory Signaling","description":"The dominant terms are complement activation (classical and lectin) and blood coagulation, pointing to innate immune and hemostatic functions. Additional signals such as positive regulation of Toll signaling and fractalkine production support an inflammatory response axis. Some developmental terms appear, but they do not define the core function of the cluster. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0045752","count":4},{"id":"GO:0050754","count":4}]},{"hash":"239316985235267332","title":"Retinoid and lipid metabolism","description":"This cluster is dominated by GO terms about retinol and retinal metabolism (retinol metabolic process, retinal metabolic process) and lipid catabolic activities (fatty acid beta-oxidation, ethanol catabolic/oxidation related terms). While a few terms (like nose development and some obsolete annotations) are less coherent, the strongest signals point to retinoid processing and broader lipid metabolism as the shared function of these proteins.","confidence":"High","size":15,"edges":82,"triangles":240,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":6},{"id":"GO:0055114","count":5},{"id":"GO:0006068","count":4},{"id":"GO:0006069","count":4},{"id":"GO:0046370","count":4}]},{"hash":"2041039556968922460","title":"Rho-GTPase signaling and calcium handling in muscle and neurons","description":"The cluster is driven by GO terms for positive regulation of GTPase activity and regulation of Rho signaling, plus several calcium-handling terms (sarcoplasmic reticulum calcium release and ryanodine receptor regulation) and cardiac/neural development signals (ventricular muscle morphogenesis and synaptic regulation). This points to a shared module of cytoskeletal signaling intertwined with calcium dynamics that operates in muscle (heart) and neural tissues, with some peripheral processes. Confidence: Medium","confidence":"","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0014808","count":3},{"id":"GO:0060315","count":3},{"id":"GO:0055010","count":3}]},{"hash":"286893095176048122","title":"Vertebrate organogenesis and transcriptional regulation","description":"The cluster contains multiple development-related terms across diverse tissues (glands, gonads, trachea cartilage, forebrain) along with DNA-templated transcription and regulation of transcription factors, and signaling responses (TGF-beta, NF-kappaB). This suggests a general theme of organ development governed by transcriptional control and signaling rather than a single specific tissue. ","confidence":"Medium","size":15,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070384","count":2},{"id":"GO:2000020","count":2},{"id":"GO:0060534","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007548","count":2}]},{"hash":"1571501849152470247","title":"Neural development and synaptic signaling","description":"The cluster\u2019s top GO terms are dominated by nervous system development and regulation of axonogenesis, with additional signals for ERK and Wnt pathways, which are key in neural differentiation and developmental signaling. The presence of excitatory postsynaptic potential and Rab-mediated signal transduction suggests synaptic function and vesicle trafficking, consistent with neurons. While there are a few terms related to other developmental contexts (e.g., hair follicle placode formation, T cell receptor signaling), the strongest, most frequent terms point to a neural development/synaptic signaling theme.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0050771","count":8},{"id":"GO:0043552","count":8},{"id":"GO:0070374","count":8},{"id":"GO:0090263","count":7}]},{"hash":"1416540687692833483","title":"Transmembrane transporters","description":"The cluster is enriched for transmembrane transport of diverse substrates (nitrite, nitrate, sugars, vitamins, xenobiotics, etc.), pointing to membrane transporter proteins spanning cellular membranes.","confidence":"High","size":15,"edges":23,"triangles":15,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":6},{"id":"GO:1900754","count":6},{"id":"GO:0006855","count":6},{"id":"GO:0015706","count":6},{"id":"GO:0071805","count":6}]},{"hash":"1913750702680632016","title":"Unknown","description":"The terms span diverse biosynthetic and regulatory processes (antibiotic biosynthesis and response, PHB and lipid biosynthesis, hormone metabolism, broad transcription regulation) across different biological contexts, with no singular, cohesive function connecting all proteins. Confidence is None.","confidence":"","size":15,"edges":28,"triangles":21,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0006355","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0046677","count":6},{"id":"GO:0042619","count":6}]},{"hash":"1929115358027052891","title":"Neurodevelopment and Forebrain Patterning","description":"The set of GO terms is strongly centered on neural development and forebrain patterning (brain development, forebrain development, cerebral cortex regionalization, anterior/posterior pattern specification), with additional hints of neuromuscular processes and organ induction. This suggests the proteins cluster around neural development and brain regionalization, with some broader morphogenesis terms. Despite some non-brain terms, the dominant theme supports this label.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0021983","count":1},{"id":"GO:2000288","count":1},{"id":"GO:0050905","count":1},{"id":"GO:0021796","count":1}]},{"hash":"2190850923892445010","title":"Translation and metabolism","description":"The cluster shows a focus on protein synthesis (translation) and various metabolic activities, including thiamine biosynthesis, alkane and nicotine catabolism, and aerobic respiration, suggesting a group centered on growth powered by translation and energy metabolism. Some unrelated GO terms (e.g., gland development, stem cell proliferation) may reflect annotation noise rather than a shared function, but the dominant pattern supports a metabolism-and-translation theme.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0009228","count":2},{"id":"GO:0021983","count":1},{"id":"GO:0007568","count":1},{"id":"GO:2000648","count":1}]},{"hash":"1364370464407980711","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":22,"triangles":2,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0046944","count":2},{"id":"GO:0035719","count":2},{"id":"GO:0006458","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0097428","count":2}]},{"hash":"1405788478310046731","title":"Synapse Assembly and Signaling Regulation","description":"The cluster centers on synaptic organization (postsynaptic density assembly, synaptic vesicle clustering) and broad regulation of signaling pathways (ERK/MAPK, PI3K/AKT, T cell receptor signaling), suggesting a module that modulates both synapse architecture and its signaling outputs rather than a single pathway.","confidence":"Medium","size":15,"edges":44,"triangles":71,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050860","count":6},{"id":"GO:0051895","count":6},{"id":"GO:0097107","count":6},{"id":"GO:0000200","count":6},{"id":"GO:2000808","count":6}]},{"hash":"1346985862799912958","title":"Neuronal Translation Initiation and Synaptic Regulation","description":"The terms cluster around translation initiation and its regulation (formation of translation preinitiation complex, reinitiation, and general initiation regulation) alongside neural functions such as glutamatergic synaptic transmission, receptor clustering, and visual learning. This suggests the proteins work together to control local protein synthesis at synapses, a key process in synaptic plasticity and learning. Some viral translation terms appear, but the core signal supports neural translation control linked to synaptic function.","confidence":"Medium","size":15,"edges":32,"triangles":15,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0075522","count":2},{"id":"GO:0031047","count":2}]},{"hash":"978735305401971935","title":"Vision and dopaminergic neural signaling","description":"This cluster centers on vision-related terms (visual perception, retina development, visual learning) and dopaminergic signaling (dopaminergic synaptic transmission, behavioral response to cocaine), suggesting a module tied to the visual system and brain reward pathways. A few outlier terms (macrophage chemotaxis, prostaglandin response, heart development) may reflect annotation noise or multifunctional proteins, so the label is informative but not perfect.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010759","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0071380","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0070374","count":3}]},{"hash":"1144171287988011278","title":"Ubiquitin-Proteasome System","description":"This cluster centers on ubiquitination and protein degradation pathways: ubiquitin-dependent protein catabolic process, various forms of protein ubiquitination including autoubiquitination and actin/K6-linked ubiquitination, and ERAD-related activity, with supporting links to histone turnover and immune signaling. Together, these GO terms point to a cohesive set of proteins involved in tagging proteins for degradation and regulating proteostasis.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:1903265","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0016567","count":4},{"id":"GO:0051865","count":4}]},{"hash":"681534769531884279","title":"Proteostasis and ribosome biogenesis","description":"This cluster is dominated by protein quality control processes (protein deubiquitination, deglycosylation, aggresome assembly) and a signal for ribosome biogenesis (maturation of SSU-rRNA). Other terms point to cell cycle and transcription regulation, with a DNA repair term, indicating broader cellular maintenance and stress responses. Taken together, the label reflects a module centered on maintaining proteome and ribosome integrity under stress.","confidence":"Medium","size":15,"edges":55,"triangles":134,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":5},{"id":"GO:0006517","count":5},{"id":"GO:0070842","count":4},{"id":"GO:0002109","count":4},{"id":"GO:0030474","count":4}]},{"hash":"2155760641612618767","title":"Unknown","description":"The GO terms are highly disparate, ranging from lysine methylation (protein modification) to various biosynthetic and developmental processes across different organisms (chlorophyll, biotin, juvenile hormone, chondroitin sulfate, etc.). With zero edges and no clear common function tying these proteins together, there isn\u2019t a coherent theme to label beyond Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018027","count":2},{"id":"GO:0018026","count":2},{"id":"GO:0075015","count":2},{"id":"GO:0019276","count":2},{"id":"GO:0050650","count":2}]},{"hash":"651353723934729991","title":"Embryonic development and organ morphogenesis","description":"These terms cluster around broad developmental processes across multiple tissues\u2014morphogenesis of eye, cartilage, prostate; left-right patterning; and placental, pancreatic endocrine, and endocrine system development. The shared theme is embryogenesis and tissue formation rather than a single specific pathway, supporting a general developmental/morphogenesis label.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0003323","count":3},{"id":"GO:0060972","count":3},{"id":"GO:0060707","count":3}]},{"hash":"344582712205613885","title":"Neural development and brain morphogenesis","description":"The top GO terms cluster around brain and CNS development, dendrite development, and neuronal differentiation, with supporting signals of neuronal structure (cortical microtubule localization) and cell-matrix adhesion. While some terms (angiogenesis, endodermal differentiation) are broader developmental processes, the strongest and most representative signals point to neural development and brain formation.","confidence":"Medium","size":15,"edges":101,"triangles":406,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0008284","count":5},{"id":"GO:0043087","count":5},{"id":"GO:0007420","count":5},{"id":"GO:0001525","count":4},{"id":"GO:0007161","count":4}]},{"hash":"2060308848655694047","title":"Nuclear transcription, replication, and RNA processing","description":"This cluster is dominated by GO terms for DNA-templated transcription, DNA replication, and various RNA processing steps (including snoRNA and rRNA processing) plus ribosome biogenesis. Together, these terms point to a set of nuclear factors coordinating gene expression and ribosome assembly, with a potential additional noise term from a pollen-specific differentiation process. The collection is coherent but broad, not pointing to a single narrowly defined function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0034965","count":1},{"id":"GO:0030261","count":1},{"id":"GO:0048235","count":1}]},{"hash":"183014069758262676","title":"Vision- and neural-development signaling","description":"This cluster is driven by vision-related GO terms, with visual perception and regulation of opsin-mediated signaling appearing prominently, pointing to a core theme in the visual system and its signaling pathways. Supporting terms like Schwann cell development and branching in blood vessel morphogenesis suggest broader neural-development and organ-development contexts that accompany these signaling processes. Taken together, the cluster seems representative of vision-related signaling with accompanying neural development signals, rather than a single narrow pathway.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0001975","count":3},{"id":"GO:0010800","count":2},{"id":"GO:0014044","count":2}]},{"hash":"1367648777979764373","title":"NF-kappaB\u2013driven inflammation and TNF signaling","description":"The top GO terms center on canonical NF-kappaB signaling, TNF production, IL-1 response, and LPS signaling, all hallmark components of inflammatory and immune signaling that can drive apoptosis (execution phase) under stress. Some terms also touch on heart development and calcium-regulated cardiac function, which may reflect broader tissue contexts rather than a core shared function. Overall, the cluster appears to reflect inflammatory signaling networks with apoptosis involvement, rather than a single, tightly coupled pathway. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097194","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0032760","count":2},{"id":"GO:0031663","count":2}]},{"hash":"845385439326141960","title":"Ciliary tubulin assembly and renal development","description":"Based on the dominant GO terms, this cluster centers on ciliogenesis and microtubule organization (cilium assembly, protein localization to cilium, tubulin complex assembly, cortical microtubule organization) and kidney-related functions (pronephros development, renal filtration). While there are a few outliers (e.g., fat cell differentiation, transcription elongation), the core theme ties to ciliary machinery and renal development. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":2},{"id":"GO:0048793","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0061512","count":1},{"id":"GO:0097205","count":1}]},{"hash":"2233854409230045810","title":"Retroviral entry, reverse transcription, and integration","description":"The top GO terms cluster around retroviral-like steps: viral penetration into host nucleus, RNA-templated DNA biosynthesis (reverse transcription), DNA integration, and establishment of integrated proviral latency. Additional terms about DNA replication and transcription regulation, plus suppression of RNA silencing, fit a viral genome integrating and influencing host transcription, with possible host-pathogen interaction effects. This supports a retroviral life-cycle\u2013oriented theme for the cluster.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:1903704","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0039651","count":1}]},{"hash":"630965521076390846","title":"Glutamatergic Synaptic Transmission Regulation","description":"The top GO terms cluster around glutamatergic synaptic transmission and ionotropic glutamate receptor signaling, including regulation and related phenotypes like prepulse inhibition and pain modulation, suggesting a coherent theme of modulation of glutamatergic synapses. Some terms (endosome size, Rho signaling) are ancillary, but the dominant signal points to glutamatergic signaling and its regulation.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0060134","count":2},{"id":"GO:0051930","count":2},{"id":"GO:0001975","count":2}]},{"hash":"304503024203818531","title":"Regulators of signaling and vesicle trafficking","description":"This cluster shows enrichment for regulation of Rho and Ras signaling, GPCR internalization, synaptic vesicle priming, and intracellular protein transport, along with neuronal dendrite growth and vascular remodeling terms. The common thread is proteins that modulate signaling pathways and vesicle trafficking across diverse cell types (neuronal, endothelial, and reproductive), rather than a single specific process. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0016525","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0016082","count":2}]},{"hash":"1347626607546651553","title":"Neural signaling and plasticity","description":"These proteins cluster around neural processes: sensory perception of pain, long-term synaptic potentiation, and visual learning point to neural signaling and plasticity; calcium and manganese ion transport support neuronal activity. While other terms touch on development, metabolism, or immune responses, the dominant theme is neuronal signaling and synaptic plasticity, justifying this label.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0007275","count":5},{"id":"GO:0006828","count":5},{"id":"GO:0098703","count":5},{"id":"GO:0002024","count":5}]},{"hash":"987703474154490648","title":"Developmental gene expression and chromatin regulation","description":"This cluster is dominated by terms involved in RNA processing (mRNA splicing), chromatin modification (histone methylation) and ubiquitination, plus cell cycle regulation (APC-dependent catabolic process) and multicellular development. Together, they point to a cohesive theme of coordinated gene expression and chromatin-state control during development and cell division, with some stress-related terms appearing as broader context. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0071276","count":2}]},{"hash":"1303473976197378136","title":"Retina development and visual signaling","description":"The top GO terms group around retina development, visual perception, and opsin-mediated signaling, with calcium release in cytosol characteristic of phototransduction. ERK cascade regulation and GTPase activity modulation suggest associated signaling pathways, while some terms (immune response, cell proliferation) may reflect broader roles. Overall, the dominant theme is retina/vision-related signaling and development.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0022400","count":5},{"id":"GO:0060041","count":5},{"id":"GO:0051209","count":5},{"id":"GO:0008283","count":5}]},{"hash":"180033332683408860","title":"Fatty acid oxidation and energy metabolism","description":"The top GO terms cluster around lipid and carbohydrate metabolism: fatty acid beta-oxidation (GO:0033539), carnitine biosynthesis (GO:0045329), glycogen biosynthesis (GO:0005978), leucine catabolic process (GO:0006552), and regulation of gluconeogenesis (GO:0006111). Prostaglandin metabolism and cold response further point to metabolic regulation, with liver development/post-embryonic development suggesting a broader organismal energy context. Together they imply a cluster of proteins involved in energy production and lipid oxidation.","confidence":"Medium","size":15,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0033539","count":2},{"id":"GO:1904070","count":2},{"id":"GO:0006111","count":2},{"id":"GO:0006693","count":2},{"id":"GO:0009409","count":2}]},{"hash":"1836044489410123791","title":"Antiviral innate immune signaling","description":"Based on the Top Terms, the cluster is enriched for innate immune and antiviral response terms, including innate immune response, cellular response to exogenous dsRNA, and cellular response to type I interferon, which together point to antiviral defense and interferon signaling. A few terms related to GPCR signaling regulation and development/glycosylation are present but less central, so the primary theme is antiviral innate immunity.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008277","count":4},{"id":"GO:1903070","count":2},{"id":"GO:0048668","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0071360","count":2}]},{"hash":"700482890264303784","title":"DNA maintenance and translation machinery","description":"This cluster aggregates proteins tied to genome maintenance (DNA repair and recombination) and to translation-related processes (tRNA charging and translational fidelity), plus mitochondrial tRNA aminoacylation. A minority of terms also touches innate immunity, but the dominant themes are nucleic acid maintenance and protein synthesis, with mitochondrial involvement. The absence of edges aligns with a diverse functional mix rather than a single interaction network.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0032981","count":1},{"id":"GO:0019918","count":1},{"id":"GO:0090305","count":1},{"id":"GO:0006450","count":1}]},{"hash":"1206846600753728528","title":"Neuronal development and synaptic signaling","description":"The proteins show enrichment for nervous system development, axon guidance, and synaptic signaling terms (including ionotropic glutamate receptor signaling and regulation of synapse structure/activity) and calcium homeostasis in the ER, suggesting a coherent theme of neuronal development and synaptic function. Occasional terms like amyloid fibril formation and regulation of fibrinolysis appear as ancillary annotations rather than core drivers of the cluster.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0048669","count":2},{"id":"GO:0016199","count":2},{"id":"GO:0051918","count":2},{"id":"GO:1990000","count":2}]},{"hash":"349797492904171231","title":"RNA silencing and splicing regulation","description":"The cluster centers on post-transcriptional control, with GO terms for regulatory ncRNA-mediated gene silencing, miRNA-mediated silencing, and spliceosome-driven mRNA splicing, plus translation initiation components (preinitiation complex formation and IRES-dependent initiation). This points to a cohesive RNA-processing module involved in RNA silencing and regulation of translation, rather than a single signaling pathway.","confidence":"High","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0090394","count":6},{"id":"GO:0071230","count":5},{"id":"GO:1905663","count":5}]},{"hash":"1040471254214092724","title":"RNA processing and translation control","description":"The cluster is dominated by translation-related GO terms (formation of translation preinitiation complex, translation, IRES-dependent initiation) along with miRNA/ncRNA-mediated silencing and spliceosome-associated mRNA processing terms. This points to a coherent theme where translation is tightly linked with RNA maturation and silencing pathways. ","confidence":"High","size":14,"edges":10,"triangles":1,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0006412","count":4},{"id":"GO:1905663","count":3},{"id":"GO:1901407","count":3},{"id":"GO:0035278","count":3}]},{"hash":"345880455301693166","title":"Secretory vesicle trafficking and exocytosis","description":"Given the dominance of GO terms describing vesicle movement between ER, Golgi, and endosomes, vesicle fusion to Golgi, intra-Golgi and retrograde transport, plus exocytosis-related processes at the synapse and secretory sites (including histamine release), the cluster appears to represent the secretory pathway and vesicle trafficking with exocytosis.","confidence":"High","size":14,"edges":19,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0048280","count":4},{"id":"GO:0098967","count":3},{"id":"GO:0016079","count":3},{"id":"GO:1902259","count":3},{"id":"GO:0006888","count":3}]},{"hash":"2064485680299201963","title":"Signaling and Development Pathways","description":"The top GO terms center on signal transduction and pathway regulation (phosphorylation, phosphatase activity, GPCR signaling, Wnt calcium signaling, Fc-epsilon receptor signaling, abscisic acid signaling), along with tissue/Development terms (Schwann cell development, heart development, visual perception). This suggests a cluster of proteins involved in diverse signaling processes that influence development and cellular regulation, rather than a single unified pathway. Confidence reflects this broad, cohesive theme but acknowledges the mix of unrelated processes; thus the label is representative but not tightly specific.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010800","count":3},{"id":"GO:0032516","count":3},{"id":"GO:0014044","count":3},{"id":"GO:0038095","count":3},{"id":"GO:0007601","count":3}]},{"hash":"1369801400253452230","title":"Fungal ER Stress and Cell Wall Biosynthesis","description":"The top GO terms point to fungal-specific processes: unfolded protein response and ER stress regulation, SRP-dependent protein targeting to the membrane, and beta-glucan cell wall biosynthesis, along with cell morphogenesis and mating-related karyogamy. This combination suggests a fungal-centric module centered on coordinating protein handling/secretion with cell wall assembly during growth and development. Hence the label above.","confidence":"Medium","size":14,"edges":40,"triangles":58,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0000742","count":4},{"id":"GO:0034620","count":3},{"id":"GO:0070880","count":3},{"id":"GO:0000902","count":3}]},{"hash":"168984081644313810","title":"RNA processing and translation regulation","description":"These proteins cluster around post-transcriptional control: splicing and spliceosome activity (formation of translation preinitiation complex; mRNA splicing via spliceosome; regulatory splicing), mRNA export, stability, and regulation of translational initiation. The emphasis on spliceosome-related terms and translation initiation/stability suggests a cohesive module governing RNA processing and downstream translation control, with a minor role for signaling-related GTPase regulation.","confidence":"High","size":14,"edges":32,"triangles":26,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0031047","count":2}]},{"hash":"1479035060370009280","title":"Small-molecule metabolism and xenobiotic response","description":"Based on the Top Terms, the cluster is enriched for several biosynthetic processes, including pyruvate biosynthesis, serine biosynthesis, biotin biosynthesis, and lipopolysaccharide biosynthesis, as well as antibiotic biosynthetic and antibiotic response processes. While some GO terms relate to metabolic pathways, others indicate responses to xenobiotics such as antibiotics and drugs (morphine, glucocorticoids). This pattern suggests a group of proteins involved in core metabolism with modulation by small-molecule signals or environmental compounds, hence a \"Small-molecule metabolism and xenobiotic response\" cluster.","confidence":"Medium","size":14,"edges":10,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0042866","count":3},{"id":"GO:0006564","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0009103","count":2}]},{"hash":"2260381736730326094","title":"Embryogenesis and morphogenesis","description":"This cluster is dominated by developmental and morphogenetic GO terms\u2014placental/trophoblast differentiation, epithelial-to-mesenchymal transition related to heart/endocardial cushion formation, left-right patterning, cartilage morphogenesis, and endocrine system development\u2014indicating a group of proteins involved in embryogenesis and tissue morphogenesis. A ribosomal large subunit export term appears as a minor outlier and does not change the overall theme.","confidence":"Medium","size":14,"edges":13,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060972","count":2}]},{"hash":"2208620385325877453","title":"Mitotic cell cycle and chromatid segregation","description":"The cluster is dominated by mitosis-related GO terms (sister chromatid biorientation, mitotic cell cycle, DNA replication) and DNA-templated transcription, suggesting involvement in cell-division machinery and genome duplication. Some terms also reflect cytoskeletal dynamics and intracellular transport that support mitosis.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031134","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0006260","count":4}]},{"hash":"2119377794668374427","title":"Ubiquitin-Dependent Proteolysis in Development","description":"The cluster is dominated by GO terms for SCF-dependent ubiquitin-proteasome\u2013mediated protein degradation and protein polyubiquitination, indicating a core function in ubiquitin-dependent proteolysis. Additional terms cover neural development processes (synapse assembly, neural tube closure) and cytoskeletal dynamics (microtubule polymerization), suggesting a link between proteostasis and development/neural formation.","confidence":"Medium","size":14,"edges":12,"triangles":2,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031146","count":10},{"id":"GO:0000209","count":9},{"id":"GO:0030174","count":9},{"id":"GO:1903378","count":9},{"id":"GO:0051436","count":9}]},{"hash":"1395403507848443748","title":"Microtubule Dynamics and Neuronal Transport","description":"This cluster centers on microtubule remodeling and transport, highlighted by terms on microtubule depolymerization and spindle assembly, and by neuron-specific transport and projection maintenance, with a few broader cytoskeletal processes observed in other contexts.","confidence":"Medium","size":14,"edges":73,"triangles":205,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":4},{"id":"GO:0006268","count":4},{"id":"GO:0009904","count":3},{"id":"GO:0070462","count":3},{"id":"GO:0051255","count":3}]},{"hash":"2071238332129043040","title":"Ribosome and translation machinery","description":"The dominant GO terms are all about translation and ribosome function (translation, translational initiation/termination, cytoplasmic and mitochondrial translation, ribosome disassembly, and selenocysteine incorporation). Glial cell proliferation appears but is less representative. Overall, these proteins appear to be components of the protein synthesis machinery.","confidence":"High","size":14,"edges":26,"triangles":21,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0046677","count":4},{"id":"GO:0006413","count":4},{"id":"GO:0014009","count":3},{"id":"GO:0001514","count":3}]},{"hash":"929607455897203664","title":"TLR-driven innate immunity and cytokine production","description":"The cluster is dominated by GO terms related to innate immune response, macrophage activation, cytokine production regulation, and interferon signaling, including responses to dsRNA and MyD88-independent TLR pathways, indicating a module focused on antiviral/inflammatory immune signaling mediated by Toll-like receptors and interferons.","confidence":"High","size":14,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032741","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0045078","count":2},{"id":"GO:0050707","count":2},{"id":"GO:0043330","count":2}]},{"hash":"2060127776111523968","title":"Ubiquitination and proteasome regulation","description":"This cluster is dominated by terms relating to ubiquitin-like modifications and proteasome-dependent protein turnover (ufmylation, regulation of proteasomal ubiquitin-dependent protein catabolic process, negative regulation of protein ubiquitination). Additional GO terms point to signaling pathways that are commonly modulated by ubiquitination and degradation, such as NF-kappaB activity and estrogen receptor signaling, along with immune-related processes like IL-12 production. While some terms touch on heat response or differentiation contexts, the central, recurring theme is proteostasis control via ubiquitination/ufmylation and proteasome regulation.","confidence":"High","size":14,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0009408","count":2},{"id":"GO:1990592","count":1},{"id":"GO:0060252","count":1},{"id":"GO:0032434","count":1}]},{"hash":"1678971171048810221","title":"Pancreas development and exocrine morphogenesis","description":"The GO terms are dominated by pancreatic development concepts (pancreas morphogenesis, exocrine pancreas development) and growth, pointing to a shared role in pancreatic organogenesis. The other terms (immune signaling, glycemic response, and ECM-related processes) appear secondary to this core theme, suggesting additional but lesser roles in tissue remodeling and defense. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":5},{"id":"GO:0061113","count":5},{"id":"GO:0045752","count":3},{"id":"GO:0050754","count":3},{"id":"GO:0050832","count":3}]},{"hash":"1517730449482896117","title":"Bacterial lipid metabolism and cell-surface biosynthesis","description":"The top GO terms cluster around lipid handling and bacterial surface components: long- and medium-chain fatty acid transport, acetyl-CoA biosynthesis from acetate, lipoteichoic acid biosynthetic process, and bioluminescence, all of which point to bacterial lipid metabolism and cell-wall surface biosynthesis. While a couple of plant-related terms appear (phenylpropanoid metabolism, seed germination), the dominant pattern is bacterial lipid metabolism and envelope biosynthesis.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009698","count":5},{"id":"GO:0019427","count":5},{"id":"GO:0044539","count":5},{"id":"GO:0008218","count":5},{"id":"GO:0070395","count":5}]},{"hash":"1000598820060879311","title":"Unknown","description":"The terms span diverse tissues and developmental processes (glomerular development/filtration, chondrocyte development, CNS development, innervation, smooth muscle contraction, colon epithelial migration) with no shared pathway or molecular function, and there are no network connections in this cluster, so no coherent label other than Unknown.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0040037","count":2},{"id":"GO:0032836","count":2},{"id":"GO:0003094","count":2},{"id":"GO:0061580","count":2}]},{"hash":"612139656903970614","title":"Steroid hormone metabolism and xenobiotic detoxification","description":"The top GO terms cluster around steroid- and lipid-related pathways (prostaglandin biosynthesis, aldosterone biosynthesis, androgen metabolism, vitamin D response) and xenobiotic/detoxification processes (coumarin and dioxin catabolism, ozone response), implying a shared function in hormone metabolism with xenobiotic processing.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":14},{"id":"GO:0033280","count":14},{"id":"GO:0010760","count":12},{"id":"GO:0008209","count":12},{"id":"GO:2001037","count":12}]},{"hash":"1488798045982531731","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around embryonic development and tissue morphogenesis, including placenta development, EMT in heart cushion formation, left-right patterning, trophoblast differentiation, cartilage morphogenesis, and endocrine system development. A few RNA processing terms appear but are ancillary, so the dominant theme is developmental specification and morphogenesis.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0003323","count":8},{"id":"GO:0060972","count":8},{"id":"GO:0060707","count":8}]},{"hash":"902119031328200095","title":"Bacterial lipid metabolism and envelope biosynthesis","description":"The top GO terms cluster around lipoteichoic acid biosynthesis and menaquinone biosynthesis, plus long-chain fatty acid import and nonribosomal peptide biosynthetic activation. Together these point to bacterial cell envelope biogenesis and lipid/cofactor pathways, with secondary metabolite capabilities reflected by nonribosomal peptide biosynthesis. Some terms (e.g., seed germination) appear noisy/less relevant, suggesting annotation noise in a few entries. ","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":4},{"id":"GO:0009698","count":3},{"id":"GO:0019427","count":3},{"id":"GO:0044539","count":3},{"id":"GO:0008218","count":3}]},{"hash":"232855635678185319","title":"Developmental signaling and stress response regulation","description":"The top GO terms cluster around regulation of signaling and growth (kinase and GTPase regulation, protein autophosphorylation), protein turnover (SCF-dependent ubiquitin-proteasome degradation), and processes tied to development, cell proliferation, and stress responses (hypoxia, immune defense, skin and multicellular development). This suggests a cohesive theme of signaling-driven regulation of development and organismal responses to environmental stress. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031954","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0071902","count":3},{"id":"GO:0008284","count":3}]},{"hash":"1833502816986445743","title":"Neuronal development and synaptic adhesion","description":"The top GO terms center on nervous system development, locomotory behavior, and synaptic signaling, especially glutamatergic transmission and cadherin-mediated cell-cell adhesion. While there are additional developmental terms (placental branching, nephron development), the strongest shared theme is neural development and synaptic connectivity, justifying a label focused on neuronal development and cell adhesion.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0060672","count":2},{"id":"GO:1902897","count":1},{"id":"GO:1902355","count":1},{"id":"GO:0007157","count":1}]},{"hash":"1233703131120584605","title":"GPCR Signaling and Mucus Secretion","description":"The top GO terms cluster around G protein-coupled receptor (GPCR) signaling, including serotonin and adrenergic receptor pathways, GPCR internalization, and downstream effects like Rho signaling and opsin signaling. The presence of positive regulation of mucus secretion and prostaglandin response suggests a mucosal/epithelial GPCR signaling context, with broader implications for immune and vascular responses. Overall, these proteins likely participate in GPCR-mediated signaling networks with links to mucus secretion.","confidence":"High","size":14,"edges":23,"triangles":11,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":10},{"id":"GO:0007198","count":10},{"id":"GO:0070963","count":10},{"id":"GO:0002031","count":10},{"id":"GO:0071799","count":10}]},{"hash":"1837922549770611930","title":"GPCR-Mediated vascular and immune signaling","description":"The top GO terms point to G protein-coupled receptor signaling and its regulation (positive regulation of GTPase activity, GPCR internalization, specific receptor signaling pathways) coupled with vascular and inflammatory processes (vascular permeability, prostaglandin response, mucus secretion, neutrophil-mediated killing). This combination suggests a cohesive theme where GPCR signaling modulates vascular function and immune/inflammatory responses, aligning with both signaling and cytoskeletal regulation via Rho pathways.","confidence":"High","size":14,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0043114","count":2},{"id":"GO:0070257","count":1},{"id":"GO:0007198","count":1},{"id":"GO:0070963","count":1}]},{"hash":"182255975057608838","title":"Neuronal development and axon guidance","description":"The cluster is dominated by neural-related terms: axon guidance, pyramidal neuron differentiation, neurogenesis, and dendritic spine development, indicating a focus on neuron formation and connectivity. A few developmental terms (heart, salivary gland) are present but do not override the core neural theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033564","count":3},{"id":"GO:0050910","count":3},{"id":"GO:0042511","count":3},{"id":"GO:0007432","count":3},{"id":"GO:0007507","count":3}]},{"hash":"999143416978078514","title":"Steroid and Retinoid Biosynthesis","description":"This cluster shows a strong tilt toward biosynthetic and metabolic processes involving steroids and retinoids (androgen and retinol/retinoic acid pathways) as well as cofactor biosynthesis (tetrahydrobiopterin). It also includes other biosynthetic pathways such as antibiotic and poly-hydroxybutyrate biosynthesis, suggesting a broader theme of small-molecule biosynthesis with a possible regulatory layer (as indicated by regulation of transcription). Overall, the proteins appear to be linked to lipid/steroid and vitamin A metabolite production and processing, with related transcriptional regulation.","confidence":"Medium","size":14,"edges":34,"triangles":48,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":10},{"id":"GO:0017000","count":6},{"id":"GO:0042572","count":6},{"id":"GO:0042619","count":5},{"id":"GO:0008209","count":5}]},{"hash":"950749991047720859","title":"Developmental Cytoskeleton and Trafficking","description":"Top GO terms cluster around developmental processes (embryonic organ, spinal cord, skin development), cytoskeletal organization (cortical actin cytoskeleton), intracellular trafficking (ER to Golgi transport), and ubiquitination, suggesting a module linking tissue morphogenesis with cytoskeletal remodeling and protein handling. Although there are obsolete terms and no edges, the common theme is development intertwined with cell architecture and trafficking, justifying a focused developmental-cytoskeletal-trafficking label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030866","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0043984","count":2},{"id":"GO:0048568","count":2}]},{"hash":"1388877811627746009","title":"ER-Golgi trafficking and COPI vesicle coats","description":"The GO terms emphasize endomembrane transport: ER exit sites, ER tubular networks, ER-Golgi intermediate compartment, COPI-coated Golgi vesicles, and ARF signaling that regulates vesicle formation. Receptor internalization also ties into intracellular trafficking. Overall, the cluster appears to group proteins involved in ER-to-Golgi transport and vesicle coat assembly.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":2},{"id":"GO:0070973","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0032014","count":1},{"id":"GO:0090284","count":1}]},{"hash":"1447859170605985046","title":"SA node signaling and cardiac stretch response","description":"This cluster is driven by GO terms tied to heart rhythm regulation and mechanotransduction, notably regulation of SA node cell action potential and SA node-to-atrial cardiac muscle cell communication, along with cellular responses to mechanical stimulus and muscle stretch. Some immune/ apoptotic terms are present but the strongest, coherent theme is cardiac pacemaker signaling and mechanosensitive signaling. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072660","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0035994","count":4},{"id":"GO:0045083","count":4},{"id":"GO:0098907","count":4}]},{"hash":"583036060785749949","title":"Developmental transcriptional regulation","description":"This cluster is enriched for GO terms centered on transcription control by RNA polymerase II (DNA-templated transcription; negative regulation of transcription by Pol II; regulation of preinitiation complex assembly) and includes multiple tissue- and organ-development terms (trachea cartilage, endocrine pancreas, Harderian gland, adipose and male gonad development, etc.). The combination suggests genes that regulate transcription during diverse developmental processes rather than a single tissue-specific function.","confidence":"Medium","size":13,"edges":12,"triangles":6,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0060534","count":4},{"id":"GO:1904179","count":4},{"id":"GO:0070384","count":3},{"id":"GO:2000020","count":3}]},{"hash":"76575960298565874","title":"GPCR-MAPK Developmental Signaling","description":"This cluster is dominated by signaling-related GO terms, especially ERK1/2 (MAPK) cascade activation, GPCR/cAMP signaling, and phosphatidylinositol signaling, suggesting a shared communication network. Developmental terms (heart and skin development) together with ectodomain proteolysis and apoptosis/xenobiotic responses imply roles in tissue differentiation and broader stress regulation, pointing to a signaling module coordinating development and cellular responses.","confidence":"Medium","size":13,"edges":36,"triangles":29,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0007507","count":3},{"id":"GO:0051044","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0006915","count":2}]},{"hash":"850723086710284410","title":"Unknown","description":"The top GO terms are highly diverse, spanning metabolic biosynthesis (L-serine), ion transport (copper, zinc, cadmium), calcium homeostasis, hormone response (testosterone), phosphatase activities, and even plant-specific catabolic processes. There is no single coherent biological function that binds these terms across the cluster. Therefore I cannot assign a specific, representative label beyond Unknown.","confidence":"","size":13,"edges":42,"triangles":68,"max_degree":12,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006564","count":5},{"id":"GO:0097755","count":4},{"id":"GO:0006874","count":4},{"id":"GO:0006825","count":4},{"id":"GO:0033574","count":4}]},{"hash":"1654460382419822383","title":"Mitochondrial tRNA aminoacylation and translation","description":"The GO terms are dominated by mitochondrial tRNA charging (threonyl-, prolyl-, glycyl-), tRNA wobble modification, and translation, including regulation of translational fidelity, pointing to a cohesive theme of mitochondrial protein synthesis; a couple of peripheral terms (DNA repair, isoprenoid biosynthesis) are less central to the cluster's main function.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002098","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0045337","count":2},{"id":"GO:0070159","count":1}]},{"hash":"1835524786443851441","title":"Biosynthesis and Modification Processes","description":"The top GO terms cluster around diverse biosynthetic activities (chlorophyll, biotin, phosphatidylcholine, juvenile hormone) and related modification steps (peptidyl methylation, N-terminal trimethylation), plus RNA modification (tRNA wobble uridine). This suggests a broad set of functions tied to cellular biosynthesis and molecular modifications rather than a single pathway or interaction network, which aligns with the absence of edges and a heterogeneous term set.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":3},{"id":"GO:0036068","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0006718","count":2},{"id":"GO:0090398","count":2}]},{"hash":"1449924562393391519","title":"GPCR-Mediated Sensory and Inflammatory Signaling","description":"The top GO terms cluster around G protein-coupled receptor signaling and trafficking (GPCR internalization, opsin signaling regulation, serotonin receptor signaling), with additional terms tying to sensory perception (pain, temperature) and inflammatory/metabolic responses (prostaglandin response, mucus secretion, Rho signaling downstream of GPCRs, neutrophil-mediated killing). This suggests a shared mechanism centered on GPCR-driven cues across sensory and inflammatory contexts.","confidence":"High","size":13,"edges":32,"triangles":23,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0070257","count":6},{"id":"GO:0007198","count":6}]},{"hash":"1641868001181697230","title":"Innate Immune and Coagulation Signaling","description":"This cluster centers on innate immune responses to pathogens (lipopolysaccharide response, Toll signaling, lectin pathway complement activation) and inflammatory remodeling processes (angiogenesis, plasminogen activation, fibrinolysis, regulation of cell proliferation). A couple of terms like midbrain development and digestion are less clearly connected, but the overall theme links pathogen sensing with coagulation/inflammation-driven remodeling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0045766","count":5},{"id":"GO:0001867","count":5},{"id":"GO:0031639","count":5}]},{"hash":"1580042652197916173","title":"Growth factor and immune signaling","description":"The cluster's frequent GO terms cluster around signaling pathways linked to growth factors (PDGF response, regulation of cell growth) and immune receptor signaling (Fc receptor signaling, gamma-delta T cell differentiation), suggesting a cohesive theme of signal transduction coordinating growth and immune responses.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0061387","count":11},{"id":"GO:0007266","count":11},{"id":"GO:0060968","count":11},{"id":"GO:0007099","count":11},{"id":"GO:0045425","count":11}]},{"hash":"677160218268222867","title":"Regulatory proteins in gene expression and signaling","description":"GO terms show roles in RNA processing and transcriptional regulation (spliceosome, DNA binding), plus signaling and development (GTPase regulation, synaptic potentiation, heart development, TGF-beta response, Wnt signaling, actin crosslinking). This suggests a cluster of proteins that coordinate gene expression with developmental and signaling processes rather than a single pathway, which justifies a label focused on regulatory functions in expression and signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0051764","count":2}]},{"hash":"767030620277723334","title":"Fucosylated glycan biosynthesis and immune processes","description":"This cluster centers on glycosylation and fucosylation of N-glycans, with terms like obsolete protein glycosylation, L-fucose catabolic and N-glycan fucosylation, and Lewis A epitope biosynthesis. Immune-related terms (leukocyte migration, regulatory T cell differentiation, immune response) suggest a link between fucosylated glycans and immune signaling. Neuronal development terms may reflect broader roles of glycosylation in development. Overall, the shared theme is fucosylated glycan biosynthesis impacting immune-related functions.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":4},{"id":"GO:0042355","count":2},{"id":"GO:0010493","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0021799","count":2}]},{"hash":"1992184987616824128","title":"Inflammation and Immune Signaling","description":"The cluster is driven by GO terms tied to innate immune and inflammatory processes: NF-kappaB regulation, response to lipopolysaccharide, complement activation, and both positive and negative regulation of inflammatory cytokines. These suggest a cohesive theme around immune activation and inflammatory control, with some ancillary terms (e.g., megakaryocyte development, GI epithelium maintenance, neurogenesis) likely reflecting broader tissue remodeling and developmental contexts that can intersect with inflammatory signals. Overall, the strongest and most coherent signal is inflammation-associated immune signaling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0035855","count":3},{"id":"GO:0022008","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0006958","count":2}]},{"hash":"8689955060941739","title":"Lectin-mediated innate immunity and leukocyte activation","description":"This cluster is dominated by GO terms related to the lectin pathway of complement activation, C-type lectin receptor signaling, leukocyte tethering/rolling, and cellular responses to fungal origin, all pointing to recognition and activation of innate immune cells via lectin receptors. A few terms (e.g., nephron morphogenesis, locomotory behavior) appear incidental or broader annotations, but the strongest pattern ties to lectin-driven immune signaling and leukocyte activation.","confidence":"Medium","size":13,"edges":7,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":6},{"id":"GO:0070374","count":4},{"id":"GO:0035641","count":4},{"id":"GO:0002223","count":4},{"id":"GO:0050901","count":3}]},{"hash":"341493666815923297","title":"Developmental morphogenesis and cytoskeletal regulation","description":"The cluster\u2019s top GO terms point to broad developmental processes (root and neural plate development, endothelial proliferation, papilla formation) intertwined with cytoskeletal dynamics (localization to cortical microtubule cytoskeleton and actin organization by cell-cell adhesion) and regulatory layers (desumoylation). Together, these suggest a cohesive theme of tissue morphogenesis and cellular architecture remodeling during development. Some terms (like indole-3-methanol response) are less typical for animals, but overall the dominant signal aligns with developmental patterning and cytoskeletal regulation.","confidence":"Medium","size":13,"edges":64,"triangles":176,"max_degree":12,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0048364","count":9},{"id":"GO:0007050","count":7},{"id":"GO:0001840","count":6},{"id":"GO:0072699","count":6},{"id":"GO:0060188","count":6}]},{"hash":"612979813812494851","title":"Neural development and synapse assembly","description":"The cluster\u2019s top GO terms cluster around nervous system development, synapse assembly, and adhesion (homophilic/heterophilic cell-cell adhesion), suggesting a core function in neural connectivity and synaptic organization. Locomotory behavior supports neural activity involvement, while a couple of terms related to translation initiation are likely background noise. Overall, the theme is neural development and synaptic formation/adhesion.","confidence":"High","size":13,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":4},{"id":"GO:0007157","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0007626","count":3}]},{"hash":"809768694743261403","title":"RNA Methylation and Transcription Regulation","description":"Top terms cluster around methylation across RNA species and chromatin (tRNA methylation, rRNA methylation, 7-mRNA capping, protein methylation, histone methylation, peptidyl-arginine methylation) and transcription-related processes (DNA-templated transcription, negative regulation of RNA polymerase II). This pattern points to a cohesive group of methyltransferases and chromatin modifiers whose activities connect RNA processing/modification with transcription control.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030488","count":3},{"id":"GO:0006479","count":3},{"id":"GO:0006364","count":3},{"id":"GO:0009236","count":3},{"id":"GO:0009452","count":2}]},{"hash":"300197378416456823","title":"GPCR Signaling and Regulation","description":"The top GO terms all point to G protein-coupled receptor (GPCR)\u2013mediated signaling and its regulation, including GPCR internalization, adenylate cyclase\u2013linked pathways (serotonin and adrenergic receptors), opsin/visual signaling regulation, prostaglandin responses, and downstream effects such as mucus secretion and Rho signaling. Although the specific processes span diverse tissues (airways, immune responses, vision, heart vessels), the unifying theme is GPCR-driven signal transduction and receptor regulation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":9},{"id":"GO:0007198","count":9},{"id":"GO:0070963","count":9},{"id":"GO:0002031","count":9},{"id":"GO:0071799","count":9}]},{"hash":"2097424309011173226","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":39,"triangles":75,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0048026","count":6},{"id":"GO:0045292","count":4},{"id":"GO:0000398","count":4}]},{"hash":"1882047676871304628","title":"SMAD/TGF-\u03b2 regulatory module","description":"The enriched GO terms center on transforming growth factor beta signaling and SMAD regulation, including DNA-templated transcription, positive and negative regulation of TGF-\u03b2 receptor signaling, and SMAD protein complex assembly. Some terms also indicate cross-talk with NF-kappaB signaling and regulation of nuclear export, suggesting a regulatory module rather than enzymatic functions. This cluster likely represents proteins that modulate TGF-\u03b2 signaling and downstream transcriptional responses.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":2},{"id":"GO:0031954","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0031915","count":2},{"id":"GO:0030433","count":2}]},{"hash":"108744907399218839","title":"Axon guidance and neural development","description":"GO terms are dominated by nervous system development, axon extension and guidance (including Roundabout signaling) and axonal fasciculation. While there are a few broader embryonic terms, the recurring theme is neural development and axon pathfinding, making this label a concise summary of the cluster's function.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0007275","count":3},{"id":"GO:0048842","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0048846","count":3}]},{"hash":"547728019155414487","title":"Tissue differentiation across muscle, neural, and heart","description":"The cluster\u2019s GO terms center on differentiation and development across several tissues (skeletal muscle, lens fiber, cerebellar granule cells, heart formation) with supporting signals and mechanical cues (BMP/TGF-beta regulation, neuronal stem cell maintenance, response to mechanical stimulus). This points to a shared theme of tissue-specific differentiation programs rather than a single pathway, justifying a label that highlights multi-tissue developmental differentiation.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":2},{"id":"GO:0070309","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0021707","count":2}]},{"hash":"1807809939948968088","title":"Neural Development and Synaptic Signaling","description":"The top GO terms cluster around nervous system development and synaptic processes (axonogenesis, long-term potentiation, visual perception), along with Schwann cell development and related signaling (peptidyl-threonine phosphorylation, apoptotic regulation). Although terms like angiogenesis and heart development appear, the strongest signal centers on neural development and synaptic signaling, suggesting these proteins may participate in nervous system formation and plasticity.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010800","count":4},{"id":"GO:0014044","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0043065","count":4},{"id":"GO:0007601","count":4}]},{"hash":"270476609586951706","title":"Ubiquitination and cytoskeletal signaling","description":"The cluster is dominated by GO terms for protein ubiquitination and polyubiquitination, plus regulation of Rho signaling and microspike/actin dynamics, suggesting a cohesive role in ubiquitin-mediated control of cytoskeletal rearrangements and associated signaling. Additional terms touching phosphatidylinositol phosphate biosynthesis and endocytic processes hint at membrane trafficking cross-talk that often accompanies cytoskeletal remodeling.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":3},{"id":"GO:0046854","count":2},{"id":"GO:0060335","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0030035","count":2}]},{"hash":"899765135283922827","title":"Unknown","description":"The top GO terms are scattered across transcription regulation, vesicle transport, and various development and signaling processes, with no single dominant function and no reported edges linking the proteins. This lack of a cohesive theme makes it inappropriate to assign a specific functional label.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045892","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0072327","count":1},{"id":"GO:2000495","count":1},{"id":"GO:0019086","count":1}]},{"hash":"770259077476873701","title":"Telomere maintenance and stress signaling","description":"The top GO terms show clear telomere-related processes (telomere maintenance, localization to telomeric regions, telomere capping) alongside broader stress-response pathways (Wnt signaling, NF-kappaB sequestration, protein ubiquitination, ER stress\u2013dependent apoptosis, calcium release). This suggests a theme of telomere regulation within cellular stress signaling networks, rather than a single, narrowly defined function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:0007253","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0070059","count":3},{"id":"GO:0051209","count":3}]},{"hash":"2122705042920441510","title":"DNA Damage Response and Chromatin Repair","description":"The top GO terms point to DNA damage signaling and repair pathways (HR and NHEJ) and chromatin localization, plus a mitotic G2 DNA damage checkpoint signal, suggesting a shared role in genome maintenance through chromatin-associated repair. The amino acid transport terms appear to be noise relative to the dominant DNA repair signal.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905168","count":1},{"id":"GO:0010212","count":1},{"id":"GO:0071168","count":1},{"id":"GO:2001032","count":1},{"id":"GO:0007095","count":1}]},{"hash":"100382297258702458","title":"Neural development and axonogenesis signaling","description":"This cluster is best described by neural development and axon guidance signals, as several top terms emphasize nervous system and brain development, plus positive regulation of axonogenesis and ROBO/hedgehog signaling. While a few immune signaling terms appear, the recurrent theme centers on neuronal differentiation and connectivity.","confidence":"Medium","size":13,"edges":71,"triangles":219,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":3},{"id":"GO:0007224","count":3},{"id":"GO:0035385","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0007399","count":3}]},{"hash":"235725886520359572","title":"Proteolysis and ECM Remodeling","description":"The GO terms cluster around ubiquitin-dependent protein catabolic processes and proteasome assembly, plus calcium-independent cell-matrix adhesion, substrate-dependent cell migration, and metallopeptidase activity. Together these point to coordinated protein turnover and extracellular matrix remodeling that underlie cell movement and tissue remodeling. Some terms (e.g., endodermal differentiation, stamen formation) may reflect cross-species annotations, but the dominant theme is proteolysis and ECM interactions guiding migration. ","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":5},{"id":"GO:0006929","count":5},{"id":"GO:0048455","count":5},{"id":"GO:0007161","count":5},{"id":"GO:0006511","count":5}]},{"hash":"1892047045442490018","title":"Axon guidance and neural crest morphogenesis","description":"Most frequent GO terms center on neural development, especially axon extension/guidance and neural crest cell migration (e.g., axon extension, axonal fasciculation, semaphorin-plexin signaling, neural crest migration in autonomic NS development). A few terms pertain to other morphogenetic processes, but the dominant theme is neural development and axon guidance. Confidence: Medium","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048846","count":2},{"id":"GO:0007413","count":2},{"id":"GO:1902287","count":1},{"id":"GO:1904835","count":1},{"id":"GO:2000312","count":1}]},{"hash":"1070032317521802746","title":"ER-Golgi trafficking and glycosylation","description":"The top terms cluster around ER-to-Golgi and intra-Golgi vesicle transport, Golgi ribbon formation, vesicle fusion with the Golgi, and regulation of protein localization to membranes, along with emphasis on N-linked glycosylation and related maturation processes. Despite some obsolete terms, the dominant theme is the secretory pathway and Golgi/ER\u2013associated protein processing. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018279","count":2},{"id":"GO:0098869","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006888","count":1},{"id":"GO:1903076","count":1}]},{"hash":"1859941772065135194","title":"Actin Cytoskeleton Remodeling and Cytokinesis","description":"The GO terms cluster around actin dynamics and Rho signaling (actin crosslink formation, regulation of Rho), plus processes of cell migration, adhesion, and cytokinesis (cleavage furrow formation, spindle orientation). Membrane remodeling signals (plasma membrane tubulation) and Golgi retention further support a theme of coordinated cytoskeletal and membrane changes during cell movement and division. Overall, these terms point to actin-driven cytoskeleton remodeling linked to cytokinesis and cell migration.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045053","count":2},{"id":"GO:0000132","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0006930","count":2},{"id":"GO:0036089","count":2}]},{"hash":"1816862490406343237","title":"Dopaminergic Synaptic Transmission and Ethanol Response","description":"The cluster is dominated by neuronal signaling terms\u2014action potential, synaptic transmission (notably dopaminergic), and postsynaptic modulation\u2014plus ethanol responsiveness, indicating a module of proteins involved in dopaminergic neural signaling.","confidence":"","size":13,"edges":65,"triangles":210,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001508","count":12},{"id":"GO:0043200","count":12},{"id":"GO:2000344","count":12},{"id":"GO:0051971","count":12},{"id":"GO:0032226","count":12}]},{"hash":"1744376665509904738","title":"GPCR-Driven Thermogenesis and Inflammation","description":"This cluster centers on G protein-coupled receptor signaling components (GPCR internalization; serotonin receptor signaling; prostaglandin-related responses; Rho signaling) and links to temperature-related responses (diet-induced thermogenesis; cellular response to temperature stimulus), with downstream associations to mucus secretion and neutrophil-mediated killing. The conjunction of GPCR signaling with temperature and immune/mucosal processes suggests a cohesive module where GPCR pathways regulate thermogenic and inflammatory/mucosal responses.","confidence":"Medium","size":13,"edges":6,"triangles":1,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":9},{"id":"GO:0071502","count":9},{"id":"GO:0042391","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0070257","count":8}]},{"hash":"1496727285658394963","title":"Vascular signaling and endothelial remodeling","description":"This cluster centers on vascular and endothelial processes, including vasoconstriction and blood pressure regulation, endothelial cell migration, mechanotransduction, ECM (collagen fibril organization), and monocyte chemotaxis, suggesting a coherent theme of vascular signaling and remodeling. Some terms like visual learning or amphetamine response are less directly tied but may reflect neural components associated with vascular or brain-related signaling; overall, the dominant pattern points to vascular/endothelial regulation and immune cell interactions within blood vessels.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":2},{"id":"GO:0045907","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0010596","count":2}]},{"hash":"1908651438850869482","title":"Adipocyte cytoskeleton and membrane dynamics","description":"This cluster is driven by terms related to actin filament bundle assembly, cellular response to mechanical stimulus, pinocytosis, and calcium signaling, all of which point to cytoskeleton remodeling and membrane trafficking relevant to adipocytes. The inclusion of fat cell differentiation and plasma membrane protein localization supports a adipocyte-specific context where cytoskeletal changes couple to membrane dynamics and signaling. Some RNA-processing terms appear, but the dominant theme appears to be cytoskeletal/membrane remodeling in adipocytes.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072660","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0035508","count":2}]},{"hash":"998996907607561562","title":"Hormone and xenobiotic metabolism","description":"The proteins cluster around diverse metabolic and catabolic processes involving hormones (thyroid hormone, estrogen, catecholamines) and xenobiotics (bile acids, ethanol, flavonoids), plus related biosynthetic activities (proteoglycans). This suggests a cohesive theme of processing and regulating small molecule metabolites and signaling compounds, justifying a label focused on hormone and xenobiotic metabolism.","confidence":"High","size":13,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015012","count":5},{"id":"GO:0042403","count":5},{"id":"GO:0006805","count":5},{"id":"GO:0045600","count":5},{"id":"GO:0006711","count":5}]},{"hash":"1311400819495556775","title":"Regulatory Signaling and Gene Expression","description":"The proteins show diverse yet linked roles in regulating signaling and gene expression, including mRNA processing, transcriptional regulation, regulation of exocytosis, receptor tyrosine kinase activity, and GTPase regulation, with additional immune and neuronal plasticity terms that reflect broad regulatory capacity rather than a single pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0048168","count":2},{"id":"GO:0045921","count":2},{"id":"GO:0007171","count":2}]},{"hash":"1103975202170006690","title":"GPCR Signaling and Calcium-Rho Regulation","description":"This cluster is dominated by GO terms tied to G protein-coupled receptor signaling (including receptor internalization), calcium release into the cytosol, and Rho GTPase\u2013mediated pathways, with related terms for endocytosis, mucus secretion, and prostaglandin/serotonin signaling. Together these terms point to a coherent function: proteins involved in GPCR-driven signal transduction that regulate calcium dynamics and cytoskeletal rearrangements, affecting endocytosis and downstream responses. The presence of related pathways like Wnt signaling suggests some cross-talk, but the unifying theme is GPCR-mediated signaling and its calcium/Rho outputs.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0048549","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0070257","count":2}]},{"hash":"974952572137336028","title":"ECM Remodeling & Coagulation","description":"The dominant signals are collagen fibril organization and coagulation-related processes (fibrinolysis, blood coagulation) along with a cellular response to mechanical stimulus and suppression of endothelial migration, suggesting the core function is extracellular matrix remodeling with vascular/hemostatic regulation. Some terms related to neuronal plasticity and behavior appear, but they seem secondary to the ECM/coagulation theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":3},{"id":"GO:0048711","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0010596","count":2},{"id":"GO:0048169","count":2}]},{"hash":"1175109439742065376","title":"N- and O-glycosylation pathways","description":"This cluster is dominated by glycosylation-related GO terms: N-linked glycosylation (GO:0006487) and O-linked glycosylation via mannose (GO:0035269), along with a term for regulation of protein glycosylation. While other terms touch on differentiation and transport, the glycosylation signal is the strongest and best captures the cluster's shared function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0040015","count":1},{"id":"GO:0048235","count":1},{"id":"GO:0050873","count":1},{"id":"GO:0060049","count":1},{"id":"GO:0035269","count":1}]},{"hash":"1123139671440926306","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903955","count":1},{"id":"GO:1902626","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0000055","count":1},{"id":"GO:0000466","count":1}]},{"hash":"1537271153191966070","title":"Transcription Regulation (RNA Pol II/Elongation)","description":"The top terms are dominated by DNA-templated transcription and RNA polymerase II\u2013related processes (transcription, transcription elongation, and negative regulation of transcription by RNA Pol II), indicating a cohesive theme around transcription control. A few peroxisome import terms appear but do not align with the dominant transcription signals, suggesting a potential annotation noise rather than a true peroxisomal function cluster. The absence of edges implies a loose association, so a cautious but representative label focused on transcription regulation fits best.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016558","count":2},{"id":"GO:2000134","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000122","count":2}]},{"hash":"654760413451101155","title":"Neurodevelopment and Synapse Maturation","description":"This cluster is dominated by neural development signals: neurogenesis, astrocyte differentiation, and regulation of synapse maturation, pointing to roles in brain development and neural connectivity. While there are some terms related to circadian entrainment and broader differentiation programs, the strongest pattern centers on neuronal development and synapse formation. ","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":12},{"id":"GO:2000820","count":12},{"id":"GO:0019086","count":12},{"id":"GO:0009649","count":12},{"id":"GO:0060948","count":12}]},{"hash":"900729601564034233","title":"Developmental transcription regulation and chromatin remodeling","description":"Based on the top GO terms, the cluster centers on transcriptional control (negative regulation and DNA-templated transcription) and chromatin remodeling, with several tissue-development terms (trachea/bronchus cartilage, lung smooth muscle, pituitary gland). This suggests a module involved in regulating gene expression during development, rather than a single tissue-specific pathway. Obsolete terms appear as noise but do not contradict the overall theme.","confidence":"Medium","size":12,"edges":24,"triangles":16,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0043046","count":4},{"id":"GO:0045654","count":4},{"id":"GO:0043044","count":3}]},{"hash":"2159418624676500923","title":"Embryonic development and organ morphogenesis","description":"The GO terms cluster around developmental processes across multiple organs (in utero embryonic development, embryonic eye morphogenesis, heart development, male gonad development, prostate gland morphogenesis), with supporting signals of transcriptional regulation (DNA-templated transcription) and cell division (mitotic spindle assembly). The shared theme is embryonic development and tissue morphogenesis, rather than a single tissue or pathway, hence this label.","confidence":"Medium","size":12,"edges":8,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0001666","count":2},{"id":"GO:0055114","count":2}]},{"hash":"224711762506536875","title":"Retinoid and lipid metabolism with ethanol catabolism","description":"This cluster shows strong representation for retinol and retinoic acid metabolic processes, prostaglandin metabolism, and various ethanol- and alcohol-related catabolic processes, plus related carbohydrate metabolism. Together, these terms point to a theme of small-molecule lipid and alcohol metabolism rather than a single tightly linked pathway, so the label reflects the broad metabolic focus of the group.","confidence":"Medium","size":12,"edges":60,"triangles":168,"max_degree":11,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0042572","count":8},{"id":"GO:1901159","count":7},{"id":"GO:0043458","count":7},{"id":"GO:0042573","count":7}]},{"hash":"1279012681962621095","title":"Junction Assembly and Adhesion Signaling","description":"The top GO terms cluster around the formation and regulation of cell\u2013cell junctions and adhesion signaling, including paranodal and septate junction assembly, and positive regulation of integrin-mediated signaling. Additional terms point to surface receptor engagement and endocytic trafficking (virion attachment to host cells, lysosome localization, LDL response), which fit with a cohesive theme of cell adhesion, junction integrity, and receptor-driven signaling that modulates motility and vascular signaling contexts.","confidence":"High","size":12,"edges":14,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:2000145","count":5},{"id":"GO:1900746","count":5},{"id":"GO:0090528","count":5},{"id":"GO:0071404","count":5},{"id":"GO:0043128","count":5}]},{"hash":"2138265602077974676","title":"Unknown","description":"The GO terms are too diverse and lack a common, cohesive function (including obsolete terms and a mix of metabolism, transcription regulation, sporulation, and cytolysis), making a specific label unreliable.","confidence":"","size":12,"edges":3,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0042619","count":7},{"id":"GO:0006355","count":5},{"id":"GO:0030435","count":5},{"id":"GO:0019835","count":4}]},{"hash":"277445762080288100","title":"Endothelial Junctions and Adhesion Signaling","description":"The cluster centers on receptor-mediated processes and junction-related assembly, including receptor internalization and cellular responses to LDL particles, plus several GO terms for junction formation (paranodal and smooth septate), integrin- and Notch- and VEGF-related signaling, and regulation of cell motility. Taken together, these terms point to cohesive functions in endothelial cell adhesion, junction assembly, and signaling coordination that guide vascular development and dynamic cell\u2013cell interactions.","confidence":"Medium","size":12,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071404","count":4},{"id":"GO:0031623","count":4},{"id":"GO:0045747","count":4},{"id":"GO:2000145","count":3},{"id":"GO:1900746","count":3}]},{"hash":"2129986931082082028","title":"Calcium-dependent glial and ciliary signaling","description":"The GO terms emphasize calcium signaling pathways (regulation of calcineurin-NFAT cascade, protein dephosphorylation, ryanodine receptor regulation) and ciliary functions (phototransduction, epithelial cilium movement for left-right asymmetry). Several terms also reference glial cells (astrocyte activation, Schwann cell development), suggesting a unifying theme of calcium-sensitive signaling in glial and ciliary contexts. ","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035562","count":3},{"id":"GO:0051531","count":2},{"id":"GO:0007602","count":2},{"id":"GO:0060287","count":2},{"id":"GO:0048143","count":2}]},{"hash":"1569151697487106222","title":"Lectin-mediated innate immune activation","description":"Top GO terms indicate leukocyte tethering/rolling, cellular response to fungal origin, and signaling through stimulatory C-type lectin receptors, along with activation of the lectin pathway of complement and basophil activation. This combination strongly suggests a core function in lectin-driven innate immune recognition and inflammatory signaling. A few kidney development terms may be noise, but the dominant theme is immune-related.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":4},{"id":"GO:0071226","count":4},{"id":"GO:0002223","count":4},{"id":"GO:0072287","count":4},{"id":"GO:0090238","count":4}]},{"hash":"2289487409692929301","title":"Unknown","description":"The top GO terms are highly diverse, including DNA replication, immune signaling (T cell receptor signaling, GM-CSF response, LPS response), cGMP-related signaling, GTPase regulation, Wnt signaling, sensory perception of smell, and viral processes. There is no single coherent function or pathway that ties these terms together, and the lack of edges supports a mixed set of roles rather than a distinct biological theme. Therefore, Unknown with None confidence.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0010754","count":3},{"id":"GO:0097011","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0071222","count":3}]},{"hash":"1455768215144206661","title":"Developmental Regulation and Proliferation","description":"These proteins are linked mostly to development-related processes: forebrain development, neural tube closure, multicellular organism development, and skeletal system development, along with mitotic cell cycle and DNA-templated transcription. While there are some peripheral terms like responses to cadmium and Gram-positive bacteria, the dominant signal is developmental regulation and cell proliferation, making this label representative of the cluster\u2019s core function.","confidence":"Medium","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030900","count":6},{"id":"GO:0001843","count":6},{"id":"GO:0001403","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0001501","count":6}]},{"hash":"2228067903758888117","title":"Proteostasis and ECM Remodeling in Development","description":"This cluster combines ubiquitin-dependent protein catabolic process and proteasome assembly with metallopeptidase activity, cell-matrix adhesion, and cell migration terms, alongside development-related GO terms (endodermal differentiation, stamen formation). The common thread appears to be protein turnover coupled with extracellular matrix remodeling that supports developmental differentiation and tissue remodeling.","confidence":"High","size":12,"edges":27,"triangles":31,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":6},{"id":"GO:0006929","count":6},{"id":"GO:0048455","count":6},{"id":"GO:0007161","count":6},{"id":"GO:0006511","count":6}]},{"hash":"1169915420363220905","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000447","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1564498685290329666","title":"Proteasome-Dependent Cell Cycle Regulation","description":"The cluster is heavily enriched for cell cycle and mitosis-related GO terms (cell division, mitotic cell cycle, G2/M transition) and for ubiquitin-proteasome processes (SCF-dependent ubiquitination, K11- and K27-linked ubiquitination), indicating proteins that regulate cell cycle progression via targeted proteolysis and chromatin-related regulation during development.","confidence":"High","size":12,"edges":45,"triangles":112,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":10},{"id":"GO:0031146","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0001701","count":10},{"id":"GO:0000086","count":10}]},{"hash":"864819034581582648","title":"Membrane trafficking and mitochondrial function proteins","description":"The top terms point to vesicle-mediated transport, endosome maturation (early to late endosomes), and exocytic insertion at the synapse, together with mitochondrial processes (NADH dehydrogenase activity and complex II assembly). While there are a few outliers (immune signaling, cornified envelope), the strongest cohesive signal is proteins involved in membrane trafficking coupled with mitochondrial function, suggesting a cluster centered on intracellular transport and energy metabolism components.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071230","count":2},{"id":"GO:2001241","count":2},{"id":"GO:0006120","count":1},{"id":"GO:0034553","count":1},{"id":"GO:0045022","count":1}]},{"hash":"811135436817562516","title":"Insect GPCR Signaling and Neurobehavior","description":"The top GO terms cluster around GPCR-driven signaling cascades, including dopamine and adrenergic receptor pathways that activate adenylyl cyclase and PLC, as well as cAMP regulation and downstream GTPase activity. Additional terms cover sensory (phototransduction) and behavioral/developmental processes (larval locomotion, mating receptivity, heart development) commonly linked to GPCR signaling in insects. This suggests a cohesive theme of GPCR-mediated signal transduction governing neural, sensory, and behavioral functions in insects.","confidence":"High","size":12,"edges":27,"triangles":9,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0043950","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0071880","count":7},{"id":"GO:0007603","count":7}]},{"hash":"1093316561349329978","title":"Neural development and cytoskeletal regulation","description":"These proteins cluster around neural differentiation and cytoskeletal remodeling. Key terms include neuron projection development, forebrain development, and lens fiber differentiation, plus regulation of actin dynamics via Arp2/3 and positive regulation of GTPase activity, pointing to signaling pathways that shape neuronal morphology. Ubiquitin-related processes (polyubiquitination, ERAD) may reflect protein turnover supporting these developmental and structural functions. Some terms (aging, certain obsolete GO entries) are less clearly connected, but the core signal suggests a module focused on neural development with cytoskeletal regulation.","confidence":"Medium","size":12,"edges":3,"triangles":1,"max_degree":2,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0030433","count":6},{"id":"GO:0031175","count":6},{"id":"GO:0051260","count":6},{"id":"GO:0070306","count":5}]},{"hash":"153183427651411678","title":"Neural signaling, glial activation, and myelination","description":"These terms cluster around signaling processes in the nervous system and related glial functions. They include neural activity regulators (NFAT/calcium signaling, phosphorylation, LTP), astrocyte activation, Schwann cell development (myelination), and sensory processing (phototransduction). A touch of cardiac electrical signaling is present, which fits the broader theme of signaling in excitable tissues. Confidence: Medium","confidence":"","size":12,"edges":49,"triangles":115,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051531","count":12},{"id":"GO:0010800","count":12},{"id":"GO:1901844","count":12},{"id":"GO:0007602","count":12},{"id":"GO:0048143","count":12}]},{"hash":"906596369931223703","title":"Neural signaling and synaptic plasticity","description":"The most represented terms point to neuronal signaling and plasticity: excitatory postsynaptic potential, regulation of short-term neuronal synaptic plasticity, and memory, with calcium import highlighting calcium-dependent signaling in neurons. Oligodendrocyte differentiation recalls CNS glial development, aligning with a neural context. While there are also signals from integrin and B cell receptor pathways suggesting broader signaling roles, the strongest shared theme across the cluster is neural signaling and plasticity. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0048172","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0016477","count":2}]},{"hash":"1619755562543401019","title":"Mitochondrial Metabolism and Redox Regulation","description":"Top GO terms point to mitochondrial metabolism and transport (iron import into mitochondrion, NAD transmembrane transport, glycine and pyridoxal phosphate transport) and mitochondrial dynamics (membrane fission). Additional terms related to oxidative stress response and cell survival (response to superoxide, necroptosis regulation) fit a theme of mitochondria-centered energy sensing and redox homeostasis, with some linkage to insulin secretion response to glucose. Overall, these proteins appear to form a mitochondrial metabolic and redox module.","confidence":"High","size":12,"edges":14,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0061179","count":7},{"id":"GO:0048250","count":7},{"id":"GO:0000303","count":7},{"id":"GO:0035352","count":7},{"id":"GO:0060546","count":7}]},{"hash":"1396556094574411697","title":"Potassium transport and membrane potential regulation","description":"The top GO terms cluster around membrane potential control and potassium ion handling (potassium ion transmembrane transport, intracellular potassium ion homeostasis, regulation of resting membrane potential, stabilization of membrane potential, membrane repolarization). A few terms (response to morphine, saliva secretion, T cell receptor signaling, Lewis a epitope biosynthesis) are more peripheral, suggesting this cluster mainly reflects electrophysiological regulation with some annotation noise. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043278","count":2},{"id":"GO:0010493","count":2},{"id":"GO:0050976","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0030007","count":2}]},{"hash":"792947683344735887","title":"Oxidative stress defense and redox signaling","description":"Based on the top GO terms, the cluster centers on redox biology: removal of superoxide radicals and cellular oxidant detoxification indicate a protective oxidative stress response, and regulation of non-canonical NF-kappaB signaling suggests redox-regulated signaling pathways. Additional terms like peptidyl-cysteine oxidation and methylamine metabolism can feed into cellular redox balance, while erythrocyte homeostasis and spermatogenesis reflect processes sensitive to oxidative stress. Natural killer cell cytotoxicity also involves redox-regulated immune responses. Overall, the shared theme is defense and signaling related to redox status.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0030416","count":3},{"id":"GO:0034101","count":3},{"id":"GO:0022417","count":3},{"id":"GO:0042267","count":3},{"id":"GO:0019471","count":3}]},{"hash":"392009036696856241","title":"Ubiquitin-Proteasome Pathway and DNA Damage Response","description":"Proteins in this cluster are enriched for ubiquitin-dependent proteolysis and protein turnover (SCF-dependent ubiquitination, polyubiquitination) alongside DNA damage response processes (G1 checkpoint signaling and homologous recombination repair). The combination of proteolysis and genome maintenance GO terms suggests a coherent function linking protein degradation to DNA repair, with additional metal-stress response signals (cadmium, arsenic, methylmercury) that commonly engage these pathways. This supports a theme of coordinated proteostasis and genome integrity maintenance.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0000209","count":4},{"id":"GO:0071276","count":4},{"id":"GO:1902916","count":4},{"id":"GO:0031571","count":4}]},{"hash":"243572136706589031","title":"Stress-Response and Genome Maintenance","description":"The top GO terms cluster around how cells respond to stress and regulate genome-related processes: cell cycle progression (G1/S), DNA recombination/repair, apoptosis, regulation of mRNA stability, and response to xenobiotic stimuli. This suggests proteins in this cluster function in stress-induced gene regulation and maintaining genomic integrity. Some terms like corneocyte development or renal water transport are broader and may reflect pleiotropy or annotation noise, but they do not outweigh the core theme of stress response and genome maintenance.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1900087","count":6},{"id":"GO:0006310","count":6},{"id":"GO:0007568","count":5},{"id":"GO:1903507","count":5},{"id":"GO:2000466","count":5}]},{"hash":"1340664250304231715","title":"Developmental and neural signaling","description":"This cluster includes multiple development-related GO terms across different tissues (lung connective tissue, nipple morphogenesis, metanephric glomerulus, heart) along with neural/sensory terms (dopaminergic synaptic transmission, visual perception and learning, cocaine behavioral response) and immune chemotaxis signals. The mix suggests a broad theme of developmental processes coupled with neural signaling and sensory function, rather than a single, cohesive pathway. The absence of network edges further supports a broad, heterogeneous annotation rather than a tightly connected module.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060427","count":4},{"id":"GO:0010759","count":4},{"id":"GO:0060658","count":4},{"id":"GO:0072224","count":4},{"id":"GO:0007601","count":4}]},{"hash":"219698239003076093","title":"GPCR-Mediated Physiological Signaling","description":"The top GO terms cluster around G protein-coupled receptor signaling and its downstream physiological effects, including adenylate cyclase modulation, regulation of membrane potential, blood pressure regulation, mucus secretion, thermogenesis, and sensory pain. This suggests a unifying theme of GPCR-driven regulation of diverse physiological processes. Some terms (electron transport chain, Rho signaling) reflect broader cellular pathways that can intersect GPCR signaling, but the dominant pattern is GPCR-mediated regulation of physiology. ","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035025","count":6},{"id":"GO:0022900","count":6},{"id":"GO:0010579","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0045777","count":6}]},{"hash":"441630534689153301","title":"Developmental signaling and stem cell maintenance","description":"This cluster is enriched for terms related to signaling and development, notably the Wnt signaling pathway, positive regulation of stem cell population maintenance, and angiogenesis, along with cell cycle and transcription regulation. While there are some broader processes present (proteolysis, telomeric loop formation, UV response, germination, B cell differentiation), the dominant theme centers on signaling networks that regulate development and stem cell\u2013type growth, suggesting a cohesive developmental/regulatory function for the cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0007049","count":2},{"id":"GO:1902459","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0045944","count":2}]},{"hash":"1074334544494607224","title":"ER-Golgi vesicle transport and GTPase regulation","description":"This cluster centers on vesicle trafficking between the ER and Golgi, GTPase activity regulation, and cytoskeletal movement, with supporting terms for TORC1 signaling, mRNA transport, and protein complex assembly. The combination suggests a cohesive module governing vesicular trafficking and associated signaling rather than unrelated functions. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0038202","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0070262","count":3},{"id":"GO:0006890","count":3}]},{"hash":"2281729987199299513","title":"GPCR Signaling and cAMP Regulation","description":"The top GO terms indicate a strong enrichment for G protein-coupled receptor (GPCR)\u2013mediated signaling and regulation of downstream second messengers. Terms include GPCR internalization, multiple GPCR signaling pathways (serotonin, adrenergic), opsin/visual signaling, prostaglandin response, and regulation of mucus secretion and Rho signaling, all pointing to GPCR-driven signal transduction and cAMP- or G-protein\u2013dependent regulation.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":10},{"id":"GO:0007198","count":10},{"id":"GO:0070963","count":10},{"id":"GO:0002031","count":10},{"id":"GO:0071799","count":10}]},{"hash":"642590389403894486","title":"Proteoglycan Biosynthesis and Hormone/Xenobiotic Metabolism","description":"The cluster shows a mix of GO terms tied to diverse chemical metabolism (catecholamines, estrogens, bile acids, ethanol, flavonoids) alongside heparan sulfate proteoglycan biosynthesis, suggesting involvement in both glycosaminoglycan production and small-molecule metabolism. The name captures these two linked themes without over-committing to a single pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015012","count":2},{"id":"GO:0042403","count":2},{"id":"GO:0006805","count":2},{"id":"GO:0045600","count":2},{"id":"GO:0006711","count":2}]},{"hash":"1834010644699650484","title":"Glutamatergic synapse assembly and AMPA regulation","description":"This cluster is dominated by terms related to excitatory synapse assembly, glutamatergic transmission, AMPA receptor activity, vesicle clustering, and localization to the synapse, indicating a shared role in building and modulating excitatory synapses. Developmental context (in utero embryonic development) and stress-related responses (xenobiotic and glucocorticoid signaling) may influence maturation and plasticity, but the core theme centers on glutamatergic synapse formation and AMPA receptor\u2013mediated signaling.","confidence":"High","size":11,"edges":17,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":5},{"id":"GO:0001701","count":4},{"id":"GO:1904861","count":3},{"id":"GO:0051968","count":3},{"id":"GO:0072553","count":3}]},{"hash":"1226793730240071062","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":35,"triangles":57,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030850","count":3},{"id":"GO:0046661","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006463","count":3},{"id":"GO:0035264","count":2}]},{"hash":"27247326399259025","title":"Neural development and transcriptional regulation","description":"The cluster is enriched for neurogenesis, melanocyte differentiation, astrocyte differentiation, and regulation of synapse maturation, all of which point to neural development and maturation driven by transcriptional control (RNA Pol II). While a few terms (circadian entrainment, smooth muscle development, sex determination) are broader or less directly tied to neural differentiation and may reflect annotation noise or pleiotropy, the dominant theme across the top terms is neural development governed by transcriptional regulation. ","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":9},{"id":"GO:0022008","count":8},{"id":"GO:2000820","count":8},{"id":"GO:0019086","count":8},{"id":"GO:0009649","count":8}]},{"hash":"1441717497762341896","title":"Chromatin Regulation in Multicellular Development","description":"The cluster is dominated by chromatin-related terms (heterochromatin formation, CENP-A chromatin assembly, histone modification, transcriptional control) alongside developmental processes (brain development, osteoblast differentiation, male gonad development, single fertilization, multicellular growth). This suggests proteins involved in chromatin dynamics that influence developmental and reproductive programs, with a lesser outlier term related to immune response. Confidence is based on the coherence of chromatin regulation tied to development across the GO terms.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030466","count":5},{"id":"GO:0035264","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0008584","count":3}]},{"hash":"116655204407299898","title":"Diverse Biosynthetic Pathways","description":"These proteins are enriched for a variety of biosynthetic processes, including poly-hydroxybutyrate, sphingolipid, melanin, retinoic acid, and tetrahydrobiopterin biosynthesis, along with androgen metabolism/catabolism and even a transcription regulation term. The common thread is synthesis and metabolic activity across different compounds rather than a single, cohesive pathway, so a label that reflects diverse biosynthetic functions fits best.","confidence":"Medium","size":11,"edges":12,"triangles":8,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":7},{"id":"GO:0055114","count":7},{"id":"GO:0042619","count":6},{"id":"GO:0008209","count":6},{"id":"GO:0002138","count":6}]},{"hash":"1638779524211913744","title":"Diverse biosynthetic pathways: lipids, hormones, and pigments","description":"The terms cluster around biosynthesis of lipids (sphingolipids), pigments (melanin), and hormones (androgen, retinoic acid), along with related cofactors (BH4) and general transcription regulation, suggesting a broad biosynthetic/metabolic theme rather than a single precise function. ","confidence":"Medium","size":11,"edges":6,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0042619","count":5},{"id":"GO:0008209","count":5},{"id":"GO:0002138","count":5},{"id":"GO:0006729","count":5}]},{"hash":"1255987253217852848","title":"Neuronal Synaptic Signaling and Microtubule Transport","description":"This cluster centers on brain-related functions, with GO terms for visual perception, cerebellar Purkinje cell layer organization, long-term synaptic potentiation, and excitatory postsynaptic potentials, all pointing to neuronal signaling and synaptic plasticity. It also includes plus-end-directed vesicle transport along microtubules, reflecting motor-driven trafficking essential for synaptic function. While some mitotic/centrosome and Rap signaling terms are present, the dominant theme appears to be neuronal synaptic signaling and cytoskeletal transport, justifying the chosen label.","confidence":"Medium","size":11,"edges":21,"triangles":18,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007100","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0000742","count":5},{"id":"GO:0032487","count":4},{"id":"GO:0043065","count":4}]},{"hash":"790247962693517650","title":"Insect Developmental and Metabolic Signaling","description":"The top GO terms cluster around hormone- and energy-regulating processes in insects: insulin receptor signaling, cholesterol and bile acid metabolism, and feeding behavior, along with developmental events like pupariation and myoblast proliferation. There are also immune and peptide-processing terms (lipopolysaccharide response, bradykinin catabolic process) and reproductive development (vagina development). Taken together, these terms suggest a group of proteins involved in coordinating development, metabolism, and related signaling in an insect context, rather than a single narrow function.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0060068","count":2},{"id":"GO:0042632","count":2},{"id":"GO:0008206","count":2},{"id":"GO:0008286","count":2}]},{"hash":"1503167068280651684","title":"Fungal lipid and sterol metabolism","description":"The top terms point to lipid and sterol biosynthesis, notably ergosterol biosynthesis regulation and mannosyl-inositol phosphorylceramide metabolism, both characteristic of fungal lipid pathways. Additional terms like unsaturated fatty acid biosynthesis support this lipid-centric theme, while other annotations (nitrate assimilation, PPP-related biosynthesis) may be peripheral or cross-species; a few terms are obsolete, but the core signal remains lipid/sterol metabolism in fungi.","confidence":"Medium","size":11,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0032286","count":3},{"id":"GO:0006636","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0001949","count":3}]},{"hash":"1059490533404564881","title":"Diverse biosynthesis pathways","description":"The terms indicate multiple biosynthetic processes (antibiotics, PHB, sphingolipids, retinoic acid, tetrahydrobiopterin, androgens) plus sporulation and transcription regulation. This points to a cluster of proteins involved in broad metabolic biosynthesis and regulation rather than a single pathway.","confidence":"Medium","size":11,"edges":6,"triangles":1,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0017000","count":8},{"id":"GO:0030435","count":7},{"id":"GO:0042619","count":7},{"id":"GO:0008209","count":7}]},{"hash":"1436008178157830144","title":"Bacterial cell wall and envelope biosynthesis","description":"The top GO terms cluster around synthesis and modification of cell wall components and membrane-related lipids, including lipoteichoic acid biosynthesis, teichoic acid D-alanylation, cell wall organization, fatty acid biosynthesis, and lipid A biosynthesis. This suggests a cohesive program for building and adjusting the bacterial cell envelope, with some signal of linked nonribosomal peptide/antibiotic biosynthesis activity. Overall, a cell envelope\u2013centric function is the best unifying label.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":7},{"id":"GO:0070395","count":4},{"id":"GO:0019878","count":4},{"id":"GO:0043041","count":4},{"id":"GO:0070400","count":4}]},{"hash":"1986764691355808224","title":"Developmental and reproductive morphogenesis","description":"The included GO terms point to morphogenesis and tissue development, notably skeletal and muscle development and craniofacial structures (roof of mouth development). In addition, reproductive biology is represented by ovarian follicle development, copulation, and cellular response to GnRH, suggesting hormonal regulation during development. Some outlier terms (negative regulation of proteolysis, DNA/protein binding regulation, antibacterial humoral response) may reflect broader regulatory roles or annotation noise, but the dominant signal is developmental and reproductive morphogenesis.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010951","count":2},{"id":"GO:2000354","count":2},{"id":"GO:0007620","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0001501","count":2}]},{"hash":"1418175664467881844","title":"Developmental differentiation and RNA processing","description":"This cluster includes GO terms tied to RNA processing (splicing via spliceosome; ribosomal subunit export) alongside numerous developmental/differentiation processes (oligodendrocyte differentiation; placental/trophoblast differentiation; EMT in endocardial cushion formation; left-right patterning; endocrine system development). The co-occurrence suggests proteins involved in both RNA metabolism and embryonic development, justifying a combined label.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0048709","count":3},{"id":"GO:1903026","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0035270","count":2}]},{"hash":"238274019715284938","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":24,"triangles":38,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":4},{"id":"GO:0031118","count":4},{"id":"GO:0031120","count":4},{"id":"GO:0000185","count":3}]},{"hash":"589859285639468958","title":"Unknown","description":"The terms include synaptic transmission, sodium transport, photoinhibition, and several lipid metabolism processes, spanning neural signaling and lipid pathways with no clear shared function across the cluster. With no gene-gene edges and a mix of unrelated GO terms, there isn\u2019t a cohesive theme to label beyond Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035249","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0010205","count":2},{"id":"GO:0006667","count":2},{"id":"GO:0034435","count":2}]},{"hash":"257063662433989425","title":"Cilium assembly and cell cycle regulation","description":"The cluster centers on ciliogenesis (cilium assembly) and core cell cycle processes (mitotic cell cycle, cell division), with supporting roles for transcription regulation and ubiquitin-mediated signaling (K63-linked ubiquitination, autoubiquitination). The inclusion of positive regulation of GTPase activity suggests control of cytoskeletal dynamics pertinent to both cilia formation and mitosis, supporting a cohesive theme around coordinated cilium and cell cycle regulation.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0060271","count":4}]},{"hash":"830183475532530925","title":"Cytoskeletal remodeling and membrane trafficking in development","description":"The cluster highlights actin dynamics (actin cortical patch assembly), regulation of Rho GTPase signaling and GTPase activity, plus processes like pinocytosis and plasma membrane tubulation, all pointing to cytoskeletal rearrangement and membrane remodeling. Extracellular matrix organization and heart development terms suggest developmental contexts where cell shape and movement are crucial; some terms (e.g., long-term synaptic potentiation, DNA binding) may reflect broader signaling or transcriptional roles but are less central to the core theme.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043388","count":3},{"id":"GO:0006907","count":2},{"id":"GO:0030198","count":2},{"id":"GO:0000147","count":2},{"id":"GO:0043547","count":2}]},{"hash":"940439274208783420","title":"Neuronal development and synaptic vesicle signaling","description":"Dominant themes: nervous system and brain development; synaptic vesicle exocytosis; regulation of Rho GTPase signaling and phosphatidylinositol pathways. Together they suggest neuronal differentiation and synaptic transmission roles. Some terms are general or outliers, but the core cluster aligns with neural development and vesicle signaling.","confidence":"High","size":11,"edges":52,"triangles":140,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0043087","count":3}]},{"hash":"87739524507737365","title":"Signaling-driven cytoskeletal remodeling and endosomal trafficking","description":"This cluster is enriched for small GTPase\u2013mediated signaling, cytoskeletal rearrangements (pseudopodium/podosome/pseudopodium, dendritic spine development), and vesicle trafficking pathways (endosome to lysosome transport, multivesicular body assembly), together with neural development signals. These themes point to coordinated signaling, cytoskeletal dynamics, and vesicle trafficking during development and cellular motility.","confidence":"Medium","size":11,"edges":39,"triangles":80,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010738","count":5},{"id":"GO:0000056","count":5},{"id":"GO:0071803","count":5},{"id":"GO:1904948","count":5},{"id":"GO:0008333","count":5}]},{"hash":"193150048522009618","title":"RNA processing and translational regulation","description":"The cluster shows prominent involvement in post-transcriptional control: mRNA export, splicing, and stability regulation, as well as initiation of translation and RNA silencing pathways (miRNA-mediated and regulatory ncRNA-mediated). These GO terms together point to coordinated regulation of gene expression at the RNA level, spanning processing to translation. ","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":3},{"id":"GO:0010610","count":3},{"id":"GO:1905663","count":2},{"id":"GO:0001731","count":2},{"id":"GO:1901407","count":2}]},{"hash":"1705544293452280382","title":"Translation initiation and spliceosome regulation","description":"The cluster centers on translation control\u2014formation of the translation preinitiation complex, IRES-driven initiation, and regulation of translation initiation\u2014alongside regulation of mRNA splicing by the spliceosome (cis-splicing, alternative splicing, and related negative regulation). The viral translation initiation/termination-reinitiation terms hint at viral contexts, but the shared theme is coupling of translation regulation with RNA processing.","confidence":"High","size":11,"edges":4,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0000381","count":4}]},{"hash":"1218518575990046972","title":"Neural development and gene expression machinery","description":"Dominant neural development terms (forebrain development, neural tube closure, multicellular organism development) together with core gene-expression processes: transcription, splicing, ribosome biogenesis, and ubiquitination, point to a cluster of proteins involved in neural development intertwined with the transcription/translation machinery. While mitotic cell cycle and stress-related terms are present, the neural-development signals are most prominent.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0007275","count":4}]},{"hash":"592631695128610059","title":"Neuronal signaling and synaptic regulation","description":"This cluster centers on neural communication and signaling pathways, with terms such as dopamine uptake regulation, neuropeptide signaling, sensory perception of pain, ERK cascade, GTPase activity, and endocytosis, all pointing to synaptic transmission and plasticity. Some terms like heart development or cell population proliferation are less directly related but may reflect broader developmental contexts of signaling networks.","confidence":"Medium","size":11,"edges":17,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0051586","count":3},{"id":"GO:0010513","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0043547","count":3}]},{"hash":"759680226802244025","title":"GPCR-Mediated Immune and Mucosal Defense","description":"The cluster consistently highlights GPCR signaling components (GPCR internalization; adenylate cyclase-inhibiting serotonin receptor signaling) together with innate immune and mucosal responses (defense against bacteria, LPS response, neutrophil-mediated killing, and mucus secretion), suggesting a cohesive theme where serotonin/GPCR pathways interface with antibacterial defense and mucosal regulation.","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014063","count":11},{"id":"GO:0008283","count":11},{"id":"GO:0042493","count":11},{"id":"GO:0042742","count":11},{"id":"GO:0032496","count":11}]},{"hash":"1796781633823135092","title":"Ubiquitin-Driven Immune Signaling","description":"The GO terms point to ubiquitin-dependent protein turnover (including K6-linked ubiquitination) and regulation of key immune signaling cascades (JNK, I-kappaB/NF-\u03baB phosphorylation, and LPS signaling), suggesting a cohesive role in ubiquitin-mediated control of immune signaling and downstream transcriptional responses, with a possible link to epigenetic regulation of gene expression.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0043045","count":3},{"id":"GO:0090073","count":3},{"id":"GO:0045869","count":3},{"id":"GO:1901536","count":3}]},{"hash":"1230793761390409893","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0042276","count":2},{"id":"GO:0070987","count":2},{"id":"GO:0001824","count":2},{"id":"GO:0006888","count":2}]},{"hash":"1633629824989956296","title":"Oxidative Stress Response and Vascular Regulation","description":"Based on the top GO terms, the proteins cluster around oxidative stress defense (cellular oxidant detoxification; response to hydrogen peroxide) and signaling pathways that control vascular and renal physiology (nitric oxide biosynthesis, blood pressure regulation, coagulation, and renal absorption). The brown fat differentiation term is less central to this core theme, suggesting metabolism-linked signaling rather than the primary function of the cluster.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0045429","count":3},{"id":"GO:0050873","count":3},{"id":"GO:0008217","count":3}]},{"hash":"348792631926857916","title":"Detoxification and small-molecule metabolism","description":"The proteins in this cluster show a consistent emphasis on detoxification and broad small-molecule catabolism, including cellular oxidant detoxification and response to toxic substances, as well as metabolism of diverse substrates (lipids, nucleotides, alkaloids, xenobiotics) and some metabolite biosynthesis. This suggests a general role in processing and neutralizing a variety of small molecules rather than a single, specific pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":7},{"id":"GO:0097755","count":6},{"id":"GO:0009102","count":6},{"id":"GO:2000124","count":6},{"id":"GO:0019433","count":6}]},{"hash":"588376796851608166","title":"Proteoglycan ECM Biosynthesis in Development","description":"This cluster centers on proteoglycan production and extracellular matrix components, as shown by terms like chondroitin sulfate proteoglycan biosynthetic process and UDP-N-acetylgalactosamine metabolic process. The presence of multicellular organism development, mesoderm formation, and angiogenesis suggests a developmental and tissue-formation role for these proteins, likely linked to ECM remodeling and proteoglycan-mediated signaling. While there are some broader terms (DNA replication, protein binding regulation) that are less specific, the dominant theme is proteoglycan biosynthesis within developmental contexts.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":3},{"id":"GO:0019276","count":2},{"id":"GO:0050650","count":2},{"id":"GO:0032092","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1127579157271740575","title":"Unknown","description":"The terms cover calcium ion transport, cell junctions, tissue development, nuclear membrane dynamics, cytoskeleton regulation, and immune signaling, with no single biological process linking all proteins. The wide spread of functions suggests there is no cohesive theme to name a specific, representative function for this cluster. Therefore, this cluster is Unknown.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":1},{"id":"GO:0070296","count":1},{"id":"GO:0060857","count":1},{"id":"GO:0034765","count":1},{"id":"GO:0019991","count":1}]},{"hash":"776572777190514662","title":"Wnt signaling and cell adhesion in development","description":"The cluster centers on signaling and cell\u2013cell interactions involved in development and immune contexts. Canonical Wnt signaling and ephrin receptor signaling, along with adherens junction organization and actin filament branching, suggest coordinated communication and junctional remodeling. The presence of T cell receptor signaling (beta selection) and cellular responses to mechanical stimuli, fungal origin, and tissue growth/homeostasis further point to a theme of signaling integrated with tissue organization and mechanotransduction in multicellular organisms.","confidence":"High","size":11,"edges":21,"triangles":7,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":9},{"id":"GO:0090135","count":9},{"id":"GO:0050852","count":9},{"id":"GO:0071226","count":9},{"id":"GO:0043366","count":9}]},{"hash":"1209885052654147270","title":"Ubiquitin-dependent NF-kappaB and JNK signaling regulation","description":"The top GO terms center on ubiquitination and proteasomal catabolism, with multiple entries for NF-kappaB pathway regulation (I-kappaB phosphorylation, canonical NF-kappaB signaling), JNK cascade regulation, TNF signaling, and apoptotic processes. This points to a cohesive role in ubiquitin-mediated control of inflammatory signaling and related apoptosis.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:1903265","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0090073","count":3},{"id":"GO:0046328","count":3}]},{"hash":"1058177227240704578","title":"Vertebrate neural and organ development","description":"This cluster centers on GO terms for developmental processes across multiple tissues, with strong emphasis on nervous system development (forebrain, neuron projection, nervous system development) and organ/eye development (lens fiber differentiation, organ induction, skeletal system development). The recurring signaling terms (ERK cascade) suggest regulatory pathways guiding these developmental events, supporting a cohesive theme of vertebrate embryonic development with neural and organ emphasis.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0070306","count":2},{"id":"GO:0001759","count":2},{"id":"GO:0035234","count":2}]},{"hash":"508420216714342620","title":"DNA Damage Response and Genome Maintenance","description":"The top terms point to DNA repair and genome stability, e.g., mitochondrial double-strand break repair via homologous recombination, cellular response to gamma radiation, and negative regulation of telomere maintenance via recombination. While there are a few broader developmental terms (axon guidance, morphogenesis) that may reflect dataset noise, the strongest signals are in genome maintenance and stress-induced DNA repair, supporting a label focused on DNA damage response. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":3},{"id":"GO:0008045","count":3},{"id":"GO:0000902","count":3},{"id":"GO:0032481","count":2},{"id":"GO:0051290","count":2}]},{"hash":"372543931465314814","title":"Ribosome biogenesis and translation machinery","description":"This cluster is dominated by GO terms related to ribosome assembly and protein synthesis (90S preribosome assembly, translation, and ribosomal subunit biogenesis). DNA-templated transcription also aligns with general gene-expression processes feeding ribosome production. A few developmental terms (ossification, skeletal system development, middle ear morphogenesis, axial mesoderm development) appear only once and likely reflect annotation overlap rather than a shared functional theme. Overall, the core function appears to be ribosome biogenesis and translation-related processes.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034463","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0042274","count":1},{"id":"GO:0042273","count":1}]},{"hash":"1664864245650759574","title":"Xenobiotic and hormone metabolism","description":"The cluster shows strong enrichment for multiple metabolism-related GO terms spanning xenobiotics (xenobiotic metabolic process, bile acid catabolic, ethanol catabolic, flavonoid metabolic) and hormones (thyroid hormone, estrogen catabolic, catecholamine metabolic), plus related biosynthetic activity for proteoglycans. This suggests a cohesive theme around processing and detoxifying a diverse set of endogenous and exogenous compounds, with a secondary link to adipogenesis regulation. ","confidence":"High","size":11,"edges":11,"triangles":1,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0015012","count":7},{"id":"GO:0042403","count":7},{"id":"GO:0006805","count":7},{"id":"GO:0045600","count":7},{"id":"GO:0006711","count":7}]},{"hash":"1257088585842690287","title":"Vesicle trafficking and membrane transport","description":"The top terms center on membrane trafficking (exocytosis, slow endocytic recycling) and cytoskeletal remodeling (actin filament depolymerization), with several transport processes (biotin, myo-inositol, glucose) and related metabolic activities (acetylcholine biosynthesis). While xenobiotic response and sulfur oxidation are broader, the strongest signal is vesicle trafficking and membrane transport, making this a cohesive cluster theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":2},{"id":"GO:0019417","count":2},{"id":"GO:0032458","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0006887","count":2}]},{"hash":"1209799096717681764","title":"Multi-substrate membrane transporters","description":"The GO terms show transmembrane transport for a wide range of substrates\u2014potassium ions, vitamins, sugars, nitrates, xenobiotics, and related compounds\u2014indicating a cluster of membrane transporter proteins with broad substrate specificity rather than a single substrate focus.","confidence":"High","size":11,"edges":11,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":11},{"id":"GO:0035461","count":11},{"id":"GO:0006855","count":11},{"id":"GO:0042908","count":11},{"id":"GO:0015753","count":10}]},{"hash":"269153110889796198","title":"Diverse Membrane Transport","description":"The top GO terms are all about transmembrane transport of diverse substrates (D-xylose, dehydroascorbic acid, potassium, nitrate, sialic acid, trehalose, etc.), suggesting a shared function in moving molecules across membranes. The presence of one unrelated term (positive regulation of replicative senescence) is likely noise relative to the dominant transport theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015753","count":10},{"id":"GO:0070837","count":10},{"id":"GO:0071805","count":10},{"id":"GO:0071332","count":10},{"id":"GO:0015706","count":10}]},{"hash":"1944524926745475646","title":"Bacterial fatty acid catabolism and quinone biosynthesis","description":"Most terms cluster around fatty acid beta-oxidation, valine and phenylacetate catabolism, and quinone biosynthesis (menaquinone and phylloquinone), plus antibiotic biosynthetic process. This points to a metabolic cluster typical of bacteria focused on energy metabolism and quinone production. A few terms (neurogenesis, circadian entrainment, late viral transcription) are unrelated and likely annotation noise. Thus the label captures the main theme: bacterial metabolism with quinone biosynthesis.","confidence":"Medium","size":10,"edges":24,"triangles":36,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006635","count":7},{"id":"GO:0017000","count":7},{"id":"GO:0006574","count":7},{"id":"GO:0010124","count":7},{"id":"GO:0009234","count":7}]},{"hash":"193727465696475083","title":"Small-molecule metabolism and signaling","description":"This cluster includes proteins linked to diverse metabolic processes, notably ethanol fermentation/catabolism, pentose phosphate pathway flux, and metabolism of signaling lipids and vitamins (retinoic acid, prostaglandins), along with an insulin response. The shared theme is broad small-molecule metabolism coupled with metabolic signaling rather than a single cohesive pathway, so a general label like \u201cSmall-molecule metabolism and signaling\u201d is most representative.","confidence":"Medium","size":10,"edges":8,"triangles":1,"max_degree":3,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0019518","count":4},{"id":"GO:0032869","count":4},{"id":"GO:1901159","count":3},{"id":"GO:0043458","count":3},{"id":"GO:0042573","count":3}]},{"hash":"326839365745585680","title":"Stress and xenobiotic response with vesicle transport","description":"The cluster's GO terms are dominated by stress- and xenobiotic-related responses (immobilization stress, cocaine, ozone, xenobiotic stimulus) with a supporting emphasis on vesicle/secretory transport (ER to Golgi). While some terms (DNA replication, methylation, androgen metabolism) are present, the strongest signal is stress and detoxification responses linked to cellular trafficking.","confidence":"Medium","size":10,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035902","count":3},{"id":"GO:0032259","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0006888","count":2}]},{"hash":"1466930500408642790","title":"Ubiquitin\u2013Proteasome Regulation of Immune Signaling","description":"The cluster centers on ubiquitin-dependent processes (deubiquitination, proteasome assembly) and signaling pathways (non-canonical NF-kappaB, Wnt regulation, C-type lectin and Fc\u03b5 receptor signaling), suggesting a module where ubiquitin-proteasome dynamics modulate immune and developmental signaling with cross-talk between NF-kB and Wnt pathways.","confidence":"Medium","size":10,"edges":38,"triangles":74,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":6},{"id":"GO:0038061","count":5},{"id":"GO:0090090","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0002223","count":5}]},{"hash":"2045997464568031509","title":"Viral replication and virion assembly","description":"The top GO terms are dominated by viral life cycle, virion assembly, and related virus-host interactions (e.g., host-mediated activation of viral genome replication and proviral latency), indicating the cluster represents proteins involved in viral replication and assembly. Some unrelated terms (like protein folding) appear as noise in the set, but the prevailing theme is viral processes.","confidence":"High","size":10,"edges":24,"triangles":25,"max_degree":8,"top_function":"protein folding","top_go_terms":[{"id":"GO:1901407","count":8},{"id":"GO:0019058","count":7},{"id":"GO:0019068","count":7},{"id":"GO:0050714","count":7},{"id":"GO:0044829","count":7}]},{"hash":"1706850369569605250","title":"Vertebrate embryonic organogenesis and neurodevelopment","description":"The top GO terms point to broad embryonic development across multiple organs (brain, lung, skeletal system, blood vessels, gonads, somites) and related transcriptional control, plus supporting cellular trafficking (ER to Golgi). Together these suggest a cluster representing vertebrate embryonic organogenesis and neural development rather than a single tissueogic function. Confidence: High","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0001955","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0030324","count":2},{"id":"GO:0048705","count":2}]},{"hash":"1937136188074654130","title":"RNA Processing and Translational Regulation","description":"The cluster shows a coherent theme around RNA maturation and post-transcriptional control: mRNA polyadenylation and splicing, formation of the translation preinitiation complex, IRES-dependent translation, and ncRNA-mediated gene silencing (including miRNA and regulatory ncRNA pathways). This points to a set of proteins involved in RNA processing and regulation of translation/gene expression at the RNA level.","confidence":"High","size":10,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:1905663","count":2},{"id":"GO:0001731","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0035278","count":2}]},{"hash":"1614486250288628904","title":"RNA processing and translational control","description":"This cluster centers on translation initiation and reinitiation (including IRES-dependent initiation) and on post-transcriptional regulation by miRNA and regulatory ncRNAs, alongside spliceosome-related mRNA processing and splicing regulation. The common thread is RNA-level control of gene expression, spanning RNA processing and translation, rather than transcriptional regulation.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:1905663","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0035278","count":2}]},{"hash":"1999671923921299974","title":"Membrane Transporters for Ions and Nutrients","description":"Dominant transmembrane transport terms across ions, nutrients, and xenobiotics (e.g., potassium, nitrate/nitrite, sialic acid, fucose) with an additional neurotransmitter loading term. This points to a cluster of membrane transport proteins whose main role is moving diverse substrates across membranes.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":9},{"id":"GO:0006855","count":9},{"id":"GO:0071805","count":8},{"id":"GO:0015706","count":8},{"id":"GO:0042891","count":8}]},{"hash":"2184358196392092943","title":"Endolysosomal vesicle trafficking","description":"The cluster is dominated by GO terms for vacuole/lysosome-related vesicle fusion, endosome-to-lysosome transport, and vesicle tethering, plus phagosome-lysosome fusion and autophagosome maturation, indicating a coherent theme of endolysosomal trafficking. A few terms (mRNA splicing/export) are less central but do not override the main vesicular transport signal.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":3},{"id":"GO:0045292","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0051469","count":2},{"id":"GO:0097352","count":2}]},{"hash":"349680600738570116","title":"Angiogenesis and Kidney/Cardiac Regulation","description":"Top GO terms show strong emphasis on angiogenesis and kidney development, with additional signals for renal response to blood flow and regulation of cardiac conduction. This points to a cluster of proteins likely involved in vascular and renal physiology and related cardiac regulation, rather than a single metabolic pathway. A few terms (lipid biosynthesis regulation, cell adhesion regulation, cobalt response) may reflect broader regulatory roles or annotation noise, but the dominant theme remains vascular/kidney development and cardiac regulation.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0051055","count":1},{"id":"GO:0001999","count":1}]},{"hash":"1590592763515355320","title":"Insect Stress Response and Behavioral Regulation","description":"The top GO terms suggest a theme of environmental/stress responses (temperature, xenobiotic, pain perception) combined with behavior- and reproduction-related processes (larval locomotion, egg-laying regulation, behavioral defense) typical of insect physiology, with one RNA editing term likely reflecting neural regulation. This points to a cluster of proteins involved in managing stress and associated behaviors in insects, rather than a single tight pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002024","count":2},{"id":"GO:0071502","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0045434","count":1}]},{"hash":"824944145148306938","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around translation, ribosome biogenesis, and SSU-rRNA maturation, indicating proteins involved in ribosome assembly and protein synthesis; other metabolic biosynthesis terms are likely ancillary. Overall, the dominant theme is ribosomal machinery and translation.","confidence":"High","size":10,"edges":30,"triangles":57,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0009236","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0006015","count":2},{"id":"GO:0046677","count":2}]},{"hash":"1991506661620228528","title":"Proteostasis and gene expression regulation","description":"This cluster shows GO terms spanning translation, protein quality control (aggresome assembly, deubiquitination, ER-associated degradation), RNA processing (SSU-rRNA maturation) and transcription regulation, plus cell-cycle-related processes (spindle pole body duplication) and DNA repair (nucleotide-excision repair). The shared theme appears to be maintenance of cellular protein homeostasis and coordinated gene expression, rather than a single specific pathway, hence \"Proteostasis and gene expression regulation.\" The presence of both proteostasis and transcription-related terms supports a broad homeostatic role.","confidence":"Medium","size":10,"edges":22,"triangles":24,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0070842","count":5},{"id":"GO:0016579","count":5},{"id":"GO:0002109","count":5},{"id":"GO:0006357","count":5}]},{"hash":"1392764467353043608","title":"GPCR Signaling and Regulation","description":"This cluster is driven by multiple GPCR-related GO terms, including adenylate cyclase-inhibiting serotonin receptor signaling, adenylate cyclase-activating adrenergic receptor signaling, GPCR internalization, opsin-mediated signaling, and prostaglandin responses, all pointing to diverse GPCR signaling pathways. Additional terms like positive regulation of Rho signaling and mucus secretion, as well as tissue-specific outputs such as neutrophil killing and smooth muscle differentiation, fit within GPCR-regulated processes. Taken together, the proteins likely function as a GPCR signaling module with broad regulatory roles across tissues.","confidence":"High","size":10,"edges":9,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070257","count":2},{"id":"GO:0007198","count":2},{"id":"GO:0070963","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0071799","count":2}]},{"hash":"394576289587576817","title":"Developmental differentiation and morphogenesis","description":"The GO terms cluster around tissue development and differentiation (osteoblast differentiation, keratinocyte differentiation) and morphogenesis (midbrain morphogenesis) across multiple tissues, with supporting transcriptional regulation and growth terms, suggesting a coherent theme of developmental programs rather than a single pathway.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0001649","count":2},{"id":"GO:0051289","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0009060","count":2}]},{"hash":"726995685773071820","title":"Developmental Processes and Stress Response","description":"The proteins cluster around developmental biology terms\u2014forebrain development, skeletal system development, multicellular organism development, and neural tube closure\u2014suggesting a role in organismal development. Additional terms point to cellular stress and damage responses (ER stress-induced apoptosis, cadmium response) and cell cycle processes, indicating these proteins participate in growth, development, and stress-regulated pathways. The combination supports a label emphasizing development with associated stress mechanisms.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030900","count":7},{"id":"GO:0001403","count":7},{"id":"GO:0001501","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0006349","count":7}]},{"hash":"850425622078030501","title":"RNA methylation and tRNA wobble modification","description":"The cluster is dominated by RNA modification activities, including tRNA wobble uridine modification and RNA guanine-N7 methylation, suggesting a core role in RNA modification/methylation. Other terms (redox, glycolysis, chlorophyll biosynthesis, and B12 biosynthesis) appear more peripheral or reflect broad metabolic context, but the RNA methylation signals provide a coherent functional theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0002098","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0006096","count":2},{"id":"GO:0045454","count":2}]},{"hash":"1472822232659942094","title":"Epigenetic regulation and ubiquitin signaling","description":"The top GO terms point to chromatin-related processes (histone demethylation, chromatin regulation) and ubiquitin-mediated modification (K27- and K29-linked ubiquitination), with downstream effects on transcription and cell fate (apoptosis). While some terms are obsolete or peripheral (neuron/eye development, chiasma assembly), the core pattern is regulation of gene expression via epigenetic marks and ubiquitin signaling that can influence transcriptional programs and apoptotic outcomes.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0070076","count":10},{"id":"GO:0010620","count":10},{"id":"GO:0044314","count":10},{"id":"GO:0061186","count":10},{"id":"GO:0006915","count":10}]},{"hash":"2129060119046557608","title":"Cell Cycle, DNA Repair, and Innate Immunity","description":"This cluster's top terms cluster around cell cycle progression (G2/M transition, spindle pole separation) and DNA repair, with additional signals of innate immune response and NF-kappaB activity. The dominant themes point to genome maintenance and cell-cycle control, with some members also linked to immune signaling. Some outlier terms related to development and signaling may reflect broader annotations, but the core appears to be cell cycle/DNA repair with innate immunity components.","confidence":"Medium","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0035372","count":4},{"id":"GO:0006281","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0007275","count":4}]},{"hash":"265572397334304921","title":"Cilium and flagellum assembly and motility","description":"This cluster is heavily enriched for ciliary and flagellar processes: multiple terms refer to axoneme or cilium assembly and movement, including sperm flagellum motility. The presence of tubulin post-translational modification terms (polyglutamylation, polyglycylation) points to microtubule regulation within cilia/flagella. A couple of terms about microtubule severing and axoneme regulation support dynamic remodeling essential for motility; calcium import may relate to signaling that modulates ciliary movement.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051013","count":2},{"id":"GO:0098703","count":2},{"id":"GO:0070682","count":2},{"id":"GO:0007288","count":1},{"id":"GO:0030516","count":1}]},{"hash":"398016525095594076","title":"Embryonic Development and Vascular Regulation","description":"GO terms point to embryogenesis and cardiovascular signaling (embryonic eye morphogenesis, embryo implantation, Notch-driven heart field development, angiogenesis/vasoconstriction, blood coagulation) and also mention synapse assembly, indicating nervous system development. The common thread is multi-system developmental regulation with a vascular emphasis; insulin secretion regulation appears as a minor outlier. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050796","count":3},{"id":"GO:0090023","count":2},{"id":"GO:0043065","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0016525","count":2}]},{"hash":"226219685875426200","title":"Neural development and neuronal migration","description":"The top GO terms are dominated by brain development and neuron/migration processes (hippocampus development, cerebral cortex migration, olfactory bulb interneuron precursor migration), indicating a coherent theme of neural development. Some terms relate to general development or Golgi localization, but they do not override the neural-focus signal.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043525","count":2},{"id":"GO:0000042","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0021799","count":2},{"id":"GO:0001666","count":2}]},{"hash":"216122289158887100","title":"Synapse formation and membrane trafficking in neurons","description":"The cluster includes GO terms for brain development and synapse assembly, along with Golgi-to-plasma membrane transport and Rho signaling, pointing to neuronal synapse development and associated secretory/cytoskeletal remodeling; other terms on cytokine responses and insulin secretion may reflect broader signaling and secretory pathways linked to neuronal function.","confidence":"Medium","size":10,"edges":11,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032024","count":3},{"id":"GO:0010796","count":3},{"id":"GO:0031384","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0043001","count":3}]},{"hash":"520107325424312910","title":"Kinase signaling and cell cycle regulation","description":"The top GO terms cluster around regulation of phosphorylation and signaling (positive regulation of GTPase activity, autophosphorylation, and serine/threonine kinase activity) together with cell proliferation and development processes (mitotic cell cycle, skin and multicellular organism development). While transport and hypoxia terms are present, the dominant theme is regulation of signaling pathways and cell growth/division.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0031954","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0071902","count":3},{"id":"GO:0008284","count":3}]},{"hash":"1443169562553061040","title":"Diverse Transmembrane Transporters","description":"The top GO terms show multiple transmembrane transport activities across a range of substrates (D-xylose, dehydroascorbic acid, potassium, nitrate, sialic acid, etc.) and a general transmembrane transport term, indicating the cluster is primarily composed of membrane transport proteins with diverse substrate specificities. The lack of interaction edges further supports a functional grouping by transporter activity rather than protein\u2013protein interactions. ","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033674","count":2},{"id":"GO:0015753","count":1},{"id":"GO:0070837","count":1},{"id":"GO:0071805","count":1},{"id":"GO:1905431","count":1}]},{"hash":"2243450875074970414","title":"Developmental signaling and cytoskeletal regulation","description":"The top GO terms point to signaling (positive regulation of protein autophosphorylation and tyrosine phosphorylation) paired with development-related processes (forebrain development, lens fiber cell differentiation) and cytoskeletal dynamics (Arp2/3-mediated actin regulation, microtubule severing) along with protein turnover (ubiquitination). This combination suggests a cluster where signal-driven developmental programs coordinate cytoskeletal remodeling and protein regulation. Some terms (aging, rRNA processing) are less cohesive but do not override the overall trend.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0031954","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0070306","count":4},{"id":"GO:0007568","count":4}]},{"hash":"1472634720824270158","title":"Neural Development and Synaptic Signaling","description":"The cluster\u2019s top GO terms are strongly centered on neural development and synaptic function, including axonogenesis, long-term synaptic potentiation, and excitatory postsynaptic potentials. Additional terms point to broader developmental and signaling contexts (neural tube patterning, myotube differentiation, and hormone response), but the dominant pattern supports a neurodevelopmental/synaptic theme rather than a non-specific mix. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0043065","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0051298","count":2},{"id":"GO:1901621","count":2}]},{"hash":"458184968008060418","title":"RTK and Wnt Developmental Signaling","description":"The terms center on receptor tyrosine kinase\u2013like signaling and growth factor pathways (ephrin signaling, peptidyl-tyrosine autophosphorylation, PDGF- and integrin-mediated signaling) and include Wnt signaling and forebrain development, with hints of cell fate decisions (apoptosis, gamma-delta T cell differentiation). This suggests a developmental signaling module rather than a single pathway.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048013","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0045425","count":5},{"id":"GO:0030900","count":5},{"id":"GO:0038083","count":5}]},{"hash":"630002682958048549","title":"Immune Defense and Inflammatory Response","description":"Based on the strongest signals in the Top Terms\u2014defense response to Gram-positive bacteria, production of molecular mediators involved in inflammatory response, and positive regulation of chemokine production\u2014the cluster appears centered on innate immune and inflammatory signaling. While some metabolic terms are present, the immune/inflammatory signals dominate, justifying this label.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0002532","count":2},{"id":"GO:0005975","count":2}]},{"hash":"2087221023679894178","title":"Neural signaling and sensory perception","description":"This cluster is dominated by GO terms tied to neural function and sensory processing, including visual perception and learning, dopaminergic synaptic transmission, and behavioral responses to cocaine. Additional terms point to signaling pathways (ERK cascade) and stimulus responses that are common in neural plasticity and reward pathways. A few immune-related terms appear but are likely less central to the core theme, making a neural signaling/sensory perception label the most representative. Confidence: Medium","confidence":"","size":10,"edges":5,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010759","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0001963","count":9}]},{"hash":"30421943185483253","title":"GPCR signaling and downstream responses","description":"The terms center on G protein-coupled receptor signaling and its downstream cascades: adenylate cyclase modulation by serotonin and adrenergic receptors, GPCR internalization, opsin signaling regulation, prostaglandin responses, and Rho-mediated pathways. Additional terms about mucus secretion and vascular smooth muscle differentiation reflect GPCR-driven physiological outputs, collectively pointing to a coherent GPCR-centric cluster.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":9},{"id":"GO:0007198","count":9},{"id":"GO:0070963","count":9},{"id":"GO:0002031","count":9},{"id":"GO:0071799","count":9}]},{"hash":"1975723842642053776","title":"Motor neuron axon guidance and neural adhesion","description":"The top GO terms strongly point to neural development: motor neuron axon guidance, peripheral nervous system axonogenesis, and lateral motor column neuron migration. The presence of cell-matrix and heterophilic cell\u2013cell adhesion terms supports adhesion-mediated axon pathfinding, while VEGF signaling regulation hints at neurovascular coordination during development. Altogether, these terms suggest a cohesive theme of neural development and axon guidance.","confidence":"High","size":10,"edges":12,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0008045","count":5},{"id":"GO:0070527","count":5},{"id":"GO:0097477","count":5},{"id":"GO:0007160","count":5}]},{"hash":"516666982928284466","title":"Neural and lens development with cytoskeletal regulation","description":"This cluster is dominated by GO terms for brain/forebrain development and lens fiber cell differentiation, pointing to neural and eye development as the main theme. Supporting this, cytoskeleton-related terms (negative regulation of Arp2/3 nucleation and microtubule severing) indicate active cytoskeletal remodeling during these developmental processes. Additional terms on protein ubiquitination, autophosphorylation, and mRNA export under heat stress suggest broader regulatory roles that accompany development. Overall, the data best fit a developmental cluster centered on neural and lens formation with cytoskeletal dynamics.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0070306","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0034316","count":4}]},{"hash":"1759191831614571120","title":"PI3K/AKT and ERK Signaling Regulation","description":"This cluster is dominated by GO terms involving positive regulation of PI3K/AKT signaling and ERK1/ERK2 cascades, pointing to central growth-signaling pathways. Additional terms relate to cell polarity, cytoskeleton dynamics, and mitotic spindle assembly, which can be downstream effects of these pathways, supporting a unifying theme of signaling control affecting cell growth and division. A few outliers (DNA transposition, osmotic response, inflammation-related terms) are present but do not overturn the main signal.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0031532","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0090307","count":2}]},{"hash":"406954802331920327","title":"RNA processing and translation regulation","description":"The cluster is enriched for RNA-centric processes: mRNA splicing (via spliceosome), mRNA processing, and regulation of mRNA stability, alongside components involved in translation initiation (formation of the preinitiation complex). This pattern points to a core function in RNA metabolism and control of protein synthesis, with additional terms like cell growth and DNA repair likely reflecting broader cellular roles or annotation noise.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0001731","count":2}]},{"hash":"1634142457168886263","title":"ERAD/Ubiquitin-Dependent Degradation Regulation","description":"The top terms cluster around regulation of ubiquitin-mediated pathways, especially negative regulation of ER-associated degradation (ERAD) and ubiquitin-related deubiquitination, with supporting notes on protein turnover, glycoprotein processing, and cell fate. This suggests a cohesive theme: modulation of the ubiquitin-proteasome/ERAD quality-control system and its influence on cellular outcomes. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0060546","count":2},{"id":"GO:1903094","count":1},{"id":"GO:1904293","count":1},{"id":"GO:0006516","count":1}]},{"hash":"170417434497700103","title":"Innate Immune Activation and Inflammatory Signaling","description":"The top GO terms cluster around innate immunity and inflammatory processes: innate immune response, inflammatory response, positive regulation of cytokine and chemokine production, and chemotaxis, plus arachidonate secretion. A couple of terms touch on mitochondrial autophagy and respiration, suggesting metabolic remodeling during immune responses, but the dominant theme is innate immune activation and inflammation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010259","count":2},{"id":"GO:0000422","count":2},{"id":"GO:0043457","count":2},{"id":"GO:0050918","count":2},{"id":"GO:0045087","count":2}]},{"hash":"972977800040770296","title":"Olfactory learning and synaptic receptor trafficking","description":"This cluster centers on odor-associated learning and synaptic modifications, evidenced by terms for olfactory learning, conditioned taste aversion, startle response, and positive regulation of long-term potentiation, as well as receptor trafficking processes (internalization, recycling) and ER-Golgi transport, indicating coordinated regulation of synaptic strength and receptor turnover in olfactory-related pathways.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008355","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0001919","count":2}]},{"hash":"1027930736121232532","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around embryonic development across multiple tissues (placenta, endocardial cushion, pancreatic cell development, left-right patterning, trophoblast differentiation, cartilage morphogenesis, endocrine system development). The inclusion of GABA secretion and calcium/manganese ion transport hints at signaling and ion homeostasis roles during development. Collectively, these terms point to a broad developmental/morphogenetic theme rather than a single tissue-specific process.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0060707","count":2}]},{"hash":"1912765598444609689","title":"Sarcomere and Axon Guidance Proteins","description":"This cluster combines muscle-associated structural terms (sarcomere organization, striated muscle myosin thick filament assembly) with neural development and guidance signals (neurogenesis, various axon guidance terms such as anterior/posterior and corticospinal neuron guidance, semaphorin-plexin signaling) and adhesion functions, suggesting a theme of structural muscle components that may also participate in neural connectivity and cell adhesion.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0022008","count":1},{"id":"GO:2001189","count":1},{"id":"GO:1902287","count":1},{"id":"GO:0070306","count":1}]},{"hash":"1939751990323943157","title":"Autophagy, mitophagy, and stress response","description":"The top GO terms converge on autophagy-related processes (macroautophagy, mitophagy, mitophagy by internal vacuole formation, mitochondrial and cellular protein catabolism) and a general cellular stress response, suggesting the cluster centers on autophagic quality control and stress signaling. Other terms about tissue-specific processes and general catabolism appear incidental rather than defining, reinforcing a core autophagy/stress theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007018","count":1},{"id":"GO:0061026","count":1},{"id":"GO:0016239","count":1},{"id":"GO:0045493","count":1},{"id":"GO:2000884","count":1}]},{"hash":"221473032236904008","title":"Glutamatergic synapse assembly and AMPA receptor regulation","description":"This cluster is dominated by GO terms linked to excitatory synapse formation, glutamatergic transmission, synaptic vesicle clustering, and AMPA receptor activity, with learning as a functional readout, indicating a role in synaptic plasticity. A single term about raffinose biosynthesis likely reflects annotation noise rather than a true functional connection. Overall, the pattern supports glutamatergic synapse organization and AMPA signaling.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1904861","count":4},{"id":"GO:0051968","count":4},{"id":"GO:0072553","count":4},{"id":"GO:0097091","count":4},{"id":"GO:0007612","count":4}]},{"hash":"2293371633584120965","title":"Embryonic organogenesis","description":"This cluster centers on developmental and morphogenetic processes across multiple embryonic tissues, including gonads, heart, eye/retina, limb, placenta, and neural structures, indicating a broad embryonic organogenesis theme rather than a single tissue-specific function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":6},{"id":"GO:2000288","count":5},{"id":"GO:0061551","count":5},{"id":"GO:0048048","count":5},{"id":"GO:0060527","count":5}]},{"hash":"903774199149058060","title":"Unknown","description":"The GO terms span post-translational modification (ADP-ribosylation), protein turnover (ubiquitin-dependent proteolysis and proteasome assembly), and various developmental processes (stem cell proliferation, endodermal differentiation, stamen formation) with associated adhesion and migration signals, but there is no clear, cohesive function or interaction pattern connecting these proteins. Therefore, no definitive label beyond Unknown can be confidently assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006471","count":3},{"id":"GO:2000648","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0035987","count":2}]},{"hash":"764875489096724387","title":"Unknown","description":"The GO terms span multiple, largely unrelated biosynthetic and metabolic pathways (antibiotic biosynthesis, sphingolipid and polyhydroxybutyrate biosynthesis, androgen and retinoic acid metabolism) plus a general transcription regulation term, with no single unifying function. The sparse network (2 edges, 0 triangles) and mixed terms suggest the proteins do not share a cohesive biological theme. Therefore, there isn't a clear, interpretable label beyond Unknown.","confidence":"","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":7},{"id":"GO:0055114","count":7},{"id":"GO:0042619","count":5},{"id":"GO:0008209","count":5},{"id":"GO:0002138","count":5}]},{"hash":"1448287765885051984","title":"Gene Expression Regulation and Stress Response","description":"This cluster centers on regulation of transcription and mRNA stability, along with cellular responses to stimuli (hormones, xenobiotics) and apoptosis, suggesting a broad program that links stimulus sensing to gene expression changes. Some terms are obsolete or tissue-specific (corneocyte development, renal water transport), but the core theme is gene-expression regulation under stress.","confidence":"Medium","size":9,"edges":12,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:1903507","count":2},{"id":"GO:2000466","count":2},{"id":"GO:2001153","count":2},{"id":"GO:0003335","count":2}]},{"hash":"1489184532838595590","title":"Embryonic and tissue morphogenesis across organs","description":"The top GO terms cluster around developmental processes and morphogenesis across multiple tissues (heart, eye, placenta, prostate, habenula), with supporting signaling and metamorphosis terms (pupariation). This points to a general developmental/morphogenetic theme rather than a single specific pathway, supporting the chosen label.","confidence":"High","size":9,"edges":12,"triangles":5,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000288","count":8},{"id":"GO:0048048","count":8},{"id":"GO:0060527","count":8},{"id":"GO:0030520","count":8},{"id":"GO:0007507","count":8}]},{"hash":"472008079733786431","title":"RNA processing and translational regulation","description":"GO terms span mRNA splicing, ncRNA-mediated silencing, and translation initiation/regulation, suggesting a shared role in post-transcriptional gene expression control. Despite some obsolete terms and sparse connections, the coherent theme across splicing and translational control supports this label.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1905663","count":1},{"id":"GO:0001731","count":1},{"id":"GO:1901407","count":1},{"id":"GO:0035278","count":1},{"id":"GO:0075522","count":1}]},{"hash":"900407673103245727","title":"Steroid and Retinoid Metabolism","description":"The top GO terms cluster around androgen metabolic process, testosterone biosynthetic process, and retinal/retinol metabolism, indicating a shared focus on steroid and retinoid metabolism. While other terms (carbohydrate catabolism, ion transport) appear, they are less central, making the steroid/retinoid theme the most representative for this cluster.","confidence":"Medium","size":9,"edges":33,"triangles":65,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":4},{"id":"GO:0061370","count":4},{"id":"GO:0042574","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0042572","count":4}]},{"hash":"2300773846577575821","title":"Unknown","description":"The top terms come from very different biological contexts (plant development and metabolism, bacterial cell wall biosynthesis, and general metabolic processes), with no single coherent function linking them. This heterogeneity suggests there is no clear, shared theme for a concise label beyond Unknown.","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060763","count":2},{"id":"GO:0009698","count":2},{"id":"GO:0019427","count":2},{"id":"GO:0044539","count":2},{"id":"GO:0008218","count":2}]},{"hash":"17693868757129755","title":"Serine-centric amino acid metabolism","description":"The GO terms point to serine-focused pathways\u2014L-serine catabolic, D-serine biosynthetic\u2014along with broader amino acid turnover (amine catabolic, L-homocysteine catabolic, L-tryptophan biosynthetic) and sulfur-related metabolism (hydrogen sulfide biosynthetic). This suggests proteins involved in amino acid metabolism with a serine-centered theme, incorporating sulfur-containing amino acid pathways as well.","confidence":"High","size":9,"edges":33,"triangles":66,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006565","count":4},{"id":"GO:0055114","count":2},{"id":"GO:0070179","count":2},{"id":"GO:0009310","count":2},{"id":"GO:0043418","count":2}]},{"hash":"3024642626558492","title":"Vision and GPCR Signaling Cluster","description":"This cluster is dominated by GO terms tied to visual processes (retina development, visual perception) and GPCR-related signaling (GPCR internalization; serotonin receptor signaling; prostaglandin response). While there are also terms touching on development and immune responses, the strongest common thread appears to be GPCR-driven signaling linked to vision and sensory biology.","confidence":"Medium","size":9,"edges":6,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":4},{"id":"GO:0007626","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0046849","count":4}]},{"hash":"1274300597993938998","title":"Unknown","description":"The GO terms span lipid metabolism (cholesterol and fatty acid processes), transcription, hormonal responses (glucocorticoid signaling and insulin secretion), and neuronal processes (learning and cocaine response) with no single dominant theme. Because there is no cohesive function that clearly ties the terms together, a specific label cannot be reliably assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":4},{"id":"GO:0006695","count":4},{"id":"GO:0042220","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0050796","count":3}]},{"hash":"2208913294561559051","title":"DNA damage response and chromatin remodeling","description":"The top GO terms cluster around genome maintenance and chromatin dynamics (SOS response, DNA replication primer synthesis, transcription-coupled NER, nucleosome assembly, and histone modification), with related stress and RNA processing features (cellular senescence, stress granule localization). This suggests a shared focus on DNA repair and chromatin remodeling rather than a single metabolic pathway, though a couple terms may reflect annotation noise (e.g., erythrocyte development, obsolete histone mark). ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009432","count":2},{"id":"GO:0090398","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0006334","count":2},{"id":"GO:0048821","count":2}]},{"hash":"1203194203253313966","title":"Ubiquitin-mediated cell cycle and chromatin regulation","description":"These proteins are linked to mitotic control and chromosome segregation (G2/M transition, exit from mitosis) and to DNA repair, while also showing enrichment for ubiquitin-dependent processes (SCF-dependent proteasomal degradation, K27-linked ubiquitination) and chromatin regulation (histone demethylation, heterochromatin formation) that influence transcription. The presence of a viral process term may reflect virus-host interactions that perturb the cell cycle. Taken together, the cluster points to ubiquitin-driven regulation of the cell cycle and chromatin state, with ties to DNA repair and transcriptional control.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0016032","count":9},{"id":"GO:0031146","count":9},{"id":"GO:0007059","count":9},{"id":"GO:0070911","count":9},{"id":"GO:0010458","count":9}]},{"hash":"330199666553449810","title":"Actin Cytoskeleton Dynamics and Mitosis","description":"This cluster is dominated by actin-related processes (stress fiber and filopodium assembly, substrate adhesion-dependent spreading) and mitotic functions (spindle assembly, mitotic cell cycle), with additional signals hinting at vesicle transport and neuronal signaling, suggesting a theme of cytoskeletal remodeling linked to cell division and adhesion.","confidence":"Medium","size":9,"edges":9,"triangles":1,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051496","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0000060","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0051932","count":4}]},{"hash":"1189949527501136021","title":"Cell signaling and cytoskeleton remodeling","description":"The proteins show enrichment across multiple signaling pathways (Wnt, ephrin, T cell receptor), plus cytoskeletal dynamics (actin filament branching), mechanosensing, and ubiquitination, all pointing to a theme of regulating cell signaling networks together with cytoskeletal and tissue-level dynamics. This suggests a cohesive role as coordinators of signaling and structural remodeling across cell types, rather than a single pathway. ","confidence":"Medium","size":9,"edges":7,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090394","count":7},{"id":"GO:0071260","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0090263","count":4},{"id":"GO:0090135","count":4}]},{"hash":"2147212104527232484","title":"Thermogenesis-Linked Metabolic Signaling","description":"The cluster\u2019s top GO terms cluster around temperature response and diet-induced thermogenesis, with supporting notes on energy metabolism (electron transport chain) and GPCR-mediated cAMP signaling, indicating a theme of coordinating thermogenic regulation with cellular energy status.","confidence":"Medium","size":9,"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:0010579","count":4},{"id":"GO:0045777","count":4}]},{"hash":"1137694440789277654","title":"GPCR Signaling Regulation","description":"The top GO terms cluster around G protein-coupled receptor (GPCR) signaling and its modulation (serotonin and adrenergic receptor pathways, GPCR internalization, prostaglandin signaling, opsin-related signaling, and Rho pathway regulation). The presence of mucus secretion regulation and immune/neutrophil-related signaling alongside these GPCR-associated terms suggests a common theme of GPCR-driven signal transduction across diverse tissues. Therefore, a concise label like GPCR Signaling Regulation captures the core function represented by the cluster.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":8},{"id":"GO:0007198","count":8},{"id":"GO:0070963","count":8},{"id":"GO:0002031","count":8},{"id":"GO:0071799","count":8}]},{"hash":"1109063844016053541","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0048568","count":5},{"id":"GO:0000466","count":5},{"id":"GO:0042273","count":5},{"id":"GO:0000462","count":5}]},{"hash":"13064188747333262","title":"Lipid catabolism and membrane lipid remodeling","description":"The cluster is dominated by GO terms for triglyceride catabolic/mobilization and the remodeling/remodeling of glycerophospholipids (phosphatidylcholine and phosphatidylethanolamine catabolic processes), suggesting a core function in lipid breakdown and membrane lipid turnover. A couple of terms relate to signaling or development (calcium transport, negative regulation of PKA activity), which appear less central. Overall, the shared theme is triglyceride and phospholipid catabolism/restructuring.","confidence":"Medium","size":9,"edges":17,"triangles":11,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":3},{"id":"GO:0006642","count":3},{"id":"GO:0034638","count":3},{"id":"GO:0036153","count":3},{"id":"GO:2000480","count":3}]},{"hash":"576293921252716283","title":"Post-transcriptional RNA regulation","description":"The top GO terms center on mRNA processing, splicing, stability, translation initiation, and RNA silencing, indicating the proteins collectively function in post-transcriptional regulation of gene expression.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":4},{"id":"GO:1905663","count":3},{"id":"GO:0001731","count":3},{"id":"GO:1901407","count":3},{"id":"GO:0035278","count":3}]},{"hash":"71970330390977359","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018189","count":1},{"id":"GO:0019700","count":1},{"id":"GO:0006364","count":1},{"id":"GO:0008033","count":1},{"id":"GO:1903999","count":1}]},{"hash":"640261707231600668","title":"Neural connectivity and synapse formation","description":"Proteins in this cluster show enrichment for neuronal development and connectivity, including positive regulation of synapse assembly and axon guidance for serotonergic and dopaminergic neurons, plus cell-cell adhesion relevant to synapse formation. Other terms like ribosome biogenesis and organ morphogenesis are present, but the strongest theme centers on neural connectivity and synapse formation, justifying this label.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0030720","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0042274","count":2},{"id":"GO:0036515","count":2}]},{"hash":"1032454927927401042","title":"Cross-tissue development signals","description":"The cluster centers on GO terms tied to development across various tissues (CNS, kidney, cartilage) and signaling pathways like GDNF receptor signaling, with some outliers (lipoteichoic acid biosynthesis, epithelial migration). This suggests a broad developmental-program theme rather than a single pathway, justifying a cross-tissue development label.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":2},{"id":"GO:0070395","count":1},{"id":"GO:0040037","count":1},{"id":"GO:0032836","count":1},{"id":"GO:0003094","count":1}]},{"hash":"1913774691520739543","title":"Embryonic development and organ morphogenesis","description":"The proteins are enriched for developmental and tissue-specific GO terms (lung development, placental/embryonic differentiation, left-right patterning, EMT in heart development, pancreatic and spermatogenic development), suggesting a shared role in embryonic development and organogenesis. A couple of metabolic or host-entry terms seem peripheral to the main theme, but the primary signal points to developmental differentiation and organ formation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":2},{"id":"GO:0006004","count":2},{"id":"GO:2000535","count":2},{"id":"GO:0016139","count":2},{"id":"GO:0030324","count":2}]},{"hash":"569127788270270404","title":"Vascular Signaling and Lipid Mediator Regulation","description":"The top GO terms point to signaling networks that influence vascular function and inflammatory mediators: angiogenesis in wound healing; regulation of systemic arterial blood pressure and blood vessel diameter; prostaglandin catabolic processes; and regulation of endocannabinoid signaling. These collectively suggest a cluster of proteins involved in controlling vascular tone and inflammatory lipid mediators. Some terms like regulation of thyroid hormone receptor signaling and proteolysis indicate broader metabolic or remodeling roles that can intersect with vascular and inflammatory pathways, but the dominant theme appears to be vascular signaling and lipid mediator regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002155","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0060055","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0042619","count":1}]},{"hash":"729775273500708109","title":"Actin cytoskeleton remodeling and migration","description":"The cluster is dominated by GO terms related to actin cytoskeleton dynamics, including actin filament bundle assembly and stress fiber assembly, and cell migration, with supporting signals from negative regulation of Rho signaling. While a few terms are unrelated (chromatin and hematopoiesis), the core theme centers on actin-based organization and motility, justifying a label focused on cytoskeleton remodeling and migration.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0035024","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0007205","count":2}]},{"hash":"382762871283335098","title":"Retinoid and prostaglandin lipid metabolism","description":"This cluster is dominated by retinol and retinoic acid metabolic processes, along with prostaglandin metabolic process, pointing to retinoid and lipid signaling pathways as the core theme. Additional terms like response to lipopolysaccharide and respiratory system process suggest broader inflammatory and physiological contexts, but the strongest signal centers on retinoid and prostaglandin lipid metabolism.","confidence":"Medium","size":9,"edges":17,"triangles":8,"max_degree":5,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0042572","count":6},{"id":"GO:0003016","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0042619","count":4}]},{"hash":"1759107975328240284","title":"Unknown","description":"The top GO terms are highly diverse, spanning xenobiotic response, cholesterol and fatty acid metabolism, sporulation, various adhesion-related processes, learning, glucocorticoid response, raffinose biosynthesis, and neurotransmitter biosynthesis. This lack of a single cohesive function or pathway suggests there isn't a common biological theme tying these proteins together. Therefore, Unknown with None confidence is the most appropriate label.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042493","count":4},{"id":"GO:0006695","count":4},{"id":"GO:0030435","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0033632","count":3}]},{"hash":"1885816032208290961","title":"Excitatory synapse assembly and neuronal adhesion","description":"The strongest signals are neuron cell\u2013cell adhesion and excitatory synapse activity (glutamatergic transmission and PSD-95 clustering), pointing to an excitatory synapse/adhesion theme. Ubiquitination and mRNA processing support neuronal protein turnover, but DNA repair and immune terms are less connected, so the label captures the main neural function with moderate confidence.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007158","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0051103","count":2},{"id":"GO:0006303","count":2}]},{"hash":"2073053731722377411","title":"Unknown","description":"The top GO terms are highly diverse, spanning transcriptional regulation, epigenetic marks (obsolete histone modifications), multiple development processes (placenta morphogenesis, animal organ development, anther tapetum morphogenesis), plus chemokine production and apoptotic signaling. There isn't a single coherent function or pathway tying these together, so a specific, meaningful label cannot be assigned. ","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0090180","count":2},{"id":"GO:2001040","count":2},{"id":"GO:0097190","count":2},{"id":"GO:0032602","count":2}]},{"hash":"1185221173771124090","title":"Terpenoid and prenyl biosynthesis","description":"This cluster is best described by terpenoid/isoprenoid biosynthesis terms, with multiple GO entries for geranyl diphosphate, farnesyl diphosphate, geranylgeranyl diphosphate, and monoterpene biosynthesis, plus quinone biosynthesis. While there are some related terms like lipopolysaccharide biosynthesis and cell wall organization, the strongest signals point to isoprenoid/terpenoid pathway assembly and prenyl chain formation. ","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0033384","count":2}]},{"hash":"384799556161463711","title":"Diverse Transmembrane Transporters","description":"The top GO terms indicate transport of a wide variety of substrates (nitrite, nitrate, galactose, vitamins, sialic acid, phosphate, potassium, xenobiotics), suggesting a cluster of membrane transporter proteins with broad substrate specificity rather than a single substrate. ","confidence":"High","size":9,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0071805","count":1}]},{"hash":"394587600455082369","title":"Organogenesis and tissue development","description":"The cluster is dominated by development-related terms (CNS development, glomerular basement membrane development, glomerular filtration, chondrocyte development, colon epithelial cell migration, and regulation of FGF signaling and prostatic bud formation), suggesting a cohesive theme of organogenesis and tissue development, despite a couple of metabolism/bacterial terms that are less connected to this theme.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":2},{"id":"GO:0040037","count":2},{"id":"GO:0032836","count":2},{"id":"GO:0003094","count":2},{"id":"GO:0042425","count":2}]},{"hash":"1078904757629519568","title":"Developmental signaling and RNA processing","description":"The cluster shows enrichment in developmental processes (skin development, pigmentation, multicellular organism development) along with cell cycle and kinase signaling (positive regulation of autophosphorylation, serine/threonine kinase activity, and GTPase activity). The presence of RNA processing terms (mRNA transport and mRNA splicing) suggests coordinated regulation of gene expression during development. Overall, these proteins likely participate in developmental signaling with regulation of RNA processing rather than a single narrow function.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031954","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0043473","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0071902","count":3}]},{"hash":"1876925338537215645","title":"Mitotic spindle and cell division","description":"The top GO terms cluster around mitosis and cell division (cell cycle, spindle microtubule-kinetochore regulation, and microtubule dynamics), with several cytoskeletal-related terms (stress fiber assembly) supporting a theme of chromosome segregation and spindle function. A few unrelated development or neural terms may be incidental annotations, but the dominant signal is mitotic machinery and spindle dynamics.","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0060661","count":2},{"id":"GO:0099139","count":2}]},{"hash":"635859017045046487","title":"Golgi-to-plasma membrane vesicle trafficking","description":"This cluster is dominated by GO terms related to endocytic recycling and Golgi-to-plasma membrane transport, plus a term about presynaptic active zone maintenance, all pointing to roles in vesicle trafficking and membrane recycling. Some other terms appear peripheral or noisy (e.g., development of spermatids or salivary glands), but the core signal supports a vesicle trafficking/synaptic membrane dynamics theme.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032456","count":3},{"id":"GO:0006893","count":3},{"id":"GO:0007286","count":3},{"id":"GO:0060661","count":2},{"id":"GO:0099139","count":2}]},{"hash":"1602730790591540671","title":"Embryogenesis and cell adhesion","description":"The cluster features strong signals for development-related processes: in utero embryonic development, neuron migration, and both cell-cell and cell-matrix adhesion, suggesting a common role in tissue formation and cell interaction during development. While complement activation terms appear, the dominant pattern points to developmental cell interactions; the immune signals may reflect ancillary roles or context-specific functions in these proteins. ","confidence":"Medium","size":9,"edges":16,"triangles":14,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":3},{"id":"GO:0001764","count":3},{"id":"GO:0034392","count":2},{"id":"GO:0006957","count":2},{"id":"GO:0001701","count":2}]},{"hash":"1943257684852429560","title":"Neuronal Development and Synaptic Exocytosis","description":"The cluster includes GO terms for brain development, neurotransmitter secretion, and regulation of synaptic vesicle exocytosis, indicating a primary association with neural development and synaptic function. Additional terms on cell migration, integrin signaling, cell adhesion, and extracellular matrix remodeling suggest coordination of cell movement and tissue structuring during neural development. The mix of neural-specific processes with adhesion/ECM-related terms points to developing neural tissue and its synaptic machinery.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006929","count":3},{"id":"GO:2000300","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0007229","count":2}]},{"hash":"526263362417958629","title":"Unknown","description":"This cluster contains a highly heterogeneous mix of GO terms, spanning cobalamin biosynthesis, various cell-cycle/mitosis processes (sister chromatid segregation, Okazaki fragment processing, G0\u2192G1 transition), actin cytoskeleton dynamics (barbed-end capping, filament depolymerization), lens fiber differentiation, and even viral mRNA export. The lack of a coherent, single functional theme and the absence of connecting edges support labeling this cluster as Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009236","count":2},{"id":"GO:0070317","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0046784","count":2}]},{"hash":"1245380946550429411","title":"Unknown","description":"The top GO terms are very diverse (development of salivary glands and epidermis, neuronal migration and synaptic maintenance, Ras and androgen signaling, mitochondrial transport, etc.) with each term represented only once and no shared interactions connecting the proteins. This suggests there is no coherent functional theme linking the cluster, so the label Unknown is appropriate.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060661","count":1},{"id":"GO:0010963","count":1},{"id":"GO:0046579","count":1},{"id":"GO:0099139","count":1},{"id":"GO:0030521","count":1}]},{"hash":"2187976765484860565","title":"Nuclear RNA decay and surveillance","description":"Dominant terms point to nuclear RNA turnover: nuclear polyadenylation-dependent mRNA and rRNA catabolic processes, nuclear mRNA surveillance, and miRNA catabolic regulation. A few terms (neural crest differentiation, DNA deamination, general transport) are outliers, but the core theme centers on RNA quality control in the nucleus.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006810","count":1},{"id":"GO:0014033","count":1},{"id":"GO:0045006","count":1},{"id":"GO:0071039","count":1},{"id":"GO:2000627","count":1}]},{"hash":"2146397812809833652","title":"Developmental differentiation and transcriptional regulation","description":"The top GO terms cluster around transcriptional control (negative regulation of transcription by RNA Pol II, DNA-templated transcription) alongside a variety of differentiation and morphogenesis processes (skeletal muscle differentiation, placental development, left/right patterning, cartilage morphogenesis, EMT in development). This suggests a set of proteins involved in regulating gene expression during development and guiding lineage- or tissue-specific differentiation, hence the chosen name.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0035914","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0010452","count":2},{"id":"GO:0060806","count":2}]},{"hash":"605770449213977227","title":"Ribosome and Mitochondrial Translation Machinery","description":"The cluster is dominated by translation-related GO terms, including general translation, ribosome disassembly, mitochondrial translation and elongation, and selenocysteine incorporation, indicating a cohesive group of proteins involved in the protein synthesis apparatus across cytosolic and mitochondrial compartments. Some peripheral terms (spliceosome-related, differentiation, antibiotic response) are present but less central, likely reflecting multifunctionality rather than the core function of this group.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032790","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0035914","count":1},{"id":"GO:0014009","count":1}]},{"hash":"604435409070630029","title":"Cartilage Formation and ECM Biosynthesis","description":"The cluster shows cartilage-related terms (chondrocyte differentiation, cartilage condensation) and extracellular matrix biosynthesis (heparan sulfate proteoglycan biosynthetic process) along with sulfation (peptidyl-tyrosine sulfation), suggesting a shared role in cartilage tissue formation and ECM assembly. While additional terms (innate immune response, xenobiotic metabolism) are present, they appear less central to the core cartilage/ECM theme.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006478","count":3},{"id":"GO:0060716","count":3},{"id":"GO:0002062","count":3},{"id":"GO:0001502","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1627201219421853902","title":"Unknown","description":"The set of GO terms spans diverse processes, including transcription, mRNA splicing/decay, nuclear envelope organization, CAAX-box protein processing, prenylated-protein catabolism, mitochondrial fusion regulation, and apoptosis. There is no clear, cohesive theme tying all proteins to a single function, and several terms are obsolete, making a reliable, specific label unsupported.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030327","count":1},{"id":"GO:0061077","count":1},{"id":"GO:0071432","count":1},{"id":"GO:0071586","count":1},{"id":"GO:0010637","count":1}]},{"hash":"1267090308150043963","title":"Regulators of Canonical Signaling and Inflammation","description":"This cluster is driven by terms that describe positive or regulatory roles in signaling pathways such as Wnt, ERK, and NF-kappaB, along with regulation of Toll-like receptor signaling and inflammatory responses. The presence of ubiquitination and GTPase activity regulation supports a theme of signaling modulation and protein turnover. Although a couple of terms relate to cell cycle or placental development, the prevailing pattern points to regulators of signaling and immune/inflammatory pathways.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0000209","count":1}]},{"hash":"2038291652061201689","title":"Rho-mediated synaptic signaling and spine morphogenesis","description":"These proteins cluster around neuronal synapse biology, highlighted by Rho protein signal transduction and its regulation, synapse organization, and dendritic spine morphogenesis, all tied to excitatory synaptic transmission (EPSP). Additional terms suggest roles in JNK signaling and Golgi trafficking, supporting a theme of coordinated synaptic development and signaling in neurons. ","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007266","count":3},{"id":"GO:0050808","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0035176","count":2},{"id":"GO:0006470","count":2}]},{"hash":"1838842938311409740","title":"Neuronal axon guidance and junction formation","description":"The proteins show strong representation of neural development processes: commissural neuron axon guidance, sympathetic ganglion development, and paranodal/smooth septate junction assembly, alongside associations with cell motility and integrin signaling. This pattern points to roles in neural pathfinding and cell\u2013cell/adhesion junction formation, with Hedgehog (Smoothened) pathway regulation also contributing to developmental signaling.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071679","count":2},{"id":"GO:0045880","count":2},{"id":"GO:0061549","count":2},{"id":"GO:2000145","count":1},{"id":"GO:1900746","count":1}]},{"hash":"1484224661090872108","title":"Cardiovascular NO signaling and immune regulation","description":"This cluster centers on nitric oxide production and guanylate cyclase\u2013mediated signaling, which influence heart contraction and calcium handling in cardiac muscle. It also includes terms tied to immune regulation (IL-10 production, transcription regulation) and other general regulatory processes, suggesting a broad theme of signaling and gene expression control across cardiovascular and immune contexts, with some developmental signals (lung differentiation) present as peripheral connections.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071372","count":2},{"id":"GO:0045429","count":2},{"id":"GO:0098735","count":2},{"id":"GO:0031284","count":2},{"id":"GO:0010881","count":2}]},{"hash":"1436661338678076697","title":"Neural and glial differentiation with circadian cues","description":"The top GO terms cluster around neural development and differentiation (neurogenesis, astrocyte differentiation, melanocyte differentiation as a neural crest derivative) and synapse maturation, with circadian clock entrainment as a connected theme. While there are some peripheral terms (smooth muscle development, sex determination, late viral transcription), the dominant signal is neural lineage specification and maturation, modulated by circadian processes. Therefore this label succinctly captures the cluster\u2019s core function.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0022008","count":4},{"id":"GO:2000820","count":4},{"id":"GO:0019086","count":4},{"id":"GO:0009649","count":4},{"id":"GO:0060948","count":4}]},{"hash":"79207127960819697","title":"Macrophage differentiation and mesodermal development","description":"The top GO terms point to macrophage differentiation and cellular responses related to GM-CSF, alongside several differentiation and development terms tied to mesodermal lineages (angioblast, BMP-related fate), early development (blastocyst), and various tissue differentiations. This pattern suggests a cluster enriched for differentiation processes, especially immune/macrophage lineage and mesodermal development, with epigenetic regulation indicating gene expression changes during differentiation. ","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0097011","count":5},{"id":"GO:0044027","count":5},{"id":"GO:0030225","count":4},{"id":"GO:0035779","count":3},{"id":"GO:0001824","count":3}]},{"hash":"1858537539357305151","title":"Multitissue developmental morphogenesis and signaling","description":"The top GO terms indicate involvement in neural development (neurogenesis, axonogenesis, dendritic spine morphogenesis), organ morphogenesis (nephric duct morphogenesis), muscle assembly, immune differentiation, and broad signaling processes (PI3K/AKT, tyrosine autophosphorylation) as well as apoptosis. This pattern points to a broad, cross-tissue developmental and signaling role rather than a single, cohesive pathway, so the label emphasizes diverse development and signaling functions.","confidence":"Medium","size":8,"edges":22,"triangles":28,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":4},{"id":"GO:0021952","count":4},{"id":"GO:0072178","count":4},{"id":"GO:0071688","count":4},{"id":"GO:0001779","count":4}]},{"hash":"379876450085357436","title":"Embryonic development and organogenesis","description":"The top GO terms point to development across multiple embryonic tissues (pituitary, blood vessels, forebrain, neural crest, eye, limbs) and pattern specification, suggesting a cohesive role in early organ formation and body plan patterning. A couple of catabolic terms are less central but do not override the central developmental theme.","confidence":"High","size":8,"edges":14,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":6},{"id":"GO:0001568","count":5},{"id":"GO:0060166","count":5},{"id":"GO:0035115","count":5},{"id":"GO:0009447","count":5}]},{"hash":"931402303302889815","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":20,"triangles":24,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000466","count":8},{"id":"GO:0000398","count":8},{"id":"GO:0042273","count":8},{"id":"GO:0000462","count":8},{"id":"GO:0000472","count":8}]},{"hash":"1464319141015634859","title":"Glycan biosynthesis and cell-surface ECM","description":"The top GO terms cluster around glycosylation and polysaccharide biosynthesis (arabinogalactan protein metabolism, poly-N-acetyllactosamine, Lewis a epitope) and mucilage/seed coat-related biosynthesis, which points to extracellular carbohydrate-rich components. Additional terms relate to cell-surface/epithelial polarity and adhesion (follicle epithelium polarity maintenance, follicle cell adhesion, root hair development), suggesting a broader theme of glycan-based cell-surface matrices and their role in development across species. Hence, a label focused on glycan biosynthesis and extracellular matrix assembly captures the common thread. ","confidence":"Medium","size":8,"edges":23,"triangles":33,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":5},{"id":"GO:0010493","count":3},{"id":"GO:0048354","count":3},{"id":"GO:0001744","count":3},{"id":"GO:0042248","count":3}]},{"hash":"1845410673148718915","title":"Synaptic signaling and dendrite development","description":"Top GO terms indicate neuronal synapse function (excitatory postsynaptic potential; regulation of long-term synaptic plasticity) and structural dendrite morphogenesis, pointing to synaptic signaling and neuronal growth. Supporting terms involve cell adhesion and glial differentiation, which can accompany neural development and synapse formation, while some terms may reflect broader adhesion biology. Overall, the cluster centers on neural communication and dendritic architecture, justifying the name.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":4},{"id":"GO:0048169","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0038027","count":3},{"id":"GO:0035099","count":3}]},{"hash":"1474748616128822989","title":"RNA processing and translational regulation","description":"The proteins cluster around RNA processing and post-transcriptional control of gene expression, including spliceosome-mediated splicing and its regulation, translation initiation (including IRES-dependent initiation), and ncRNA/miRNA\u2013mediated silencing. This cohesive set of GO terms suggests a shared function in RNA processing and translation regulation, despite a few obsolete terms.","confidence":"Medium","size":8,"edges":24,"triangles":34,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1905663","count":2},{"id":"GO:0001731","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0075522","count":2}]},{"hash":"1500108900253808912","title":"Lectin-mediated innate immunity and leukocyte activation","description":"The GO terms cluster around lectin-mediated immune activities: leukocyte tethering/rolling, stimulatory C-type lectin receptor signaling, basophil activation, and complement activation via the lectin pathway, indicating a theme of innate immune recognition and leukocyte activation. A couple of kidney development terms appear unrelated and may be annotation noise, but the dominant signal is lectin- and receptor-mediated immune response.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":5},{"id":"GO:0071226","count":5},{"id":"GO:0002223","count":5},{"id":"GO:0072287","count":5},{"id":"GO:0090238","count":5}]},{"hash":"1584919461437273092","title":"Potassium Channel Regulation and Membrane Potential","description":"The cluster is dominated by GO terms linked to membrane hyperpolarization, potassium ion transport, and regulation of delayed rectifier potassium channels, plus cardiac muscle action potential. These points converge on a core function in regulating membrane excitability via potassium channels, including cardiac electrical activity. A few terms related to temperature response and autophagy are present but less central to the main theme.","confidence":"High","size":8,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060081","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0002024","count":3},{"id":"GO:0071502","count":3},{"id":"GO:0019233","count":3}]},{"hash":"1267572129255459571","title":"Developmental signaling and cytoskeletal regulation","description":"The cluster features GO terms spanning broad developmental processes (heart, nervous system, cerebellar cortex, skeletal system) alongside signaling and cytoskeletal regulation (Rho GTPase signaling, ERK cascade) and processes tied to exocytosis and cell movement (macrophage chemotaxis). This suggests proteins that coordinate development with intracellular signaling and cytoskeletal dynamics, rather than a single tissue-specific function. Confidence: Medium","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0021695","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0045956","count":3}]},{"hash":"1978419495849586171","title":"Alzheimer's-related protein processing and trafficking","description":"The GO terms show a theme of neuronal protein handling across secretory and endolysosomal pathways, including negative regulation of amyloid-beta formation, negative regulation of neurofibrillary tangle assembly, and endosome-to-lysosome transport, plus ER exit regulation. This combination points to a cohesive cluster centered on neuronal protein processing and trafficking with relevance to Alzheimer's disease pathology.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902430","count":1},{"id":"GO:0051005","count":1},{"id":"GO:0070863","count":1},{"id":"GO:0032460","count":1},{"id":"GO:1900452","count":1}]},{"hash":"1377381739752815689","title":"Translation initiation and ribosome biogenesis","description":"The top GO terms center on initiating protein synthesis (formation of the translation preinitiation complex, IRES-dependent initiation, translation reinitiation, and regulation of translational initiation) and ribosome assembly/RNA processing (ribosomal large subunit biogenesis and maturation of rRNA). A secondary thread involves regulatory ncRNA\u2013mediated gene silencing, suggesting RNA-level control. Together, these terms point to a cohesive theme of translation initiation control coupled with ribosome biogenesis, with some viral translation context.","confidence":"Medium","size":8,"edges":5,"triangles":2,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0075522","count":4},{"id":"GO:0031047","count":4},{"id":"GO:0075525","count":4},{"id":"GO:0048026","count":4}]},{"hash":"2181776700001491004","title":"GPCR Signaling in Heart and Retina","description":"The terms point to GPCR-driven signaling: opsin-mediated signaling and visual perception reflect retinal GPCR activity, while activation of adenylate cyclase and regulation of calcium release indicate cAMP and Ca2+ signaling. The presence of cardiac development and regulation of cardiac contraction suggests these GPCR/cAMP/Ca2+ pathways also govern heart function. Together, these terms imply a cluster of proteins involved in GPCR-mediated signaling affecting both cardiac and visual systems.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0022400","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0043950","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0008284","count":3}]},{"hash":"1666815830547328744","title":"Diverse Substrate Transmembrane Transport","description":"The cluster predominantly features GO terms for transmembrane transport of diverse solutes (D-xylose, dehydroascorbic acid, potassium ions, nitrate, sialic acid, trehalose, etc.), suggesting these proteins function as membrane transporters with broad substrate specificity rather than a single substrate or metabolic pathway. An outlier term related to aging does not alter the overall transport-focused theme.","confidence":"High","size":8,"edges":25,"triangles":40,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0015753","count":1},{"id":"GO:0070837","count":1},{"id":"GO:0071805","count":1},{"id":"GO:0071332","count":1},{"id":"GO:0015706","count":1}]},{"hash":"1861462737509096060","title":"Redox Homeostasis and Oxidative Detoxification","description":"The top GO terms are dominated by redox-related processes: cellular oxidant detoxification, cell redox homeostasis, and oxidation-reduction processes, with methylamine metabolism likely connected to redox chemistry. Some terms (erythrocyte homeostasis, peptidyl-cysteine oxidation) support a redox theme, while a few others (NK cell\u2013mediated cytotoxicity, spermatogenesis) are less directly tied and may reflect annotation noise or multifunctional proteins. Overall, redox maintenance and detoxification best unify the cluster.","confidence":"Medium","size":8,"edges":12,"triangles":9,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030416","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0045454","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0034101","count":2}]},{"hash":"910427752689483999","title":"GTPase- and cAMP-signaling regulation","description":"The cluster centers on regulation of intracellular signaling, including small GTPase-mediated pathways (GO:0007264) and modulation of Ras signaling (GO:0046580), along with GO terms tied to cAMP signaling (positive regulation of adenylate cyclase, GO:0045762; negative regulation of cAMP-dependent protein kinase activity, GO:2000480) and related pathways. While a couple of terms are broader or pleiotropic (learning, cardiac muscle proliferation), the dominant theme is modulation of signal transduction through Ras/MAPK and cAMP cascades, justifying a label focused on signaling regulation. ","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046827","count":1},{"id":"GO:0071805","count":1},{"id":"GO:0007264","count":1},{"id":"GO:0010754","count":1},{"id":"GO:0046580","count":1}]},{"hash":"581273918757193123","title":"Growth Factor Signaling and Immune Pathways","description":"This cluster features GO terms tied to growth regulation (regulation of extent of cell growth), growth factor responses (cellular response to PDGF), signaling pathways (Rho signaling, Fc receptor signaling, peptidyl-tyrosine autophosphorylation), and immune-related differentiation (gamma-delta T cell differentiation), plus development and cell-cycle related terms (forebrain development, centriole replication). The common thread appears to be signaling networks that coordinate growth, development, and immune responses, with links to cytoskeletal and cell-cycle processes, supporting a cohesive label around growth-factor\u2013 and immune signaling.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0061387","count":5},{"id":"GO:0007266","count":5},{"id":"GO:0060968","count":5},{"id":"GO:0007099","count":5},{"id":"GO:0045425","count":5}]},{"hash":"1644369365657362826","title":"Developmental Differentiation Across Tissues","description":"The top GO terms center on various developmental and differentiation processes across multiple tissues (brain/midbrain, gonad, bone, muscle) and growth, suggesting a general role in development rather than a single pathway. Some outliers (defense response, chromatin assembly) exist, but the dominant signal is broad developmental differentiation.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035264","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0042692","count":2},{"id":"GO:0061641","count":2}]},{"hash":"1193505468141496757","title":"Metabolic Regulation and Acetyl-CoA Pathways","description":"The terms point to nutrient sensing and energy metabolism, including responses to insulin, nutrients, amino acids, and cAMP, plus core flux through pyruvate and acetyl-CoA (pyruvate biosynthesis and its conversion to acetyl-CoA, glyoxylate cycle). This suggests a cohesive theme around metabolic regulation with acetyl-CoA as a central hub. The antibiotic biosynthetic term hints at secondary metabolism linked to nutrient conditions but does not override the central metabolic theme.","confidence":"Medium","size":8,"edges":11,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0051591","count":2},{"id":"GO:0007584","count":2},{"id":"GO:0042866","count":2}]},{"hash":"840728904773395375","title":"Ubiquitin-dependent protein turnover and signaling","description":"This cluster is driven by ubiquitin-related GO terms: ubiquitin-dependent protein catabolic process, K63- and K11-linked ubiquitination, and autoubiquitination. Additional terms on JNK cascade regulation, NF-kappaB signaling, apoptosis, development, and proliferation align with ubiquitin-mediated regulation of signaling and cell fate, suggesting the core function is ubiquitin-dependent protein turnover and signaling.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0001701","count":2}]},{"hash":"1826850796378512964","title":"Ubiquitin-Dependent Signaling and Proteasomal Regulation","description":"Top GO terms center on ubiquitination (K63-linked ubiquitination, autoubiquitination) and ubiquitin-dependent protein catabolic processes, aligning with proteasomal degradation, while also encompassing several signaling pathways (JNK, Wnt, integrin, TCR) and apoptosis. This pattern suggests proteins that regulate protein turnover and signaling through ubiquitin tagging, rather than a single pathway, justifying a label focused on ubiquitin-mediated regulation.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046328","count":4},{"id":"GO:0070534","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0046676","count":3}]},{"hash":"28676874965268348","title":"Neurodevelopment and Synaptic Signaling","description":"This cluster is dominated by nervous system development, brain/inner ear development, locomotory behavior, and synaptic-related terms (glutamatergic transmission and PSD95 clustering), suggesting proteins involved in neural development and synaptic organization. The vascular and nephron-related terms are less central to the cluster\u2019s core theme.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0048839","count":6},{"id":"GO:1902897","count":4},{"id":"GO:1902355","count":4}]},{"hash":"1752307920776001860","title":"Unknown","description":"The top GO terms span immune signaling (NF-kappaB activation, IL-6 response, inflammatory regulation) and development (lung, cartilage) but also include chitin-based cuticle processes and ecdysis, plus a carbazole catabolic process. The functions are too diverse to unify under a single clear theme, so there isn\u2019t a cohesive label beyond Unknown. ","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007250","count":3},{"id":"GO:0046232","count":2},{"id":"GO:0002677","count":2},{"id":"GO:0033280","count":2},{"id":"GO:0040003","count":2}]},{"hash":"483666503874524203","title":"Developmental cell adhesion and migration","description":"The terms cluster around cell adhesion (cell-matrix and heterotypic adhesion), cell movement (substrate-dependent migration, extravasation), and development-related differentiation (endodermal differentiation, chondrocyte morphogenesis) with ECM remodeling (metallopeptidase activity). While a couple of terms are broader, the dominant theme is cells adhering and migrating during development and tissue remodeling.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":2},{"id":"GO:0006929","count":2},{"id":"GO:0007161","count":2},{"id":"GO:0045123","count":2},{"id":"GO:0006956","count":2}]},{"hash":"1302913944083249768","title":"Innate immune response and inflammation","description":"Top GO terms center on innate immunity, neutrophil migration, inflammatory response, and defense against bacteria, suggesting the proteins form an innate immune/inflammatory module. Additional terms reflect related stress responses (mucus secretion, hydrogen peroxide biosynthesis, gamma radiation response), but the core theme remains immune activation and inflammation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":1},{"id":"GO:0070257","count":1},{"id":"GO:0071333","count":1},{"id":"GO:1904044","count":1},{"id":"GO:0032760","count":1}]},{"hash":"1305088041693278546","title":"Cell shape and cell wall biosynthesis","description":"The cluster\u2019s terms cluster around cell morphology and envelope-related biosynthesis: cell morphogenesis and regulation of cell shape, plus biosynthetic processes for components like lipid A and dTDP-rhamnose, as well as DAP-related lysine/murein pathways typical of bacterial cell walls. An outlier term for neuron projection development appears, likely due to cross-species annotation noise, but the dominant signal points to cell shape and envelope construction. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0045226","count":1},{"id":"GO:0009089","count":1},{"id":"GO:0006535","count":1}]},{"hash":"1593794185867807877","title":"Axon Guidance and Neural Crest Migration","description":"Most terms converge on neural development and axon guidance, including CNS development, semaphorin-plexin signaling in axon guidance, and neural crest cell migration, as well as protein localization to axon regions (paranode/juxtaparanode). Immune-related terms appear but seem secondary noise; the core theme is neural development and axon targeting, justifying a concise label focused on axon guidance and neural crest migration.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":3},{"id":"GO:1902287","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0036486","count":2},{"id":"GO:0038093","count":2}]},{"hash":"801645883088083279","title":"Stress-Activated Signaling and Cytoskeleton Remodeling","description":"Top terms point to stress-responsive signaling (JNK cascade), apoptosis, and cytoskeletal dynamics (Rho signaling, actin organization), with related neuronal and ubiquitin-related processes; together they suggest a cohesive theme of signaling that modulates cytoskeleton and cell fate under stress, despite some outliers.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0010976","count":4},{"id":"GO:0046328","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0006348","count":4}]},{"hash":"248332343381586247","title":"Developmental patterning and organogenesis","description":"The top GO terms span broad developmental processes across multiple tissues (pituitary gland development, forebrain and cortex development, liver development, organ induction, anterior/posterior pattern specification, neuromuscular and digestive tract morphogenesis). There is no single specific function tying all proteins together, suggesting the cluster reflects a general developmental theme rather than a defined molecular pathway. The label captures this overarching patterning/organ formation concept while remaining concise.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":1},{"id":"GO:2000288","count":1},{"id":"GO:0050905","count":1},{"id":"GO:0021796","count":1},{"id":"GO:0009952","count":1}]},{"hash":"2048712408134505553","title":"Neuronal development and axon morphogenesis","description":"Most terms point to neural development and neuronal morphology (neurogenesis, CNS projection neuron axonogenesis, dendritic spine morphogenesis, paranode axon localization), indicating a shared role in neural growth and axon/dendrite formation. A few terms describe unrelated processes (nephric duct morphogenesis, muscle myosin filament assembly, NK cell differentiation) or general signaling, suggesting broader annotations, but the dominant signal supports a neuronal development theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002175","count":2},{"id":"GO:0022008","count":1},{"id":"GO:0021952","count":1},{"id":"GO:0072178","count":1},{"id":"GO:0071688","count":1}]},{"hash":"752230809284339152","title":"Developmental morphogenesis and cell migration","description":"This set is enriched for terms related to tissue development and cell movement, including endothelial sprouting angiogenesis, endothelial tube formation, epidermis morphogenesis, and interneuron precursor migration. While there are a few signaling or organ-specific terms, the common thread appears to be developmental morphogenesis coupled with cell migration. This label captures that overarching theme without overfitting to a single pathway.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090051","count":2},{"id":"GO:0097498","count":2},{"id":"GO:0060661","count":1},{"id":"GO:0010963","count":1},{"id":"GO:0046579","count":1}]},{"hash":"910915063074247587","title":"Unknown","description":"The top GO terms are scattered across diverse developmental and cellular processes (hair follicle placode and salivary gland formation, neuronal precursor migration, presynaptic zone maintenance, stress fiber and spindle-kinetochore regulation, phagosome acidification) with several obsolete terms, and there are no edges connecting the proteins. This lack of a cohesive, common function or interaction pattern suggests no single shared function characterizes the cluster, so it\u2019s best labeled Unknown. ","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060789","count":4},{"id":"GO:0071701","count":4},{"id":"GO:0060661","count":3},{"id":"GO:0099139","count":3},{"id":"GO:1903215","count":3}]},{"hash":"1466507337903437473","title":"Retroviral entry, integration, and latency","description":"The top GO terms point to steps in the retroviral life cycle: entry into the host cell and nucleus, reverse transcription (RNA-templated DNA synthesis), and genome integration with establishment of proviral latency. Additional terms involving DNA recombination and replication support genome integration events. Together these indicate a cohesive theme of retroviral infection and dormancy.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0043124","count":2},{"id":"GO:1903704","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2}]},{"hash":"1047378041389166927","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0009432","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000462","count":2}]},{"hash":"432842377211183753","title":"Autophagy and membrane trafficking","description":"The top GO terms cluster around autophagic processes (autophagosome assembly, nucleophagy/microautophagy of the nucleus, ER-stress\u2013driven autophagy regulation) and membrane targeting, suggesting a cohesive function in cellular quality control via autophagy and membrane dynamics, with a few developmental/behavioral terms as peripheral annotations.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007416","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0050765","count":1},{"id":"GO:0000045","count":1}]},{"hash":"904911133534692910","title":"Steroid and xenobiotic metabolism","description":"This cluster\u2019s GO terms are dominated by steroid hormone-related processes (androgen metabolism, aldosterone biosynthesis, cholesterol catabolism) and xenobiotic/catabolic pathways (coumarin, dibenzo-p-dioxin catabolic processes; oxidative deethylation; response to ozone). Together these point to enzymes involved in steroid and xenobiotic metabolism rather than a single signaling or structural function. Some terms are peripheral (prostate growth, tongue muscle differentiation, macrophage chemotaxis regulation) but do not overturn the core metabolic theme. Confidence: Medium","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010760","count":3},{"id":"GO:0008209","count":3},{"id":"GO:2001037","count":3},{"id":"GO:0010193","count":3},{"id":"GO:0046226","count":3}]},{"hash":"1716740881291527626","title":"Neural development and mitotic signaling","description":"The cluster shows strong enrichment for mitotic cell cycle and centriole replication, suggesting involvement in cell division. It also includes forebrain development and visual perception terms, indicating neural development, along with Rho signaling, PDGF response, and tyrosine autophosphorylation terms that reflect active cell signaling and cytoskeletal dynamics. Taken together, these proteins appear linked to neuronal development with associated mitotic and signaling processes.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0007601","count":7},{"id":"GO:0061387","count":6},{"id":"GO:0007266","count":6},{"id":"GO:0060968","count":6}]},{"hash":"1913003707644404050","title":"NF-kappaB/NFAT Signaling and Cell Cycle Regulation","description":"The top GO terms show strong links to immune receptor signaling (Fc-epsilon receptor), canonical NF-kappaB signaling, and regulation of calcineurin-NFAT signaling, plus mitotic cell-cycle steps (G2/M) and phosphorylation regulation. This points to a functional module where extracellular receptor signals drive transcriptional/cofactor regulation and cell-cycle progression. Additional terms spanning phototransduction, astrocyte activation, and cardiac conduction suggest broader signaling roles across tissues, but the core theme is signaling regulation connected to transcriptional and mitotic control.","confidence":"Medium","size":8,"edges":10,"triangles":3,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038095","count":6},{"id":"GO:0000278","count":6},{"id":"GO:0043123","count":6},{"id":"GO:0000086","count":6},{"id":"GO:0051531","count":5}]},{"hash":"225747125669257089","title":"Circadian Light Sensing and Magnetoreception","description":"The cluster's GO terms center on circadian regulation (gene expression, sleep/wake cycle) and light-responsive processes (blue light response, photoreactive repair, photoperiodism), plus magnetoreception. This indicates proteins involved in sensing and transmitting light-driven circadian signals, potentially including cryptochrome-like photoreceptors linked to magnetic field detection.","confidence":"High","size":8,"edges":8,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2000001","count":2},{"id":"GO:0033762","count":2},{"id":"GO:1902347","count":2},{"id":"GO:0010617","count":2},{"id":"GO:0000719","count":2}]},{"hash":"1266120430271224624","title":"Vesicle trafficking and mitochondrial dynamics","description":"This cluster centers on membrane trafficking and organelle remodeling, with GO terms for endocytosis (clathrin-dependent endocytosis, GPCR internalization, synaptic vesicle recycling) and membrane remodeling, alongside mitochondrial dynamics (mitophagy and mitochondrial membrane fission). While a few terms are less directly connected (e.g., amino acid starvation response, myoblast fusion), the dominant signal ties vesicle trafficking to mitochondrial remodeling processes. ","confidence":"Medium","size":8,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0072583","count":1},{"id":"GO:1903833","count":1},{"id":"GO:0003374","count":1},{"id":"GO:1901741","count":1}]},{"hash":"5368169899612002","title":"Inflammation and stress-response regulation","description":"The cluster is dominated by terms related to immune/stress signaling (cellular response to lipopolysaccharide; response to toxic substance) and several negative regulators of inflammatory pathways (TNF signaling, ERK cascade, MCP-1 production, neutrophil aggregation), plus terms for regeneration and DNA repair. This suggests a cohesive theme of modulating inflammatory responses and general cellular stress, rather than a single, narrow function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0031100","count":3},{"id":"GO:0010804","count":2},{"id":"GO:0043200","count":2}]},{"hash":"1761220170298658330","title":"Unknown","description":"The top GO terms are heterogeneous: axis/dorsal-ventral patterning terms co-occur with transport, integrin activation, cholesterol and sugar transport, and immune regulation. There is no single cohesive biological function uniting these proteins, so a specific label cannot be confidently assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002642","count":1},{"id":"GO:0030917","count":1},{"id":"GO:0032367","count":1},{"id":"GO:0009951","count":1},{"id":"GO:0033622","count":1}]},{"hash":"339278966757837991","title":"Neuronal sensory perception and dopaminergic signaling","description":"The cluster is dominated by GO terms related to sensory perception (pain, vision, visual learning) and dopaminergic synaptic transmission, plus cocaine-related behavioral responses and ERK cascade regulation, all pointing to neuronal signaling and sensory information processing, especially involving visual and reward pathways. Immune/inflammatory terms are present but less central, suggesting a primary neural function with ancillary roles.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":5},{"id":"GO:0010759","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0007507","count":4}]},{"hash":"1878550747520421176","title":"Ribosome biogenesis and translation","description":"The top GO terms center on ribosome-related processes: ribosome biogenesis, translation, nucleolus organization, and ribosomal small subunit assembly, pointing to ribosome production and protein synthesis as the main theme. A few unrelated terms (Notch signaling, monocyte chemotaxis, ER-to-Golgi transport, DNA replication) are present but do not redefine the cluster. Therefore, the label captures the core function.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0007219","count":1}]},{"hash":"756817317926078482","title":"Fatty acid and sphingolipid biosynthesis","description":"The top GO terms show a clear enrichment for lipid biosynthesis pathways: unsaturated and very long-chain fatty acid biosynthesis, long-chain fatty-acyl-CoA biosynthesis, and sphingolipid biosynthetic processes. While there are a few non-lipid terms (translation, courtship behavior, pheromone metabolism, swim bladder development) present at low counts, the lipid-related terms dominate, suggesting the proteins cluster around lipid biosynthesis. Confidence: High","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0019367","count":1},{"id":"GO:0042761","count":1},{"id":"GO:0006636","count":1},{"id":"GO:0006892","count":1}]},{"hash":"65406869019145570","title":"Redox-regulated calcium signaling in muscle","description":"The cluster features redox-related processes (glutathionylation, cellular oxidant detoxification, ascorbate metabolism) alongside calcium handling and muscle contraction terms (ryanodine-sensitive calcium-release channel activity and regulation of skeletal muscle contraction via calcium release). This points to a shared theme where redox modifications influence calcium signaling and, consequently, muscle contraction. Additional terms on prostaglandin biosynthesis and toxin/arsenic responses fit broader inflammatory/detox contexts but do not outweigh the core muscle-calcium-redox link.","confidence":"Medium","size":8,"edges":21,"triangles":30,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060316","count":5},{"id":"GO:0010731","count":5},{"id":"GO:0098869","count":5},{"id":"GO:0001516","count":5},{"id":"GO:0019852","count":5}]},{"hash":"2110369337468923230","title":"Steroid, lipid, and pigment biosynthesis","description":"This cluster is dominated by GO terms tied to biosynthesis of diverse metabolites, including steroid hormones (androgen, testosterone), lipids (sphingolipids), retinoic acid, and melanin, suggesting a focus on metabolite biosynthesis across lipid, steroid, and pigment pathways. A couple of items (like regulation of transcription) are peripheral, but the overall signal is biosynthetic metabolism.","confidence":"High","size":8,"edges":7,"triangles":1,"max_degree":4,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042619","count":8},{"id":"GO:0008209","count":8},{"id":"GO:0002138","count":8},{"id":"GO:0006729","count":8},{"id":"GO:0006355","count":8}]},{"hash":"39520020094759578","title":"Plant cell wall synthesis and plasmodesmata regulation","description":"This cluster is dominated by plant-specific terms: plasmodesma organization and regulation of plant-type cell wall cellulose biosynthetic process, indicating a focus on cell wall construction and intercellular connectivity in plants. Additional terms point to membrane ion transport (calcium and sodium) and general cell communication, suggesting coordination between wall biosynthesis and signaling/transport between cells. A few terms are from non-plant contexts (e.g., synaptic depression, heart contraction), likely noise or misannotations. Overall, the core theme centers on plant cell wall dynamics and plasmodesmatal signaling with ion transport involvement.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009831","count":1},{"id":"GO:0009663","count":1},{"id":"GO:2001009","count":1},{"id":"GO:0048022","count":1},{"id":"GO:1990034","count":1}]},{"hash":"698785791253881203","title":"N-linked glycosylation pathway","description":"Dominant GO terms point to glycosylation: dolichol-linked oligosaccharide biosynthesis and protein N-linked glycosylation. This suggests the proteins cluster around the N-glycosylation pathway in the ER, i.e., assembling dolichol-linked glycans and transferring them to proteins. The remaining terms are sparse and less coherent, so the core theme remains glycosylation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006488","count":2},{"id":"GO:0048366","count":1},{"id":"GO:0060117","count":1},{"id":"GO:0006487","count":1},{"id":"GO:0009089","count":1}]},{"hash":"122886124513451919","title":"Quinone and pigment cofactor biosynthesis","description":"The cluster\u2019s GO terms are dominated by biosynthetic pathways for quinones and related cofactors (vitamin K, plastoquinone, menaquinone, phylloquinone, ubiquinone) and pigments (chlorophyll, heme O), suggesting a shared function in cofactor and pigment biosynthesis. A couple of outlier terms (developmental and cholesterol response) are present but do not override the overall theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042371","count":1},{"id":"GO:0010236","count":1},{"id":"GO:0009234","count":1},{"id":"GO:0048034","count":1},{"id":"GO:0042372","count":1}]},{"hash":"257474518003646365","title":"ER-Golgi vesicle transport and Golgi organization","description":"The terms point to ER-to-Golgi vesicle trafficking, ER membrane fusion/organization, and Golgi organization/regulation, suggesting a cohesive role in ER-Golgi transport and Golgi maintenance; a few unrelated/obsolete terms appear to be noise.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048279","count":1},{"id":"GO:1902117","count":1},{"id":"GO:1903358","count":1},{"id":"GO:0006890","count":1},{"id":"GO:0016320","count":1}]},{"hash":"964194520362958054","title":"Neural and Innate Signaling Regulation","description":"Top GO terms show regulation across neural (dopamine receptor signaling, excitatory postsynaptic potential) and innate immune (TLR1 signaling, detection of bacterial lipopeptide) pathways, plus Rab-mediated signaling and metabolic cascade regulation. The common thread is modulation of diverse signaling pathways rather than a single process, indicating a general regulatory role in signaling across systems.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032483","count":2},{"id":"GO:1903215","count":1},{"id":"GO:0035564","count":1},{"id":"GO:0090394","count":1},{"id":"GO:0034130","count":1}]},{"hash":"555598092409936197","title":"Unknown","description":"The top GO terms are very diverse (apoptotic process, clathrin-dependent endocytosis, protein tetramerization, eye morphogenesis, sensory perception of sound, spindle assembly, responses to amino acid starvation, an obsolete dynamin-related term, myoblast fusion, and Ras signaling regulation), with no clear single function or pathway tying the eight proteins together. The lack of edges and the presence of an obsolete term further suggest no cohesive theme, so an Unknown label with None confidence is appropriate.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0072583","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0048593","count":2},{"id":"GO:0007605","count":2}]},{"hash":"577062865391936670","title":"Synaptic organization and cytoskeleton signaling","description":"Based on the GO terms, the cluster centers on synapse organization and plasticity (e.g., synapse organization, long-term synaptic depression) with links to cytoskeletal dynamics (actin cytoskeleton organization, Rho signaling). The presence of JNK cascade regulation and neurotransmitter pathway modulation (opioid receptor signaling, serotonin uptake) further supports a neuronal communication and structural remodeling theme. Collectively, these terms point to a cohesive function in synaptic organization coupled with cytoskeletal regulation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000009","count":2},{"id":"GO:0050808","count":2},{"id":"GO:0046328","count":2},{"id":"GO:2000474","count":1},{"id":"GO:0051612","count":1}]},{"hash":"2103472058012616087","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":9,"triangles":3,"max_degree":4,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:1901407","count":3},{"id":"GO:0000398","count":2},{"id":"GO:0071031","count":2}]},{"hash":"284281610444636859","title":"Heterochromatin Formation and Dosage Compensation","description":"The top GO terms strongly point to chromatin organization and regulation, notably heterochromatin formation (silent mating-type cassette and pericentric) and sex-chromosome dosage compensation, with an additional historical reference to histone methylation regulation. While there are a few broadly developmental or immune-related terms in the list, the recurrent emphasis on chromatin-related processes suggests this cluster is mostly tied to genome regulation rather than a single developmental pathway. ","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051572","count":3},{"id":"GO:1904693","count":2},{"id":"GO:0045618","count":2},{"id":"GO:0030466","count":2},{"id":"GO:0071674","count":2}]},{"hash":"1185921830715338838","title":"Unknown","description":"The top terms mix chemical stress responses (ethanol, herbicide, aluminum ion) and transcription regulation with scattered developmental/proliferation terms, yielding no single cohesive function that ties all proteins together. Therefore the cluster cannot be confidently labeled with a specific biological theme.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0045471","count":2},{"id":"GO:0009635","count":2},{"id":"GO:0010044","count":2},{"id":"GO:0055114","count":2}]},{"hash":"757076971468536606","title":"Innate Antiviral Immune Response","description":"It centers on defense against viruses, innate immune signaling (TLR pathways), and oxidative stress, with ubiquitination supporting immune regulation, indicating an innate antiviral response role.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0071919","count":2},{"id":"GO:0009736","count":2}]},{"hash":"1880739241216030223","title":"Xenobiotic detox and antibiotic biosynthesis","description":"The most represented term is antibiotic biosynthetic process, with additional GO terms tied to detoxification and xenobiotic processing (response to toxic substances, lipopolysaccharide response) and metabolism of aromatic/plant-derived compounds (biphenyl degradation, flavonoid/anthocyanin biosynthesis). This pattern suggests a cluster centered on chemical processing\u2014both production of bioactive compounds and detox pathways\u2014rather than a single, narrow function.","confidence":"Medium","size":7,"edges":8,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":4},{"id":"GO:0048148","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0031100","count":2}]},{"hash":"961117143603821418","title":"Neurogenesis and neuronal morphogenesis","description":"Based on the enriched terms, the cluster primarily reflects neural development and neuronal wiring, with neurogenesis, CNS projection neuron axonogenesis, and dendritic spine morphogenesis indicating formation of neural circuits. Signaling components such as peptidyl-tyrosine autophosphorylation and the PI3K-Akt pathway support growth factor\u2013mediated neural signaling. Some terms (nephric duct morphogenesis, muscle myosin assembly, NK cell differentiation) may reflect pleiotropic roles in development, but the dominant theme centers on neural development and morphogenesis.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0021952","count":4},{"id":"GO:0072178","count":4},{"id":"GO:0071688","count":4}]},{"hash":"2040079154312373800","title":"Developmental morphogenesis and cytoskeletal dynamics","description":"The cluster features terms tied to development and tissue morphogenesis (ectoderm formation, haltere and seed morphogenesis, oskar mRNA localization) alongside cytoskeletal regulation (actin filament depolymerization) and signaling that modulates cell interactions (integrin-mediated signaling) and post-transcriptional control (miRNA silencing). These together suggest a theme of developmental differentiation accompanied by cytoskeletal remodeling and signaling changes, rather than a single, narrow pathway. Confidence: Medium","confidence":"","size":7,"edges":8,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055011","count":3},{"id":"GO:2000346","count":3},{"id":"GO:2001046","count":3},{"id":"GO:2000637","count":3},{"id":"GO:0030042","count":3}]},{"hash":"92304765830741076","title":"Proteostasis and mitochondrial protein import","description":"The cluster shows several protein quality control and turnover terms\u2014aggresome assembly, protein unfolding, protein processing, and oxidation-dependent protein catabolic process\u2014pointing to proteostasis. The term for inserting proteins into the mitochondrial inner membrane from the matrix reinforces a mitochondrial protein handling theme. Some other terms (blastocyst development, mitotic sister chromatid separation) appear tangential, suggesting broader cellular roles, but the core signal is proteostasis and mitochondrial import.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001824","count":4},{"id":"GO:0051306","count":3},{"id":"GO:1903715","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0043335","count":3}]},{"hash":"595469967485728095","title":"Forebrain and craniofacial development","description":"The top GO terms cluster around embryonic development of forebrain structures (forebrain development, cerebral cortex regionalization, anterior/posterior pattern specification) and craniofacial formation (roof of mouth development, organ induction), with supporting signals for neuromuscular and myoblast processes and broader organ morphogenesis. This pattern suggests proteins involved in orchestrating early brain and facial development during embryogenesis. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0021983","count":1},{"id":"GO:2000288","count":1},{"id":"GO:0050905","count":1},{"id":"GO:0021796","count":1}]},{"hash":"1806703100232492325","title":"Male germline meiosis and spermatogenesis","description":"Based on the top GO terms, the cluster centers on male germline development and meiotic processes: male germ-line cyst formation, meiosis chromosome segregation, and spermatocyte division strongly point to spermatogenesis; additional terms like stem cell population maintenance align with germline stem cell regulation. Some terms such as lung development or response to dexamethasone may reflect broader expression contexts but do not override the dominant germline signal.","confidence":"High","size":7,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0000082","count":2},{"id":"GO:0048136","count":2},{"id":"GO:0007060","count":2},{"id":"GO:0048137","count":2}]},{"hash":"2043831291329060064","title":"TGF-\u03b2/BMP Signaling Regulation","description":"The cluster\u2019s terms cluster around regulation of TGF-\u03b2 and BMP pathways, including negative regulation of BMP signaling, positive regulation of TGF-\u03b2 receptor signaling, cellular response to TGF-\u03b2 stimulus, and SMAD-related regulation, with peptidyl-threonine dephosphorylation suggesting phosphatases modulating these signals. Some terms about NF-kappaB cross-talk and other processes appear, but the dominant theme is modulation of TGF-\u03b2/BMP signaling.","confidence":"Medium","size":7,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000173","count":6},{"id":"GO:0035970","count":6},{"id":"GO:0046827","count":5},{"id":"GO:0010991","count":5},{"id":"GO:0030512","count":5}]},{"hash":"1272932260841638777","title":"Neuronal Synapse Formation and Transmission","description":"Based on the top GO terms, this cluster is enriched for neural synapse biology: heterophilic cell-cell adhesion, synaptic transmission (glutamatergic), synapse assembly, and brain development all point to neuronal connectivity and signaling. Although terms like nephron development and endothelial tube lumen extension appear, the strongest signals center on synapse formation and neural communication, with possible pleiotropic roles in adhesion and development.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0072006","count":2},{"id":"GO:0007416","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1134633983168996616","title":"Spliceosome-Mediated mRNA Splicing Regulation","description":"The top GO terms cluster around mRNA splicing and spliceosome-related processes (cis splicing via spliceosome, spliceosomal snRNP assembly, regulation of splicing). Additional terms involve snoRNA splicing and regulatory ncRNA-mediated gene silencing, reinforcing the RNA-processing theme. Overall, the cluster seems to group proteins involved in RNA processing and control of gene expression at the splicing level.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0000387","count":2}]},{"hash":"532006519271557634","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0070208","count":3},{"id":"GO:0048568","count":2},{"id":"GO:0008306","count":2},{"id":"GO:0000466","count":2}]},{"hash":"682289583820623837","title":"Actin Cytoskeleton Remodeling and Lamellipodium Assembly","description":"The top GO terms emphasize actin cytoskeleton organization and lamellipodium assembly, core aspects of actin-driven cell motility. Additional annotations related to membrane localization and protein binding align with dynamic cytoskeletal remodeling at the cell surface, supporting a motility/membrane-protrusion role.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2000010","count":2},{"id":"GO:1903526","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0001890","count":1}]},{"hash":"937339026550668895","title":"Gene Expression and Metabolic Biosynthesis","description":"The top GO terms include translation and regulation of DNA-templated transcription, which points to a link with gene expression. These are accompanied by several biosynthetic processes (antibiotic response, androgen and steroid metabolism, retinoic acid biosynthesis, tetrahydrobiopterin biosynthesis, and poly-hydroxybutyrate biosynthesis), suggesting the cluster contains proteins involved in both protein synthesis/regulation and diverse small-molecule biosynthesis rather than a single, cohesive pathway.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":4},{"id":"GO:1901407","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0042619","count":2},{"id":"GO:0008209","count":2}]},{"hash":"1507538036648074325","title":"Integrin signaling and cell migration","description":"This cluster is dominated by adhesion and signaling terms tied to cytoskeletal dynamics and migration (integrin signaling, substrate spreading, cell migration in angiogenesis and fibroblasts, cytoskeleton organization). Regulatory signals like PDGF response and tyrosine kinase activity support a cohesive adhesion\u2013migration program, with some neuron-related guidance terms reflecting similar cytoskeletal guidance roles.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034446","count":4},{"id":"GO:0045214","count":3},{"id":"GO:0061097","count":3},{"id":"GO:0002042","count":3},{"id":"GO:0051965","count":3}]},{"hash":"570233824987463784","title":"Endomembrane trafficking and receptor localization","description":"This cluster\u2019s GO terms cluster around intracellular transport and targeting within the secretory pathway\u2014endosome transport, Golgi-related processes, exocytic insertion, and receptor localization to the cell surface or synapse\u2014suggesting a membrane-trafficking module. Some terms (cornified envelope, immune signaling) are outliers, but the dominant theme is trafficking/localization to membranes and synapses.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045022","count":1},{"id":"GO:0098967","count":1},{"id":"GO:1903575","count":1},{"id":"GO:0001916","count":1},{"id":"GO:0033194","count":1}]},{"hash":"1490580834171009862","title":"Proteostasis and Cell Cycle","description":"The top GO terms point to protein processing and quality control (protein processing, glycosylation, aggresome assembly) alongside core cell-cycle processes (DNA replication, spindle assembly, transcription regulation). This suggests a theme around maintaining protein homeostasis during cell-cycle progression, though some terms (sensory perception of sound, blastocyst development) appear unrelated, indicating a mixed functional set. Overall, the cluster seems moderately cohesive around proteostasis and cell-cycle maintenance rather than a single narrowly defined function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016485","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0018279","count":2},{"id":"GO:0034599","count":2},{"id":"GO:0000122","count":2}]},{"hash":"20008504587170820","title":"Adaptive immune-angiogenic signaling","description":"The cluster is characterized by GO terms spanning adaptive immune response and angiogenesis, including endothelial migration and megakaryocyte development, with ERK1/2 cascade regulation pointing to MAPK signaling as a common mechanism. While there are some broad developmental terms, the strongest link among the terms is immune-vascular development and signaling, suggesting these proteins participate in coordinated immune and vascular biology.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":6},{"id":"GO:0001525","count":5},{"id":"GO:0002250","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0043536","count":5}]},{"hash":"1740398716142839525","title":"Neuronal development and vesicle trafficking","description":"Proteins in this cluster are enriched for brain development and neural signaling terms, notably brain development and regulation of synaptic vesicle exocytosis, plus aspects of cortical cytoskeleton localization and cerebral cortex radial glia\u2013guided migration. This pattern suggests a cohesive role in neural development and vesicle trafficking; the other terms (angiogenesis, B cell differentiation, autophagosome substrate localization) appear less central, likely reflecting broader cellular roles or multi-functional proteins.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0010796","count":6},{"id":"GO:0031384","count":6},{"id":"GO:2000300","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0016525","count":5}]},{"hash":"1793297317295416514","title":"Proteostasis and microtubule organization","description":"The cluster shows a coherence around protein folding, chaperone-mediated assembly, and cytoplasmic protein quality control via the ubiquitin-proteasome system, together with tubulin complex assembly and cortical microtubule organization. This suggests a shared role in proteostasis and maintenance of cytoskeletal structure, with some peripheral terms (transport, peroxisome autophagy, freezing response, transcription elongation) that are less central to the core theme.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006810","count":1},{"id":"GO:0030242","count":1},{"id":"GO:0050826","count":1},{"id":"GO:0071629","count":1},{"id":"GO:0043622","count":1}]},{"hash":"1890700293721810269","title":"Unknown","description":"The top GO terms are broad and cover development, neuronal migration, synaptic structure, cytoskeletal regulation, cell division, immune/phagosomal processes, and nucleolar localization, with no single coherent function tying the proteins together. Therefore there isn\u2019t a clear, representative theme to label the cluster beyond Unknown.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060661","count":5},{"id":"GO:0099139","count":5},{"id":"GO:1903215","count":5},{"id":"GO:0021831","count":5},{"id":"GO:0048790","count":5}]},{"hash":"790501815345711078","title":"Mitotic cell cycle and ER-Golgi vesicle trafficking","description":"The cluster is dominated by mitosis-related terms (mitotic cell cycle, cell division, cell population proliferation, mitotic spindle assembly) and vesicle trafficking between the ER and Golgi (COPII budding; ER-to-Golgi and Golgi-to-ER transport), suggesting a coherent grouping of proteins involved in cell division coupled with secretory pathway transport. Brain development and organismal growth terms appear but are less central. Overall, these proteins seem tied to both proliferative capacity and intracellular trafficking during growth.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0008283","count":5},{"id":"GO:0090307","count":5},{"id":"GO:0006890","count":5}]},{"hash":"259771317732188704","title":"Neuroimmune Signaling","description":"The GO terms point to neural development and signaling pathways (ERK cascade, NF-\u03baB) that regulate immune responses (T cell signaling, TNF production, LPS signaling), suggesting a cluster of proteins involved in signal transduction in both nervous and immune contexts\u2014a neuroimmune signaling module.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":3},{"id":"GO:0048011","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0050852","count":3}]},{"hash":"1025704103965242684","title":"Neural and cardiovascular developmental processes","description":"These terms point to developmental differentiation in neural and glial lineages, sensory functions, and cardiac/vascular morphogenesis, with auxiliary cytoskeletal processes supporting cell division.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903087","count":5},{"id":"GO:0007020","count":5},{"id":"GO:0010800","count":4},{"id":"GO:0014044","count":4},{"id":"GO:0014850","count":4}]},{"hash":"1901128518900520801","title":"Unknown","description":"The GO terms are very diverse, including metabolic signaling (glucose import in response to insulin stimulus, response to nutrient levels), peptide signaling (neuropeptide catabolic process, bradykinin catabolic process), immune activity (T cell mediated cytotoxicity and immune response to tumor cells), and various development/remodeling processes (salivary gland development, blood vessel remodeling, elastin catabolic regulation, neural precursor proliferation). There isn\u2019t a clear, single theme tying all proteins together, so a cohesive functional label is not evident.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":2},{"id":"GO:0010813","count":1},{"id":"GO:0002839","count":1},{"id":"GO:0001913","count":1},{"id":"GO:0007431","count":1}]},{"hash":"81712591338632169","title":"Macrophage energy metabolism and circadian regulation","description":"The top GO terms cluster around energy homeostasis and macrophage activation, with additional hints of circadian clock entrainment by photoperiod and memory. This suggests a theme where macrophages coordinate metabolic state with circadian timing, potentially linking immune activation to metabolic and daily rhythms. Some terms are obsolete, but the shared pattern points to immune cell metabolism integrated with circadian control.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097009","count":3},{"id":"GO:0032793","count":3},{"id":"GO:0060081","count":3},{"id":"GO:0042116","count":3},{"id":"GO:0050995","count":3}]},{"hash":"1309543361021231696","title":"Membrane Localization and Polarity Regulation","description":"The terms cluster around maintaining protein location in the plasma membrane, receptor localization to synapses, and establishment of epithelial cell polarity, plus related trafficking and lipid remodeling processes. This points to a shared theme of membrane organization, trafficking, and polarity across cell types (epithelial, neuronal, endothelial), rather than a single, tightly defined pathway. A few terms about chemical responses and pinocytosis fit within the broader membrane/trafficking context but are more peripheral. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072660","count":3},{"id":"GO:0043488","count":3},{"id":"GO:0048549","count":3},{"id":"GO:1900383","count":3},{"id":"GO:0090162","count":3}]},{"hash":"644842058055761071","title":"Diverse Substrate Transmembrane Transporters","description":"The top GO terms describe transport of varied substrates across membranes (vitamins, sugars, nitrate, xenobiotics, ions), suggesting a cluster of membrane transport proteins with broad specificity. This theme is reinforced by multiple transmembrane transport terms and a fructose-related response, indicating transporter-related functions rather than a single substrate pathway. Confidence is high that this label captures the core function of the cluster.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042891","count":5},{"id":"GO:0035461","count":5},{"id":"GO:0006855","count":5},{"id":"GO:0015753","count":4},{"id":"GO:0070837","count":4}]},{"hash":"898546025601939743","title":"DNA Transcription and Repair","description":"The top GO terms are DNA-templated transcription and double-strand break repair via homologous recombination, which point to nuclear processes linked to genome maintenance and transcription regulation. While other terms touch on signaling and development, these core terms suggest a functional theme around transcriptional control and DNA damage response.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0007548","count":1},{"id":"GO:2000249","count":1},{"id":"GO:0035971","count":1}]},{"hash":"1735155171964954159","title":"Neuronal development and synaptic signaling","description":"The top GO terms center on forebrain development, axon fasciculation, long-term synaptic potentiation, and Wnt signaling regulation, suggesting roles in neuronal development and synaptic function. Some cell-cycle terms may reflect shared transcriptional processes, but the overall theme points to neural development and synaptic signaling.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0000086","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0030900","count":3},{"id":"GO:0097156","count":3}]},{"hash":"2044181130590685430","title":"Diverse solute transmembrane transport","description":"The cluster shows multiple GO terms for transmembrane transport of varied substrates (D-xylose, dehydroascorbic acid, potassium, fructose-related response, nitrate, sialic acid, trehalose, organic anions), indicating a group of membrane transporters handling diverse solutes. An outlier term related to replicative senescence is present but does not override the shared transport theme.","confidence":"High","size":7,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015753","count":4},{"id":"GO:0070837","count":4},{"id":"GO:0071805","count":4},{"id":"GO:0071332","count":4},{"id":"GO:0015706","count":4}]},{"hash":"2196670069395073215","title":"Vision and dopaminergic signaling","description":"This cluster centers on visual system functions (retina development, visual perception, visual learning) and dopaminergic neurotransmission (synaptic transmission, dopaminergic; behavioral response to cocaine), pointing to neural signaling and sensory processing with potential reward-related aspects. Additional terms like ERK cascade regulation, prostaglandin response, pain perception, and even heart development or macrophage chemotaxis may reflect broader signaling pathways rather than a single tissue-specific function, but vision-focused terms dominate the cluster.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060041","count":5},{"id":"GO:0010759","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0007601","count":5},{"id":"GO:0007507","count":5}]},{"hash":"1200591898654493010","title":"Wnt/Hippo-driven growth and differentiation signaling","description":"This cluster shows enrichment for core signaling pathways: positive regulation of canonical Wnt signaling, Hippo signaling, and Rho-mediated signal transduction, all tied to controlling cell growth and fate. Additional terms like keratinocyte differentiation, negative regulation of cardiac muscle cell proliferation, and apoptotic processes reinforce a theme of coordinating growth, differentiation, and survival. While some terms (potassium ion transport, amino acid starvation response) are less central, they can intersect with signaling networks that modulate growth and metabolism, supporting a cohesive growth/differentiation signaling theme.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":4},{"id":"GO:0006813","count":4},{"id":"GO:0060044","count":4},{"id":"GO:0034198","count":4},{"id":"GO:0006915","count":4}]},{"hash":"611674457950201773","title":"Neural signaling and glial function","description":"This cluster centers on regulatory signaling in the nervous system and glial biology, including synaptic potentiation, astrocyte activation, Schwann cell development, and electrical coupling in excitable tissues (cardiac conduction), with some terms spanning retina and neural support roles. Despite some obsolete terms, the common theme is neural/glial signaling and support functions across CNS, PNS, and related tissues.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":3},{"id":"GO:0042994","count":3},{"id":"GO:0051531","count":2},{"id":"GO:1901844","count":2},{"id":"GO:0007602","count":2}]},{"hash":"919197471434431223","title":"Growth, survival, and migration signaling","description":"This cluster is enriched for regulation of apoptosis and cell cycle transitions (G1/S, G2/M), coupled with signaling pathways such as ERBB and Wnt, and processes like axon extension and cell migration. The proteins appear to coordinate growth/survival with migratory behavior, rather than a single linear pathway, justifying a label centered on growth, survival, and migration signaling.","confidence":"Medium","size":7,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0045773","count":2}]},{"hash":"410437292325262605","title":"Diverse Metabolic Pathways","description":"The proteins in this cluster are linked to a variety of metabolic processes, including fatty acid oxidation and metabolism, ectoine and verruculogen biosynthesis, and nucleotide biosynthesis/catabolism (dUTP/dUMP/dITP). This spread across primary and secondary metabolism suggests no single specific pathway dominates, but rather a broad metabolic capability. ","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001561","count":2},{"id":"GO:0019491","count":2},{"id":"GO:0042400","count":2},{"id":"GO:1902181","count":2},{"id":"GO:0097089","count":2}]},{"hash":"1848828380665095219","title":"Eye development and retinal metabolism","description":"This cluster is driven by strong signals for retinal and retinol metabolic processes, and explicit embryo eye development terms (camera-type eye development, retinal metabolism). While there are related craniofacial and neural crest/patterning terms, the dominant theme is ocular/retinal development and metabolism.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":7},{"id":"GO:0042572","count":7},{"id":"GO:0021983","count":4},{"id":"GO:0001568","count":4},{"id":"GO:0060166","count":4}]},{"hash":"124263054310002124","title":"Dopaminergic Synaptic Transmission Regulators","description":"These proteins cluster around neuronal signaling, especially regulation of nerve impulse transmission and dopaminergic synaptic activity. The prominent GO terms include action potential, positive/negative regulation of nerve impulse transmission, and dopaminergic synaptic transmission, plus related ion transport. A few terms (ethanol response, acrosome-related) are less central noise, but the core theme points to modulation of neuronal communication and dopaminergic signaling.","confidence":"High","size":7,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001508","count":6},{"id":"GO:0043200","count":6},{"id":"GO:2000344","count":6},{"id":"GO:0071805","count":6},{"id":"GO:0051971","count":6}]},{"hash":"1270057298326619487","title":"Neuronal Axon Guidance and Synapse Organization","description":"The terms cluster around neuronal development, including axon guidance, neural crest migration, and synapse organization, with BMP/Wnt signaling involvement.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902287","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0050808","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0021785","count":2}]},{"hash":"1248660484359612162","title":"Proteostasis and Protein Quality Control","description":"These proteins cluster around maintaining protein homeostasis: chaperone-cofactor-dependent refolding, protein unfolding, and general protein processing. The presence of aggresome assembly and oxidation-dependent protein catabolic processes supports quality control of misfolded or damaged proteins, including decisions toward refolding, oligomerization, or degradation. While a few terms touch on division or development, the dominant theme is proteostasis via folding, assembly, and proteolysis.","confidence":"Medium","size":6,"edges":7,"triangles":4,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070389","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0051260","count":4},{"id":"GO:1903715","count":3},{"id":"GO:0070842","count":3}]},{"hash":"423033340678435029","title":"Adipogenesis and Brown Fat Differentiation","description":"This cluster is driven by adipose-related terms, notably positive regulation of fat cell differentiation and brown fat cell differentiation, indicating a core role in adipogenesis and brown adipose tissue formation. Other GO terms refer to broader developmental processes (placental, salivary gland, dorsal identity) and nutrient-responsive transcriptional regulation, which may reflect general developmental and metabolic control rather than a single pathway. Overall, the strongest signal centers on fat cell differentiation and brown fat development.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0036499","count":4},{"id":"GO:0001892","count":4},{"id":"GO:0045600","count":4},{"id":"GO:0010691","count":4},{"id":"GO:2000016","count":4}]},{"hash":"1405897158424909870","title":"Transcription and RNA Processing with Cytoskeletal Dynamics","description":"The top GO terms point to nuclear gene expression (DNA-templated transcription, mRNA export regulation, rRNA processing) and cytoskeletal control (negative regulation of Arp2/3-mediated actin nucleation, microtubule severing), with supporting protein modification and developmental signals. This suggests a general role in coordinating gene expression with changes in cell structure rather than a single pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0070306","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0034316","count":4}]},{"hash":"83569399037193242","title":"Translation Machinery and Ribosome Dynamics","description":"The top GO terms cluster around translation and ribosome biology, including translation, initiation, elongation, cytoplasmic translation, and selenium incorporation into selenoproteins, along with ribosome disassembly and mRNA decay. This suggests a cohesive theme of protein synthesis and ribosome function. A few terms like response to antibiotic and glial cell proliferation are peripheral or possibly annotation noise rather than core functions of the cluster.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000767","count":2},{"id":"GO:0001172","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0032790","count":2},{"id":"GO:0045901","count":2}]},{"hash":"1871254326335008352","title":"Alcohol and redox metabolism with lipid signaling","description":"The top GO terms point to ethanol-related metabolism (pyruvate fermentation to ethanol, ethanol catabolic process) and oxidation-reduction processes (NADH-related terms), with additional lipid signaling metabolism (prostaglandin, retinoic acid) and an immune-related cue (response to lipopolysaccharide). This suggests a broad metabolic-redox module that intersects with lipid signaling and immune signaling but lacks a single, tight functional theme. Therefore, the label captures the dominant alcoholic metabolism/redox signal while acknowledging accompanying lipid and immune associations.","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0032496","count":4},{"id":"GO:1901159","count":3},{"id":"GO:0043458","count":3},{"id":"GO:0042573","count":3}]},{"hash":"938429231231094892","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0032515","count":2},{"id":"GO:0061179","count":2},{"id":"GO:0051775","count":2}]},{"hash":"227355052488392599","title":"Chitin-based cuticle development and molting","description":"Cluster terms are dominated by chitin-based cuticle development, ecdysis, and chitin catabolic processes, pointing to arthropod exoskeleton formation and molting. Other immune signaling terms appear as minority annotations, but the primary theme is cuticle formation/remodeling and molting processes.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0040003","count":4},{"id":"GO:0051216","count":4},{"id":"GO:0009612","count":4},{"id":"GO:0007250","count":4},{"id":"GO:0070741","count":4}]},{"hash":"572355584136639372","title":"Actin Cytoskeleton Dynamics and Cell Polarity","description":"The top GO terms center on actin-related processes: cortical patch assembly, thin filament assembly, cytokinesis, and establishing/maintaining cell polarity, indicating a cohesive theme of cytoskeletal remodeling that governs cell shape and division. Some terms about platelet aggregation, muscle fiber adaptation, and brain development reflect broader actin roles, but the dominant signal is cytoskeletal organization and morphogenesis.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":5},{"id":"GO:0000011","count":5},{"id":"GO:0000281","count":5},{"id":"GO:0070527","count":5},{"id":"GO:0043503","count":5}]},{"hash":"835564763756414572","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0048701","count":2},{"id":"GO:0090263","count":2}]},{"hash":"853428570402242673","title":"Unknown","description":"Top Terms are empty for this cluster (no GO terms reported), and with only 2 edges among 6 proteins and no enriched signals, there is no clear shared function or pathway to define a cohesive label. Therefore, the cluster is labeled Unknown.","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"679960995002029536","title":"Neural development and synaptic signaling","description":"Proteins in this cluster show strong representation for terms related to neural development and brain function (brain development, cochlea morphogenesis, excitatory postsynaptic potential, locomotory behavior, negative regulation of neuron apoptotic process). While there are also terms for broader developmental processes (liver, pituitary development) and general cellular trafficking (ER to Golgi transport), the dominant theme is neural development and synaptic signaling, suggesting these proteins are involved in brain differentiation and neuronal communication rather than a single metabolic pathway.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043524","count":3},{"id":"GO:0001889","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0002087","count":2}]},{"hash":"1216135651242118879","title":"Calcium\u2013NFAT signaling in immune and developmental contexts","description":"This cluster centers on calcium-dependent signaling and NFAT pathway regulation, as evidenced by terms like regulation and positive regulation of the calcineurin-NFAT signaling cascade, and calcium-release channel activity. The presence of T cell homeostasis and Schwann cell development suggests immune and neural developmental roles, while additional terms related to vascular branching and cell-cycle signaling hint at broader developmental processes. Overall, the core theme appears to be calcium/NFAT\u2013driven signaling linked to development and immune function.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051531","count":6},{"id":"GO:0031573","count":6},{"id":"GO:0032516","count":6},{"id":"GO:0014044","count":6},{"id":"GO:0006196","count":6}]},{"hash":"718910510335441825","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":13,"triangles":12,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0043200","count":2},{"id":"GO:0044205","count":2},{"id":"GO:0001889","count":2},{"id":"GO:0006177","count":2}]},{"hash":"599602867204812832","title":"Organogenesis and Tissue Morphogenesis","description":"Most terms point to development and morphogenesis across multiple organs (heart, airway cartilage, eye, liver bile ducts, kidney, vasculature). This suggests proteins involved in organogenesis and tissue patterning; the ER-to-Golgi transport term is a general cellular process that may support secretory needs during development.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0045819","count":1},{"id":"GO:0003142","count":1},{"id":"GO:0002840","count":1},{"id":"GO:0034145","count":1}]},{"hash":"328892949093452717","title":"Neuro-sensory and craniofacial development","description":"The proteins are annotated across many developmental processes, notably brain and inner ear development, palatal formation, lens differentiation, pituitary development, and neuromuscular/muscle proliferation, suggesting a cohesive theme of neuro-sensory and craniofacial organogenesis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0045317","count":2},{"id":"GO:0048839","count":2},{"id":"GO:0060021","count":2}]},{"hash":"2049613464228719814","title":"Eye development and osmolyte transport","description":"Based on the GO terms, the strongest signals are retina development in camera-type eye and lens fiber cell differentiation, indicating an eye-specific developmental theme. The presence of transport terms for glycine betaine and taurine suggests osmolyte handling in retinal cells, complementing eye tissue function. A few general processes like translation and actin regulation are present but likely secondary. Therefore, the cluster is best described as governing eye development with retinal osmolyte transport.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":2},{"id":"GO:0031460","count":2},{"id":"GO:0015734","count":2},{"id":"GO:0006412","count":1},{"id":"GO:0006450","count":1}]},{"hash":"1504081236225794735","title":"Proteostasis and ERAD/Aggresome Assembly","description":"This cluster centers on proteostasis pathways: aggresome assembly, ER-to-Golgi vesicle transport, ubiquitin-dependent ERAD, protein unfolding, protein processing, and oxidation-dependent protein catabolic processes. These terms together point to cellular quality control for misfolded or damaged proteins, including folding/unfolding dynamics and degradation via ERAD and related pathways; microtubule dynamics may support aggresome transport. A few terms like blastocyst development and transcription elongation regulation are less directly connected and may reflect annotation spillover. Overall, it reflects protein quality control and degradation mechanisms.","confidence":"Medium","size":6,"edges":9,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070842","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0030433","count":3},{"id":"GO:1903715","count":2},{"id":"GO:0001824","count":2}]},{"hash":"1050835770318468682","title":"Xenobiotic Response and Steroid/Retinoid Metabolism","description":"The cluster is enriched for terms related to responses to xenobiotics and toxic substances, alongside metabolism of steroid hormones and retinoids (androgen, retinoic acid, steroid catabolic processes), suggesting a cohesive theme around detox/coshort hormone metabolism. Some entries are obsolete or peripheral (e.g., redox, PHB biosynthesis), but the core pattern supports xenobiotic response coupled with hormone-related metabolism.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0043154","count":2},{"id":"GO:2000179","count":2},{"id":"GO:0009636","count":2}]},{"hash":"1680749521061583745","title":"Plant RNA processing under drought stress","description":"This cluster includes RNA processing steps (tRNA processing, mRNA splicing, transcription termination) and stress-responsive mRNA handling (mRNA stability, P-body assembly) plus plant-specific signals (ABA response, water deprivation). The common thread is plant stress-related regulation of gene expression through RNA processing and nuclear dynamics.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0010610","count":2},{"id":"GO:0009737","count":2},{"id":"GO:0009414","count":2}]},{"hash":"2293499502507377632","title":"Post-transcriptional RNA processing and translation regulation","description":"This cluster centers on RNA-level control of gene expression after transcription, including mRNA splicing (spliceosome), translation initiation and IRES-dependent initiation, and RNA silencing (miRNA and regulatory ncRNA). The combination of splicing, translation initiation, and RNA silencing terms points to a cohesive post-transcriptional regulatory theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1905663","count":2},{"id":"GO:0001731","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0075522","count":2}]},{"hash":"2263516142838004373","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000453","count":2},{"id":"GO:0045226","count":2},{"id":"GO:0006269","count":2},{"id":"GO:0044781","count":2},{"id":"GO:0006461","count":2}]},{"hash":"755696679640673963","title":"Nuclear RNA processing and chromatin regulation","description":"This cluster centers on nuclear RNA metabolism (mRNA splicing, mRNA and tRNA processing, transcription termination, nuclear import) and chromatin-related activities (pericentric heterochromatin formation, histone mRNA metabolism), with some ABA and water deprivation stress signals. The mix suggests proteins involved in coordinating gene expression through RNA maturation and chromatin dynamics, rather than a single metabolic pathway. A distinct and cohesive theme is RNA processing coupled with chromatin regulation under abiotic stress cues.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":6},{"id":"GO:0009737","count":4},{"id":"GO:0009414","count":4},{"id":"GO:0051170","count":4},{"id":"GO:0006369","count":4}]},{"hash":"867847692493698910","title":"Cardiac ion channels and action potential regulation","description":"Most terms point to ion transport (K+/Na+) across membranes and regulation of heart-specific action potentials, including atrial myocytes and Purkinje fibers; terms on depolarization/repolarization and delayed rectifier potassium channels support a cardiac electrophysiology theme. Some terms are less central (aldosterone biosynthesis, T cell homeostasis) but do not override the main pattern. Confidence: High","confidence":"","size":6,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0035725","count":2},{"id":"GO:1902259","count":2},{"id":"GO:0043029","count":2},{"id":"GO:0086002","count":2}]},{"hash":"1062083108855642869","title":"Proliferation and signaling regulators","description":"Based on the top GO terms, the proteins are enriched for positive regulation of cell proliferation and mitotic cell cycle, along with multiple signaling-related processes (kinase and GTPase regulation, tyrosine/serine/threonine phosphorylation) and actin dynamics, suggesting a core function in coordinating cell growth and signal transduction rather than a single isolated pathway.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008284","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0050731","count":3},{"id":"GO:2000601","count":3},{"id":"GO:0071456","count":3}]},{"hash":"1639164036141042561","title":"Post-transcriptional RNA processing and translation regulation","description":"This cluster centers on RNA metabolism and gene-expression control after transcription, evidenced by mRNA processing (polyadenylation, splicing), stress-related mRNA stability, and multiple modes of translation initiation and silencing (miRNA- and ncRNA-mediated). The mix of these terms suggests a cohesive post-transcriptional regulatory theme.","confidence":"Medium","size":6,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0010610","count":3},{"id":"GO:1905663","count":2},{"id":"GO:0001731","count":2},{"id":"GO:1901407","count":2}]},{"hash":"1047937609815331944","title":"Viral integration and proviral latency","description":"The top GO terms point to a retroviral-like lifecycle: DNA replication and recombination, DNA integration, and especially the establishment of integrated proviral latency and viral entry into the host nucleus. These indicate processes involved in integrating viral DNA into the host genome and maintaining latency, with supporting signals of host defense interactions (e.g., negative regulation of siRNA processing). Additional terms about symbiont entry or host apoptosis reflect broader host\u2013microbe interaction contexts but do not outweigh the viral integration theme. Overall, the cluster appears to center on viral genome integration and proviral latency within the host.","confidence":"Medium","size":6,"edges":10,"triangles":7,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006310","count":3},{"id":"GO:0071897","count":2},{"id":"GO:0070914","count":2},{"id":"GO:1903704","count":2}]},{"hash":"478854316802018390","title":"Transmembrane sugar and ion transporters","description":"The cluster's GO terms are dominated by multiple transmembrane transport activities for diverse substrates (D-xylose, dehydroascorbic acid, potassium, nitrate, sialic acid, trehalose, etc.), pointing to a membrane transporter function across sugars and ions. A separate term related to transcriptional regulation and replicative senescence is present but likely incidental to the main theme of transporter activity. Overall, the common function appears to be membrane transporters.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":2},{"id":"GO:0015753","count":1},{"id":"GO:0070837","count":1},{"id":"GO:0071805","count":1},{"id":"GO:0071332","count":1}]},{"hash":"669434766031395042","title":"Transcription and Translation Regulation","description":"This cluster is enriched for transcription-related terms (DNA-templated transcription, mRNA export) and multiple translation initiation/ reinitiation terms (translation initiation regulation, preinitiation complex formation, IRES-dependent viral translation), suggesting a cohesive theme around gene expression from transcription through the start of translation, with possible links to cell cycle control and GTPase regulation. The viral translation terms add a note about viral exploitation of host initiation machinery but still fit under overall gene expression regulation.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1066882694004671814","title":"Neural development and synaptic signaling","description":"This cluster centers on nervous system functions, including astrocyte activation, Schwann cell development, regulation of synaptic potentiation, and signaling pathways (e.g., NFAT/calcineurin) that influence transcription and communication. Some terms like phototransduction and electrical coupling in cardiac conduction may reflect broader roles in neural signaling or noise, but the overall theme is neural development and synaptic communication.","confidence":"High","size":6,"edges":8,"triangles":3,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000742","count":4},{"id":"GO:0045944","count":4},{"id":"GO:0051531","count":3},{"id":"GO:0010800","count":3},{"id":"GO:1901844","count":3}]},{"hash":"1273324639451068224","title":"ECM remodeling and integrin signaling","description":"Top terms cluster around extracellular matrix interactions and signaling (integrin-mediated signaling pathway, hyaluronan metabolic process, metallopeptidase activity) with links to cell growth and division. This suggests a coherent theme of ECM\u2013cell signaling and remodeling as the main function of the cluster, though a few terms are peripheral annotations. Therefore, the label ECM remodeling and integrin signaling fits best.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007229","count":3},{"id":"GO:0030212","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0033160","count":3},{"id":"GO:0071380","count":3}]},{"hash":"839169332996962508","title":"Diverse substrate transmembrane transport","description":"The proteins are enriched for transmembrane transport of various substrates (ions, vitamins, xenobiotics, sugars, and related compounds), indicating a core membrane transport function; the ubiquitin-dependent proteolysis terms suggest regulatory links but do not dominate the cluster theme. High","confidence":"","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0042908","count":3},{"id":"GO:0031146","count":2}]},{"hash":"2151208514626567794","title":"GPCR Signaling and Modulation","description":"The enriched terms cluster around G protein-coupled receptor signaling and its downstream effects, including GPCR internalization, adenylyl cyclase\u2013regulated pathways (serotonin and adrenergic signaling), opsin and prostaglandin signaling, and Rho-mediated modulation. Additional terms on mucus secretion and immune-related responses align with GPCR-driven regulation of diverse physiological processes. Even with no observed edges, the common theme is GPCR-mediated signal transduction and its downstream outcomes.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":3},{"id":"GO:0007198","count":3},{"id":"GO:0070963","count":3},{"id":"GO:0002031","count":3},{"id":"GO:0071799","count":3}]},{"hash":"1038200278562993163","title":"Cardiac Development and Conduction Signaling","description":"The top GO terms cluster around heart development, angiogenesis, and regulation of signaling pathways and electrical coupling in cardiac conduction, with supporting hints from voltage-gated channel organization and NFAT/calcinuerin signaling. While there are a few terms related to nervous system glia, the strongest, cohesive theme is cardiac development and electrical signaling in the heart, suggesting these proteins participate in cardiovascular development and conduction processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032516","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0045163","count":2},{"id":"GO:0051531","count":1}]},{"hash":"287217549419944124","title":"Embryogenesis and Progenitor Proliferation Regulation","description":"This cluster shows multiple development-related GO terms, including pituitary gland development, in utero embryonic development, and regulation/positive regulation of stem cell and neural precursor cell proliferation, plus erythrocyte differentiation. These repeatedly point to embryonic development and growth/proliferation control of progenitor cells. A few terms are metabolic or stress-linked (glycerol-3-phosphate catabolism, thiamine biosynthesis, response to cold), which may reflect ancillary roles or annotation noise, but do not overwhelm the central developmental signal. Therefore, a label focused on embryogenesis and progenitor proliferation best captures the core function of the cluster.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":1},{"id":"GO:2000648","count":1},{"id":"GO:2000179","count":1},{"id":"GO:0045793","count":1},{"id":"GO:0046168","count":1}]},{"hash":"1007346073889664491","title":"Innate antiviral defense","description":"The Top Terms are dominated by antiviral defense and innate immune processes (defense response to virus; innate immune response), with supporting signals from Toll-like receptor pathway regulation and protein ubiquitination, which are common in antiviral signaling. A handful of terms related to development/morphogenesis appear incidental; overall, the cluster centers on innate antiviral defense mechanisms. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0046621","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0048807","count":1}]},{"hash":"1910097497819121939","title":"Developmental kinase signaling","description":"The cluster centers on kinase-mediated signaling (positive regulation of serine/threonine kinase activity, autophosphorylation, GTPase regulation) intertwined with broad developmental processes (brain, skin, lens fiber differentiation, multicellular development). Although mitotic spindle assembly is mentioned, the dominant pattern ties signaling cascades to developmental differentiation across tissues.","confidence":"Medium","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0071902","count":3}]},{"hash":"220633341231287066","title":"Nuclear RNA export and spindle organization","description":"The cluster centers on nuclear transport processes (mRNA export, ribosomal subunit export, import of splicing-related factors) and mitotic structure regulation (centrosome duplication, astral microtubule organization, kinetochore localization, transcriptional regulation). These shared themes suggest a combined role in nuclear-cytoplasmic transport and mitotic spindle/centrosome control, with a few outliers like phosphatidylcholine biosynthesis. ","confidence":"Medium","size":6,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":4},{"id":"GO:0060188","count":3},{"id":"GO:0035048","count":3},{"id":"GO:0034501","count":3},{"id":"GO:0006609","count":3}]},{"hash":"666082281276577281","title":"Nuclear RNA Processing and Export","description":"The top GO terms cluster around import of splicing factors and hnRNPs into the nucleus, mRNA and pre-miRNA export from the nucleus, and transcriptional regulation by RNA Polymerase II, pointing to a cohesive theme of nuclear RNA metabolism and trafficking. Some outliers (centrosome regulation, axis polarity) may reflect broader regulatory roles but do not obscure the dominant RNA-processing/transport pattern.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035048","count":3},{"id":"GO:0009944","count":3},{"id":"GO:0034501","count":3},{"id":"GO:0006609","count":3},{"id":"GO:0010824","count":3}]},{"hash":"1446199430861671231","title":"Innate Immune Signaling and Complement Activation","description":"The top GO terms are dominated by immune-related processes: positive regulation of macrophage cytokine production, positive regulation of platelet activation, and complement activation via the lectin pathway, plus activation of receptor tyrosine kinases associated with signaling. These points suggest a shared theme around innate immune signaling and complement pathways. The presence of more general terms (glycosylation, deubiquitination, ribosome maturation, spindle pole duplication) indicates some functional diversity, but the strongest signal among the listed terms centers on immune activation and complement. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060907","count":2},{"id":"GO:0010572","count":2},{"id":"GO:0007171","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0035010","count":1}]},{"hash":"1742957098978905796","title":"ESCRT-Mediated Vesicle Trafficking","description":"Based on the GO terms, this cluster centers on ubiquitin-dependent protein sorting via the multivesicular body/ESCRT pathway, including MVB assembly and ESCRT-dependent viral budding. Additional terms for clathrin-mediated endocytosis, intracellular transport, and synaptic vesicle coating reinforce a shared function in vesicle formation and trafficking controlled by ESCRT machinery. Overall, these proteins appear to participate in ESCRT/MVB-mediated sorting and related vesicle trafficking.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043162","count":2},{"id":"GO:1904669","count":1},{"id":"GO:1902188","count":1},{"id":"GO:1903774","count":1},{"id":"GO:0036258","count":1}]},{"hash":"1226912210358392541","title":"GPCR Signaling and Modulation","description":"The top GO terms cluster around G protein-coupled receptor signaling and its regulation, including serotonin and adrenergic receptor pathways, GPCR internalization, opsin signaling, and downstream effectors like Rho signaling and cAMP modulation. Additional terms reference mucus secretion and prostaglandin responses, all fitting a cohesive GPCR-centric functional theme that impacts immune, vascular, and sensory processes.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070257","count":2},{"id":"GO:0007198","count":2},{"id":"GO:0070963","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0071799","count":2}]},{"hash":"542260778646130214","title":"Unknown","description":"The top GO terms cover development, neuronal migration, synaptic structure, cytoskeletal organization, mitotic processes, phagosomal activity, and nucleolar localization, with no single unifying function. This lack of a cohesive theme makes a concise, representative label unreliable.","confidence":"","size":6,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060661","count":2},{"id":"GO:0099139","count":2},{"id":"GO:1903215","count":2},{"id":"GO:0021831","count":2},{"id":"GO:0048790","count":2}]},{"hash":"1003935148537517013","title":"Cell Cycle and Developmental Regulation","description":"This cluster centers on mitotic cell cycle and centriole replication, with links to growth control and cytoskeletal signaling (Rho pathway), and includes development-related processes such as forebrain development and cartilage condensation. Together these terms point to a theme of coordinating cell division with growth and tissue development, rather than a single, narrow function. Some terms (e.g., fungal-origin response and visual perception) seem less connected and may reflect noise.","confidence":"Medium","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071226","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0001502","count":4},{"id":"GO:0061387","count":3}]},{"hash":"641272304883391341","title":"GPCR Signaling and Downstream Responses","description":"The top GO terms point to G protein-coupled receptor signaling and its downstream effects, including serotonin and adrenergic receptor pathways, GPCR internalization, and signaling via prostaglandins and Rho. Mucus secretion and vascular smooth muscle differentiation can be GPCR-regulated responses, further supporting a unifying GPCR-centric function for this cluster.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":3},{"id":"GO:0007198","count":3},{"id":"GO:0070963","count":3},{"id":"GO:0002031","count":3},{"id":"GO:0071799","count":3}]},{"hash":"803329034910805852","title":"Synaptic vesicle trafficking and signaling","description":"The top GO terms concentrate on Golgi-to-plasma membrane transport and regulation of synaptic vesicle exocytosis/endocytosis, along with excitatory postsynaptic potential, pointing to a neuronal vesicle trafficking and neurotransmission role. Some other terms appear unrelated noise, but the core theme is synaptic vesicle cycling in neurons.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006893","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0035690","count":2},{"id":"GO:0000278","count":2}]},{"hash":"2028302772000253246","title":"Unknown","description":"The annotations span unrelated processes (behavioral starvation response, circadian sleep regulation, jump response, spermatogenesis, RNA silencing, ARF signaling, pole plasm localization, and vesicle trafficking), with no cohesive function linking the proteins and no interactions among them. Therefore there is no clear representative function to label.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042595","count":1},{"id":"GO:0042321","count":1},{"id":"GO:0007630","count":1},{"id":"GO:0007283","count":1},{"id":"GO:0090502","count":1}]},{"hash":"1276567920683154111","title":"LPS-triggered TLR and NLRP3 inflammasome signaling","description":"The GO terms point to innate immune sensing of lipopolysaccharide via TLR pathways (including MyD88-independent), activation of IL-1 signaling, and assembly of the NLRP3 inflammasome, with accompanying neutrophil recruitment\u2014collectively indicating an LPS-driven inflammatory response.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000391","count":1},{"id":"GO:2000661","count":1},{"id":"GO:0002756","count":1},{"id":"GO:0071222","count":1},{"id":"GO:0071260","count":1}]},{"hash":"1660467437731228693","title":"Membrane Trafficking and Signaling in Adipocytes","description":"GO terms cluster around membrane-associated processes and signaling: regulation of GTPase activity, maintenance of plasma membrane localization, pinocytosis, calcium release, and mechanotransduction. The presence of fat cell differentiation signals an adipocyte context, with additional mRNA regulatory terms suggesting post-transcriptional control. Collectively, this points to membrane trafficking and signaling in adipocytes rather than a single enzymatic function.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0072660","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0006397","count":2}]},{"hash":"1209992162504561626","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0051531","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0032402","count":2}]},{"hash":"1756781457227119655","title":"DNA Damage Response and Proteostasis","description":"The terms strongly point to genome integrity maintenance (mitotic G1 DNA damage checkpoint signaling, double-strand break repair via homologous recombination, DNA replication) and protein turnover (ubiquitin-dependent protein catabolic process, ubiquitin-dependent ERAD pathway, phagolysosome assembly). A few terms related to growth regulation and lens differentiation appear, which may reflect tissue-specific regulation of DDR and proteostasis. Overall, the cluster seems centered on DNA damage response coupled with proteostasis pathways.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070306","count":2},{"id":"GO:0046621","count":2},{"id":"GO:0001845","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0006260","count":2}]},{"hash":"686631382113450429","title":"Organelle protein import and respiration (mitochondria/chloroplast)","description":"The top GO terms point to protein import into chloroplast stroma and mitochondrial matrix, plus insertion into the mitochondrial inner membrane, and core components of the electron transport chain and aerobic respiration, suggesting a cluster of proteins involved in organelle protein targeting/import and mitochondrial/chloroplast energy metabolism. Noise terms like development-related GO terms appear unrelated to the core function and likely not representative of the cluster. Overall, the common theme is proteins associated with organelle import machinery and respiration.","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":2},{"id":"GO:0045037","count":2},{"id":"GO:0032094","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0000002","count":2}]},{"hash":"1837314486082481264","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006310","count":4},{"id":"GO:1903704","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0039651","count":3}]},{"hash":"688392091962060549","title":"Unknown","description":"The top GO terms span mitophagy, ubiquitin-dependent protein catabolic regulation, filopodium assembly, vesicle transport, and axon guidance, with no clear shared function or interactions uniting the proteins; there isn\u2019t a cohesive theme to name a specific biological function cluster.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061734","count":1},{"id":"GO:2000058","count":1},{"id":"GO:0051489","count":1},{"id":"GO:0019089","count":1},{"id":"GO:0010796","count":1}]},{"hash":"44456838797093810","title":"MAPK/JNK Pathway Regulators in Immune and Neural Development","description":"The top GO terms cluster around regulation of the JNK/MAPK cascade, immune signaling (innate response, B and T cell signaling), and neural development (forebrain/spinal cord development, neural tube closure), as well as cytoskeletal movement and GTPase activity. This suggests a set of proteins that modulate MAPK/JNK signaling with roles in both immune contexts and neural development, potentially linking signaling regulation to cytoskeletal dynamics.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0046328","count":4},{"id":"GO:0001782","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0030900","count":3},{"id":"GO:0007018","count":3}]},{"hash":"2185457365050244862","title":"Microbial metabolism: catabolism and biosynthesis","description":"The GO terms cluster around diverse metabolic activities\u2014multiple catabolic pathways (propylene, uracil, alkane, thymidine, nitrate assimilation) together with biosynthetic and energy-generation processes (thiamine biosynthesis, dihydrolipoamide metabolism, aerobic electron transport). This points to a broad microbial metabolic core rather than a single pathway, hence the label.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042208","count":2},{"id":"GO:0006212","count":2},{"id":"GO:0017000","count":2},{"id":"GO:0007568","count":1},{"id":"GO:0043448","count":1}]},{"hash":"2205093573690393436","title":"Protein deacetylation and proteostasis","description":"This cluster centers on deacetylation processes (peptidyl-lysine deacetylation, histone H3 deacetylation, Hsp90 deacetylation) and includes elements of proteostasis such as aggresome assembly and type 2 mitophagy, pointing to a theme where deacetylation regulates protein function and quality control under stress, with additional chromatin-related terms supporting a broader link to transcriptional and chromatin dynamics. Some terms are more context-specific (plant defense or development), but the core pattern fits deacetylation-linked proteostasis and chromatin regulation.","confidence":"Medium","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034983","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0030466","count":3},{"id":"GO:0070932","count":3},{"id":"GO:0009861","count":3}]},{"hash":"1261033192751037873","title":"Organogenesis and tissue morphogenesis","description":"The Top Terms cluster around developmental processes across multiple organs\u2014cardiogenic plate morphogenesis, bronchus cartilage development, intrahepatic bile duct development, nephron tubule formation, optic fissure closure, and sprouting angiogenesis\u2014indicating proteins are enriched for organogenesis and tissue morphogenesis. A few other terms (transcription regulation and immune signaling) appear but are less representative of the main theme.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0045819","count":1},{"id":"GO:0003142","count":1},{"id":"GO:0002840","count":1},{"id":"GO:0034145","count":1}]},{"hash":"56625979167271422","title":"Innate antiviral immune response","description":"The dominant GO terms point to innate immune defense against viruses, with multiple entries for innate immune response and defense against virus. Ubiquitin-dependent protein catabolic process supports turnover within immune signaling pathways, which fits the immune context. A few terms appear unrelated (mRNA splicing, raffinose response), suggesting some noise, but the core cluster centers on antiviral innate immunity.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0045292","count":1},{"id":"GO:0006378","count":1}]},{"hash":"1485811667221837829","title":"Nuclear DNA replication and genome maintenance","description":"Most terms are centered on DNA replication, recombination, and related genome maintenance activities (e.g., strand displacement, gene conversion). A few terms touch transcription and RNA processing, but the dominant signal is nuclear DNA maintenance, supporting a label focused on replication and genome integrity rather than a specific signaling or metabolic pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0016973","count":1},{"id":"GO:0006367","count":1},{"id":"GO:0006306","count":1}]},{"hash":"1746970847982435299","title":"Actin Cytoskeleton and Muscle Development","description":"This cluster centers on actin-related processes and muscle structure: actin cortical patch assembly, skeletal muscle thin filament assembly, and skeletal muscle fiber adaptation, plus related roles in cell polarity and cytokinesis. While a few terms (e.g., substantia nigra development, platelet aggregation) appear less aligned, the dominant themes point to cytoskeletal organization, actin dynamics, and muscle architecture, suggesting a functional cluster around cytoskeleton-driven muscle development and cell shape regulation.","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":1},{"id":"GO:0000011","count":1},{"id":"GO:0000281","count":1},{"id":"GO:0070527","count":1},{"id":"GO:0043503","count":1}]},{"hash":"949976404329466464","title":"Unknown","description":"The terms span very different biology: bacterial metabolism (mycothiol, glucosamine), polyamine catabolism, various acetylation processes (some obsolete), and plant/animal development terms (leaf formation, angiogenesis). The mix and noise suggest no coherent shared function, so a specific label isn\u2019t justifiable.","confidence":"","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010125","count":3},{"id":"GO:0009447","count":3},{"id":"GO:0017198","count":3},{"id":"GO:0043967","count":3},{"id":"GO:0017196","count":3}]},{"hash":"700259631685077707","title":"Unknown","description":"The top GO terms span diverse processes (protein complex assembly, lens differentiation, aging, ubiquitination, actin and microtubule dynamics, brain development, rRNA processing, and autophosphorylation) with little overlap, and the cluster has minimal connectivity, suggesting no cohesive functional theme. ","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":3},{"id":"GO:0070306","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0034316","count":2}]},{"hash":"408845543044409386","title":"Inflammation-associated extracellular matrix remodeling","description":"Top GO terms suggest chronic inflammatory response, cell adhesion, catabolic processes for collagen and proteoglycans, and phagocytic engulfment of apoptotic cells, plus regulation of fibrinogen levels. This points to an inflammatory state with active remodeling of the extracellular matrix, a common theme in tissue inflammation and cleanup. Although a few terms touch on development (pancreas morphogenesis, axon guidance), they likely reflect context-specific roles rather than a separate cluster function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002544","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0033564","count":1},{"id":"GO:0030574","count":1},{"id":"GO:0044537","count":1}]},{"hash":"142005335333266793","title":"Oxidative stress response and lipid metabolism","description":"This cluster shows several stress-related and metabolic terms, including triglyceride catabolic process and cellular responses to hydrogen peroxide, lipopolysaccharide, lithium, and apoptotic processes. While there are some developmental GO terms (neurogenesis, genital morphogenesis), the strongest signal is metabolic regulation under stress, supported by lipid catabolism and apoptosis connections.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":3},{"id":"GO:0070301","count":3},{"id":"GO:0022008","count":2},{"id":"GO:0048807","count":2},{"id":"GO:2000098","count":2}]},{"hash":"44343932444656290","title":"Unknown","description":"The GO terms are a mix of unrelated processes (neuropeptide catabolic process, T cell mediated cytotoxicity, bone/collagen catabolic processes, thyroid hormone response, decidualization, and others) with no clear common function. There are no edges linking the proteins (Edges: 0), and each term appears only once, so there isn\u2019t a cohesive theme to name a specific function cluster. Thus, Unknown with no confident representative label.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010813","count":1},{"id":"GO:0001913","count":1},{"id":"GO:0045453","count":1},{"id":"GO:0097067","count":1},{"id":"GO:0046697","count":1}]},{"hash":"854985078328508214","title":"Unknown","description":"The GO terms across this cluster are highly diverse, including responses to cadmium, telomere maintenance and localization (including telomere and Cajal body positioning), protein translocation into host cytoplasm, immune isotype switching, misfolded protein detection, and general cell cycle/apoptosis regulation. There isn\u2019t a clear, single cohesive function or pathway that ties all five proteins together, so a specific, representative label isn\u2019t supported.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":5},{"id":"GO:1904851","count":5},{"id":"GO:0044053","count":5},{"id":"GO:0032212","count":5},{"id":"GO:1904871","count":5}]},{"hash":"876264997372162962","title":"Adipogenesis and Cytoskeletal Remodeling","description":"The terms show a clear link to fat cell differentiation (adipogenesis) and cytoskeletal changes, including actin filament bundle assembly and responses to mechanical stimuli, suggesting adipocyte differentiation accompanied by cytoskeletal remodeling. Other signals (mRNA processing, membrane localization, calcium signaling) may reflect broader regulatory processes in differentiating cells, but adipogenesis plus cytoskeletal dynamics is the strongest theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072660","count":1},{"id":"GO:0043488","count":1},{"id":"GO:0045444","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0035508","count":1}]},{"hash":"1043497933207492450","title":"Histone Modification and Transcription Regulation","description":"The prominent GO terms center on histone acetylation, DNA-templated transcription, and regulation of RNA polymerase II, which together point to epigenetic control of gene expression. Some terms in the list are obsolete or broad, but the strongest signal is chromatin modification linked to transcription regulation.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016573","count":2},{"id":"GO:0010196","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0006662","count":1},{"id":"GO:0016032","count":1}]},{"hash":"1639590023263146955","title":"Centromeric Chromatin Assembly and Heterochromatin Formation","description":"The top GO terms are dominated by chromatin-related processes: CENP-A containing chromatin assembly, establishment of protein localization to chromatin, and pericentric/silent mating-type heterochromatin formation, pointing to centromere-associated chromatin organization and heterochromatin maintenance as the cluster theme, with some transcription-related terms as secondary context.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":2},{"id":"GO:0061641","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0055114","count":2},{"id":"GO:1904693","count":1}]},{"hash":"1487637798834092423","title":"Translation Initiation and RNA Splicing Regulation","description":"This cluster\u2019s top GO terms cluster around translation initiation (formation of preinitiation complex, translation reinitiation, IRES-dependent initiation) and miRNA-mediated silencing of translation, with additional, related RNA processing/splicing regulation terms. The common thread is regulation of translation and associated RNA processing steps, suggesting a cohesive role in mRNA-based gene expression control.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:1905663","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0035278","count":2}]},{"hash":"681158098308192269","title":"ER-Golgi trafficking and synaptic maintenance","description":"The top GO terms point to secretory pathway activity (ER to Golgi vesicle transport) and synaptic organization (maintenance of presynaptic active zone), with additional signals of vesicle-associated regulation (positive regulation of GTPase activity) and neuronal context. Some noise terms exist, but the core pattern supports vesicle trafficking coupled with synaptic maintenance.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0000186","count":3},{"id":"GO:0071230","count":3}]},{"hash":"1774976536984809084","title":"Unknown","description":"The top GO terms span very different biological themes\u2014cell division and spindle/kinetochore dynamics, gland formation, neuronal migration, presynaptic structure maintenance, phagosome acidification, and nucleolus localization\u2014without a single dominant function linking all five proteins. This suggests the cluster is heterogeneous rather than representing a cohesive shared function, so a generic Unknown label best fits. ","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0060661","count":2},{"id":"GO:0099139","count":2},{"id":"GO:1903215","count":2},{"id":"GO:0021831","count":2}]},{"hash":"1403374431156669089","title":"Regulation of inflammatory signaling and DNA damage response","description":"The top GO terms show widespread negative regulation of inflammatory signaling pathways (ERK cascade, TNF signaling, MCP-1 production, leukocyte proliferation, neutrophil aggregation) together with DNA damage response and repair processes (nucleotide-excision repair, p53-mediated signaling). This suggests the proteins function to dampen immune/inflammatory signaling while participating in DNA damage response and repair mechanisms.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":2},{"id":"GO:0010804","count":1},{"id":"GO:0043200","count":1},{"id":"GO:0071638","count":1},{"id":"GO:1904706","count":1}]},{"hash":"1669648358054973744","title":"Chromatin organization and transcriptional regulation","description":"The top GO terms focus on nucleosome assembly, heterochromatin organization, chromatin localization to the nucleus, and histone modification, with an additional hint at splicing regulation. Together these point to a cluster of proteins involved in chromatin structure and control of gene expression, making a chromatin-regulatory module a coherent label.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":2},{"id":"GO:0006334","count":1},{"id":"GO:0098532","count":1},{"id":"GO:0071169","count":1},{"id":"GO:0016584","count":1}]},{"hash":"1845623055367099427","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":2},{"id":"GO:0000245","count":2},{"id":"GO:0000480","count":1},{"id":"GO:0000462","count":1},{"id":"GO:0000472","count":1}]},{"hash":"711744443915526771","title":"Muscle regeneration and calcium signaling","description":"This cluster is dominated by GO terms tied to skeletal muscle biology, including satellite cell activation, muscle regeneration, regulation of muscle differentiation, and calcium ion release into the cytosol, all pointing to a muscle-repair and calcium-signaling theme. A few terms (e.g., blastocyst development, germ-line sex determination) appear incidental and do not align with this core function, but the strongest signals consistently indicate muscle-related processes.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001824","count":1},{"id":"GO:0019099","count":1},{"id":"GO:2000676","count":1},{"id":"GO:0051603","count":1},{"id":"GO:0097264","count":1}]},{"hash":"435851503655998483","title":"Diverse solute membrane transporters","description":"These proteins are annotated with a broad set of transmembrane transport GO terms for nitrite, nitrate, phosphate, galactose, sialic acid, vitamins, xenobiotics, potassium, and other solutes, indicating they function as membrane transporters with diverse substrate specificity. The shared theme is transport across membranes rather than a single substrate, so the cluster appears to consist of diverse solute transporter proteins.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0006855","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0071805","count":1}]},{"hash":"672173231535450791","title":"TNF/NF-kappaB Innate Immune Signaling","description":"This cluster is dominated by terms for TNF-mediated signaling, regulation of non-canonical NF-kappaB signaling, and responses to lipopolysaccharide, pointing to innate immune activation and inflammatory signaling. The inclusion of an intrinsic apoptotic pathway in response to p53-mediated DNA damage links immune signaling to cellular stress and fate decisions, while translation initiation and miRNA-mediated silencing terms suggest post-transcriptional regulation during immune responses. An outlier plant hypersensitive response term appears, but the core signal aligns with TNF/NF-kappaB\u2013driven innate immune processes.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0042347","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0042771","count":2},{"id":"GO:0034051","count":2}]},{"hash":"1516283177136957029","title":"RNA processing and ncRNA-mediated translational regulation","description":"The terms cluster around RNA metabolism: mRNA splicing via spliceosome, translation initiation (including IRES-initiated), and ncRNA-mediated gene silencing (miRNA and regulatory ncRNA). Despite obsolete GO entries, the shared theme is RNA processing linked to translational control by ncRNAs.","confidence":"High","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1905663","count":3},{"id":"GO:0001731","count":3},{"id":"GO:1901407","count":3},{"id":"GO:0035278","count":3},{"id":"GO:0075522","count":3}]},{"hash":"1438529797608753433","title":"Calcium Signaling in Muscle Cells","description":"The terms cluster around calcium ion transport and regulation (ER calcium, membrane potential, calcium ion gradients) and links to skeletal muscle contraction, suggesting these proteins participate in calcium handling and excitation-contraction coupling in muscle (and related heart processes). Despite some obsolete terms, the common theme is calcium signaling and membrane excitability in muscle tissues.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051208","count":2},{"id":"GO:0097755","count":2},{"id":"GO:0031448","count":2},{"id":"GO:0033574","count":2},{"id":"GO:0010248","count":2}]},{"hash":"1832072760990398011","title":"Viral life cycle and virion assembly","description":"The top GO terms cluster around viral processes: viral life cycle, virion assembly, host-mediated activation of viral genome replication, and proviral latency, suggesting the proteins function together in viral replication and assembly with host interactions. Some terms (e.g., sepal formation) appear unrelated and may be noise, but the dominant signal points to viral processes.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":1},{"id":"GO:0019058","count":1},{"id":"GO:0019068","count":1},{"id":"GO:0050714","count":1},{"id":"GO:0044829","count":1}]},{"hash":"2161464551388279359","title":"Endocytosis and actin cytoskeleton regulation","description":"Most of the GO terms point to endocytosis and cytoskeletal dynamics, including clathrin-dependent endocytosis, receptor-mediated endocytosis, actin cortical patch assembly, and Arp2/3-mediated actin nucleation regulation. While there are a few outliers related to development and ERAD regulation, the strongest and most cohesive signal is for proteins involved in membrane trafficking and actin remodeling, suggesting this cluster centers on endocytic regulation and cytoskeletal dynamics.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048190","count":1},{"id":"GO:1904294","count":1},{"id":"GO:1901215","count":1},{"id":"GO:0072583","count":1},{"id":"GO:0034316","count":1}]},{"hash":"1547877468740760937","title":"Development and Cytokine Signaling","description":"The terms span developmental processes (chitin-based cuticle, ecdysis, cartilage and lung development) and inflammatory/cytokine signaling (NF-kappaB activation, IL-6/IL-8/IL-1 responses), suggesting proteins involved in development with concurrent immune/cytokine pathway roles, though no single dominant function is evident.","confidence":"Low","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0040003","count":1},{"id":"GO:0051216","count":1},{"id":"GO:0009612","count":1},{"id":"GO:0007250","count":1},{"id":"GO:0070741","count":1}]},{"hash":"37396936600882482","title":"Dendritic cell activation and antigen processing","description":"The dominant terms cluster around dendritic cell function and antigen processing: positive regulation of dendritic cell chemotaxis, phagocytosis, and peptide antigen assembly with MHC class I. Non-canonical NF-kappaB signaling also supports immune activation. While there are additional terms related to vesicle trafficking, cell cycle, and receptor signaling, the immune-related terms best tie the proteins together, suggesting a role in dendritic cell\u2013mediated immune responses and antigen presentation.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048488","count":2},{"id":"GO:1901224","count":2},{"id":"GO:2000510","count":2},{"id":"GO:0050766","count":2},{"id":"GO:0071157","count":2}]},{"hash":"1777410800746651537","title":"Ion transport and membrane potential regulation","description":"The top GO terms cluster around movement of ions and regulation of membrane potential (bicarbonate, chloride, sulfate, and oxalate transport, plus regulation of membrane potential), which points to a set of proteins involved in ion transport or channels. Some terms like sperm capacitation, gastric acid secretion, and sensory perception of sound reflect membrane-associated processes in specific contexts and can be compatible with transporter/secretory roles. A couple of terms (transcription regulation, sporulation) appear less connected and may be noise or multifunctionality. Overall, the dominant theme is membrane transport and potential regulation.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":2},{"id":"GO:0007605","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0015701","count":1},{"id":"GO:1902476","count":1}]},{"hash":"1701437050654681637","title":"Neuronal ion transport and glutamatergic signaling","description":"The top GO terms cluster around ion transport (potassium and calcium) and glutamatergic synaptic transmission, indicating neuronal signaling and ion homeostasis as the core shared function. Flavor-related terms (umami taste, conditioned taste aversion) and sensory development terms (lateral line) suggest sensory pathway involvement, which fits with neuronal signaling themes. Some terms (osteoclast proliferation, GM-CSF response) are less connected but do not override the dominant neuronal/ion transport signal, supporting a coherent but not perfectly uniform theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":1},{"id":"GO:0030818","count":1},{"id":"GO:0006816","count":1},{"id":"GO:0035249","count":1},{"id":"GO:0048915","count":1}]},{"hash":"1639052887610390476","title":"Unknown","description":"The top GO terms are scattered across diverse biological themes (salivary gland formation, arginine transport regulation, Ras signaling, epidermis morphogenesis, neuronal precursor migration, mitochondrial transport, and presynaptic maintenance) with no evident shared function. There are no edges or interactions (edges 0, max degree 0), and some terms appear irrelevant or noisy, so a coherent, specific cluster label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060661","count":1},{"id":"GO:0010963","count":1},{"id":"GO:0046579","count":1},{"id":"GO:0099139","count":1},{"id":"GO:0030521","count":1}]},{"hash":"606180831864421233","title":"RNA processing and translational control","description":"The top GO terms center on post-transcriptional RNA handling and regulation of translation, including formation of translation preinitiation complexes, IRES-dependent translation, and miRNA- or ncRNA-mediated gene silencing, plus spliceosome-related activities such as splicing and complex assembly. Although some terms are obsolete, the shared theme points to involvement in RNA metabolism and control of gene expression at the RNA level.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:1905663","count":1},{"id":"GO:1901407","count":1},{"id":"GO:0035278","count":1},{"id":"GO:0075522","count":1}]},{"hash":"899948064211445961","title":"Unknown","description":"The terms cover a broad set of developmental and general cellular processes (development of glands and neuron migration, maintenance of synaptic structure, cytoskeletal regulation, mitotic spindle attachment, phagosome acidification, nucleolar localization, Golgi organization, chemotaxis, and cell proliferation). With only five proteins and no connecting edges, there isn\u2019t a clear, shared function tying them together into a cohesive cluster label, so Unknown is most appropriate.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060661","count":3},{"id":"GO:0021831","count":3},{"id":"GO:0048790","count":3},{"id":"GO:0051496","count":3},{"id":"GO:0051988","count":3}]},{"hash":"1090053681360292808","title":"Bacterial membrane transport and secretion","description":"The GO terms cluster around various membrane transport activities (xenobiotic, phospholipid, carbohydrate, methionine, taurine, monoatomic anions) and protein secretion via Type I systems, with hints of bacteriocin immunity and SOS-stress response. This combination suggests a cohesive set of bacterial membrane transporters and secretion-related proteins.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030253","count":5},{"id":"GO:0030153","count":5},{"id":"GO:0015910","count":5},{"id":"GO:0006855","count":5},{"id":"GO:0009432","count":5}]},{"hash":"2022354657139303182","title":"Brain development and synaptic signaling","description":"The top GO terms cluster strongly around nervous system and brain development, with several entries for synaptic transmission (GABAergic and glutamatergic) and postsynaptic density clustering, suggesting roles in neural differentiation and synapse function. Some peripheral terms (keratinization, apical localization) are present but seem secondary; the dominant signal points to neuronal development and synaptic organization.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0031424","count":2},{"id":"GO:0045176","count":2},{"id":"GO:0051932","count":2}]},{"hash":"1433668435997230857","title":"Stress-Responsive Translation Regulation","description":"The top GO terms cluster around cellular stress signaling and control of protein synthesis, including positive regulation of translation initiation, cytoplasmic translation initiation, and responses to amino acid starvation and nitric oxide, along with regulation of GTPase activity. These collectively suggest a functional theme of adjusting translation and signaling in response to stress. Some terms (e.g., oligodendrocyte development, ethylene stimulus) are less clearly connected and may reflect annotation noise, but the core signals point to stress-driven translational regulation.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903833","count":3},{"id":"GO:0071732","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0019284","count":3},{"id":"GO:0019509","count":3}]},{"hash":"2152047379204167035","title":"Growth factor signaling and immune pathways","description":"The GO terms cluster around signaling events triggered by growth factors (PDGF, tyrosine autophosphorylation) and GTPase signaling (Rho), along with immune-related signaling (Fc receptor signaling, gamma-delta T cell differentiation). This suggests a cohesive theme of cellular communication controlling growth and immune responses.","confidence":"Medium","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0061387","count":5},{"id":"GO:0007266","count":5},{"id":"GO:0060968","count":5},{"id":"GO:0007099","count":5},{"id":"GO:0045425","count":5}]},{"hash":"582937389318648975","title":"Vesicle trafficking and protein targeting","description":"The GO terms show a clear emphasis on intracellular transport and targeting, including ER-to-Golgi vesicle transport, protein targeting to vacuoles, phagosomes, and presynaptic vesicle-related organization. Some unrelated or dubious terms appear, likely annotation noise, but the dominant pattern supports vesicle trafficking and organelle targeting as the cluster theme.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006623","count":3},{"id":"GO:0060661","count":2},{"id":"GO:0099139","count":2},{"id":"GO:1903215","count":2}]},{"hash":"1513377028593993927","title":"Transmembrane Ion and Small-Molecule Transport","description":"The top GO terms center on transporting ions and small molecules across membranes (chloride, potassium, monoatomic anions, glycerophosphodiesters) and related processes like intracellular pH changes and xenobiotic transport; even the sperm capacitation term aligns with ion flux across membranes. This cohesive set points to membrane transport functions as the core activity of this protein cluster. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902476","count":3},{"id":"GO:0048240","count":3},{"id":"GO:0051454","count":3},{"id":"GO:0042908","count":3},{"id":"GO:0099133","count":2}]},{"hash":"912087242289521964","title":"Developmental patterning and growth signaling","description":"The proteins appear linked to developmental patterning (anterior/posterior, forebrain, heart AV canal) and growth factor signaling (PDGF), along with phosphorylation/adhesion regulation, suggesting a cluster centered on developmental patterning and growth signaling across lineages.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009952","count":2},{"id":"GO:0033629","count":2},{"id":"GO:0035855","count":2},{"id":"GO:0045425","count":2},{"id":"GO:0030900","count":2}]},{"hash":"1691703335722745393","title":"Nuclear RNA Processing & Transcription Regulation","description":"This cluster is driven by GO terms tied to RNA metabolism in the nucleus: RNA splicing and regulation of alternative splicing via the spliceosome, regulation of transcription by RNA polymerase II, RNA export, and links to protein ubiquitination/deubiquitination that can modulate RNA-processing factors. Some terms (chloroplast mRNA modification, heart morphogenesis) appear, but the dominant signal points to nuclear RNA processing and transcription control with ubiquitin dynamics. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900871","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0003203","count":1},{"id":"GO:0000381","count":1},{"id":"GO:0000122","count":1}]},{"hash":"701669059213759879","title":"Nuclear transcription and RNA processing","description":"This cluster centers on RNA polymerase II\u2013driven transcription, transcription elongation, and DNA-templated transcription, coupled with RNA processing and export steps such as mRNA export from the nucleus and nuclear mRNA surveillance. The presence of these GO terms suggests a cohesive role in nuclear gene expression regulation, with some terms about histone modification appearing as related but less central notes. Overall, the terms point to a transcription-centric, nucleus-based expression program.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016973","count":1},{"id":"GO:0061179","count":1},{"id":"GO:0016578","count":1},{"id":"GO:0043085","count":1},{"id":"GO:0006368","count":1}]},{"hash":"29006032727628620","title":"Unknown","description":"The terms span vascular development, actin filament capping, hormone secretion, developmental patterning, synaptic signaling, B cell differentiation, social behavior, engulfment of apoptotic cells, tyrosine autophosphorylation, and PDGF response; there is no single cohesive function tying these together, and there are no edges, so the cluster appears functionally heterogeneous.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001568","count":1},{"id":"GO:0051016","count":1},{"id":"GO:0060124","count":1},{"id":"GO:0009952","count":1},{"id":"GO:2000969","count":1}]},{"hash":"312032919540702116","title":"Polysaccharide and sugar-nucleotide biosynthesis","description":"The cluster\u2019s top terms are dominated by biosynthetic processes for sugars and glycan components (colanic acid, lipopolysaccharide core, dTDP-rhamnose, GDP-mannose, ADP-L-glycero-beta-D-manno-heptose, galactose metabolism), plus related polymer biosynthesis like poly-hydroxybutyrate. While a couple terms reference plant secondary metabolism (anthocyanin/phenylpropanoid), the shared theme is production of carbohydrate-based macromolecules and sugar donors, suggesting a cohesive label around polysaccharide and sugar-nucleotide biosynthesis.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0042619","count":2},{"id":"GO:0009242","count":2},{"id":"GO:0019305","count":2},{"id":"GO:0009718","count":2}]},{"hash":"157012063573427231","title":"Vascular development and tissue morphogenesis","description":"GO terms show a focus on venous vascular development and regulation of VEGF signaling, with supporting developmental and adhesion terms, suggesting a developmental/morphogenesis program centered on vascular formation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060841","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0060288","count":2},{"id":"GO:0007275","count":2}]},{"hash":"107135141827575736","title":"RNA processing and translation regulation","description":"Top GO terms indicate a focus on RNA metabolism and control of gene expression, including mRNA splicing via the spliceosome, ncRNA-mediated gene silencing, and translational initiation mechanisms (preinitiation complex formation and IRES-dependent initiation). This points to a cluster of proteins involved in RNA processing and regulation of translation, despite some obsolete terms. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905663","count":1},{"id":"GO:0001731","count":1},{"id":"GO:1901407","count":1},{"id":"GO:0035278","count":1},{"id":"GO:0075522","count":1}]},{"hash":"1969346124994284537","title":"Osteoclast differentiation and actin remodeling","description":"Most terms converge on osteoclast biology and cytoskeletal remodeling. The cluster highlights osteoclast development, podosome assembly (actin-rich structures), actin filament branching, and signaling pathways that regulate these processes (ephrin, EGFR, Wnt/ERK) as well as ubiquitination. This pattern suggests a functional theme of osteoclast differentiation driven by cytoskeletal dynamics.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043366","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0071803","count":3},{"id":"GO:0036035","count":3},{"id":"GO:0090263","count":3}]},{"hash":"2174444721789354640","title":"Deubiquitination and Proteostasis","description":"The GO terms are dominated by protein deubiquitination (and aggresome assembly), suggesting a proteostasis-focused cluster; the remaining terms point to broader housekeeping processes (cytoskeleton organization, mitosis, RNA processing, transcription, and repair) that may reflect general cellular maintenance rather than a single cohesive pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044313","count":2},{"id":"GO:0070842","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0016579","count":2},{"id":"GO:1903071","count":2}]},{"hash":"27233617098539837","title":"Organ morphogenesis and tissue differentiation","description":"The GO terms cluster around differentiation and development across multiple tissues and organs (fat cells, heart, cartilage/chondroblasts, pancreas, eye) plus developmental processes like pupariation and feeding behavior, indicating a broad program of organ morphogenesis rather than a single specialized function. This justifies a label focusing on organ morphogenesis and tissue differentiation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0035073","count":1},{"id":"GO:2000288","count":1},{"id":"GO:0009444","count":1}]},{"hash":"2091528515009279002","title":"Actin Cytoskeleton Regulation","description":"The top GO terms cluster around actin dynamics: positive regulation of stress fiber assembly, formin-nucleated actin cable assembly, and actin filament polymerization. This points to actin cytoskeleton remodeling as the shared function of the cluster. A few terms touch on neuronal or developmental contexts (synaptic vesicle exocytosis, presynaptic active zone maintenance, gland formation), which may reflect lineage-specific roles or background noise, but the dominant signal is actin cytoskeleton regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051496","count":4},{"id":"GO:0090338","count":4},{"id":"GO:0030838","count":4},{"id":"GO:2000300","count":4},{"id":"GO:0060661","count":3}]},{"hash":"2066528324914032684","title":"Apoptosis and ubiquitin-mediated protein quality control","description":"The cluster's top GO terms center on regulating cell death (apoptosis and necroptosis) and on post-translational modification and protein quality control (ubiquitination, aggresome assembly). There are additional signals related to immune signaling (TLR regulation) and transcriptional regulation, suggesting a broader stress-response module that links cell fate decisions to protein homeostasis.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0034121","count":2},{"id":"GO:0060544","count":2},{"id":"GO:0071157","count":2}]},{"hash":"1763706734850752065","title":"ER Stress and Membrane Transport","description":"The top GO terms point to endoplasmic reticulum\u2013associated processes (ERAD, ER organization, ER overload response) and a variety of transmembrane transport activities (nitrite/nitrate, xenobiotic, potassium, phosphate). This suggests a theme of ER-related quality control together with transport across membranes, despite no direct interactions among the proteins. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":1},{"id":"GO:0007029","count":1},{"id":"GO:0001649","count":1},{"id":"GO:0006983","count":1},{"id":"GO:0015707","count":1}]},{"hash":"2237802446037356188","title":"GPCR signaling with prostaglandin- and mucus-related responses","description":"The cluster is dominated by GO terms for G protein-coupled receptor signaling, including adenylate cyclase-activating/inhibiting GPCR pathways and GPCR internalization, as well as regulation of opsin- and prostaglandin-related signaling. It also covers downstream effects such as mucus secretion, blood pressure regulation, and immune-related GPCR activity, indicating a cohesive GPCR-centered functional theme. An incidental electron transport chain term might reflect co-purified metabolic proteins rather than core function.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":4},{"id":"GO:0010579","count":4},{"id":"GO:0045777","count":4},{"id":"GO:0070257","count":3},{"id":"GO:0007198","count":3}]},{"hash":"1609562442247283359","title":"Developmental Growth and Transcription Regulation","description":"The GO terms point to multiple developmental processes (forebrain, neural tube, seminiferous tubule, skeletal system development) alongside growth and transcription control (TORC1 signaling, mitotic cell cycle, DNA-templated transcription). A few stress-related terms (cadmium ion response, defense against Gram-positive bacteria) appear ancillary. This suggests a theme of developmental regulation coupled with general cellular growth and transcription control, rather than a single, cohesive pathway.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0038202","count":2},{"id":"GO:0001403","count":2},{"id":"GO:0072520","count":2}]},{"hash":"414823909059779517","title":"Unknown","description":"The top terms include ribosomal RNA maturation (5.8S and LSU rRNA), ER-Golgi vesicle transport, obsolete histone methylation, multiple amino acid catabolic processes, and lens fiber cell differentiation. These span nucleolar ribosome biogenesis, intracellular trafficking, epigenetic modification, metabolism, and a tissue-specific developmental process, with little cohesive functional theme across the cluster. Therefore no single representative function can be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0000463","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0006572","count":1}]},{"hash":"1340236189008422509","title":"Ubiquitin-ERAD Regulation","description":"The majority of GO terms point to ubiquitin-dependent ERAD (ER-associated degradation) and regulation of deubiquitination/ERAD activity, with a few terms related to nuclear membrane reassembly and some developmental terms that are less central. This suggests a cluster centered on ubiquitin-mediated protein quality control and ERAD processes, hence the label.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0060041","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0060613","count":2},{"id":"GO:0006366","count":2}]},{"hash":"348544556548165829","title":"GPCR Signaling and Regulation","description":"This cluster is dominated by GO terms for G protein-coupled receptor signaling and downstream pathways (adenylate cyclase activity, GPCR internalization) including serotonin, prostaglandin, and opsin receptors, plus regulation of mucus secretion and Rho signaling, suggesting a cohesive GPCR-mediated functional theme.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":5},{"id":"GO:0007198","count":5},{"id":"GO:0070963","count":5},{"id":"GO:0002031","count":5},{"id":"GO:0071799","count":5}]},{"hash":"1730998130599936267","title":"Oxidative and heavy-metal stress response","description":"The proteins appear to be linked by a shared theme of cellular responses to oxidative and metal-induced stress, including responses to singlet oxygen, diamide, cadmium ions, and arsenite. Although some GO terms are obsolete in this list, the recurring pattern points to stress signaling and protective adaptation rather than a single specific pathway, indicating a cohesive stress-response module.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043497","count":1},{"id":"GO:0001892","count":1},{"id":"GO:1900427","count":1},{"id":"GO:1903936","count":1},{"id":"GO:1900365","count":1}]},{"hash":"217935701259792849","title":"Opsin-Driven Visual Signaling and Calcium Regulation","description":"The top GO terms cluster around regulation of opsin-mediated signaling and visual perception, with supporting signals from GPCR activity, calcium release, and phosphorylation. This points to proteins involved in photoreceptor/opsin signaling and calcium-mediated modulation, rather than unrelated processes. While there are hints of broader signaling cross-talk (e.g., cAMP and Wnt calcium pathways), the dominant theme is opsin-driven visual signaling and calcium regulation.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0022400","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0043950","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0007507","count":4}]},{"hash":"1538892562766049167","title":"Adipogenesis and cytoskeleton signaling","description":"This cluster centers on fat cell differentiation (adipogenesis) and cytoskeletal dynamics, with several terms pointing to actin filament assembly and cellular mechanotransduction. Additional terms about membrane protein localization, mRNA processing/regulation, and calcium signaling suggest coordinated membrane trafficking and signaling events accompanying adipocyte differentiation and cytoskeleton remodeling. This combination points to a cohesive theme of adipogenesis linked to cytoskeleton and membrane signaling rather than a random mix of processes.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0072660","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0035508","count":2}]},{"hash":"1240598289577438454","title":"Innate antiviral defense and cell-wall polysaccharide biosynthesis","description":"Based on the GO terms, the cluster is enriched for defense response to virus and innate immune response, indicating antiviral defense functions. The accompanying sugar-biogenesis and cell wall organization terms (O antigen biosynthesis, UDP-N-acetylglucosamine and GDP-mannose biosynthesis, glucose-1-phosphate metabolism) point to enzymes involved in assembly/modification of the bacterial cell surface, which often relates to defense against phages or other viruses and interactions with the immune system. This combination suggests a cohesive theme around antiviral defense linked to surface polysaccharide biosynthesis.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0005978","count":1},{"id":"GO:0019388","count":1},{"id":"GO:0046115","count":1}]},{"hash":"1106366888855047114","title":"Chromatin modification and transcription regulation","description":"This cluster centers on histone modifications (H4-K16 acetylation/deacetylation) and DNA-templated transcription, suggesting regulation of gene expression at the chromatin level. The presence of translation initiation terms hints at a broader connection to gene expression control, but chromatin modification and transcription are the strongest signals.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043984","count":2},{"id":"GO:0016575","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0001731","count":2}]},{"hash":"1193488256558022279","title":"Mammary gland transcription and cell-cycle regulation","description":"The terms cluster around transcriptional control (DNA-templated transcription, negative regulation of transcription by RNA Pol II), cell cycle progression and division (cell division, re-entry into mitotic cell cycle, mammary gland epithelial cell proliferation), and lactation-related processes. This suggests a theme of transcription regulation linked to mammary gland development and proliferation. Some terms appear peripheral (late viral transcription, vitamin E response), but they do not override the core connection to mammary tissue transcription and cell-cycle control.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0007595","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0019086","count":1}]},{"hash":"1527974893306915032","title":"Methionine salvage and one-carbon metabolism","description":"The GO terms cluster around choline and betaine catabolism, L-methionine salvage, regulation of homocysteine metabolism, and the S-methylmethionine cycle, which together point to methionine cycling and one-carbon metabolism as the shared theme. The inclusion of pteridine-containing compound metabolism supports a broader link to one-carbon chemistry. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042426","count":2},{"id":"GO:0006579","count":2},{"id":"GO:0071267","count":2},{"id":"GO:0050666","count":2},{"id":"GO:0033528","count":2}]},{"hash":"2029464813924227294","title":"ER-targeted Translation and Protein Targeting","description":"The top GO terms point to translation-related processes (tRNA modification, translational fidelity), and to co- and post-translational targeting of proteins to membranes, particularly via SRP-dependent pathways and ER-associated routes (ER-to-cytosol transport, ER targeting). There are hints of ER quality-control/ERAD involvement, linking translation with proper targeting and degradation if misfolded, plus a few unrelated or broad terms. Taken together, a coherent label is that this cluster centers on translation coupled with targeting and quality-control steps at the endoplasmic reticulum. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046944","count":1},{"id":"GO:0002949","count":1},{"id":"GO:0006450","count":1},{"id":"GO:0022900","count":1},{"id":"GO:0030433","count":1}]},{"hash":"1769838269832813871","title":"Neuronal synapse signaling and spine morphogenesis","description":"This cluster's terms revolve around neuronal communication and structure, notably dendritic spine morphogenesis, regulation of excitatory postsynaptic potential, and sensory perception of sound, pointing to synaptic signaling and spine development as the central theme. Supporting terms like protein dephosphorylation and Rho signaling may reflect cytoskeletal remodeling at synapses, while Golgi localization and ion transport terms could relate to trafficking and ionic balance in neurons. Overall, the dominant theme is neuronal synapse function and structure.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070433","count":2},{"id":"GO:0007266","count":1},{"id":"GO:0035176","count":1},{"id":"GO:0006470","count":1},{"id":"GO:2000463","count":1}]},{"hash":"1272339724092019461","title":"Nucleotide Metabolism and Translesion Synthesis","description":"The cluster is enriched for nucleotide-related processes: ADP biosynthesis, purine ribonucleotide interconversion, AMP salvage, nucleotide phosphorylation, CDP biosynthesis, and ITP metabolism, plus a GO term for error-free translesion synthesis. This suggests proteins tied to maintaining nucleotide pools and DNA damage tolerance. Some development terms appear but likely reflect broader annotation rather than a core developmental program. Overall, the common thread is nucleotide metabolism with a DNA repair/damage-tolerance angle.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070987","count":3},{"id":"GO:0006172","count":3},{"id":"GO:0001889","count":3},{"id":"GO:0015951","count":3},{"id":"GO:0007420","count":3}]},{"hash":"1093941217626722505","title":"Carbohydrate and sugar-acid catabolism","description":"The GO terms are largely about breaking down a variety of sugars and sugar-derived acids (D-xylose, D-glucarate, aldonic acids, N-acetylneuraminate, etc.), pointing to a metabolism-focused cluster centered on carbohydrate degradation. A few terms (water deprivation response, potassium transport) seem peripheral or annotation-noise, but the dominant theme is carbohydrate catabolism. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009414","count":2},{"id":"GO:0009089","count":1},{"id":"GO:0019470","count":1},{"id":"GO:0019877","count":1},{"id":"GO:0019262","count":1}]},{"hash":"1210310222254094122","title":"Neural synapse maturation and learning","description":"The top GO terms center on heterophilic cell-cell adhesion, positive regulation of synapse maturation, and learning, which together point toward neural development and synaptic function. While several terms are obsolete or pertain to non-neural processes (aging, oxidation-reduction, pericardium morphogenesis, mesangial cell development), the synapse- and learning-related terms provide a plausible common theme for the cluster. However, the presence of unrelated terms lowers confidence, so the label is offered with Low confidence.","confidence":"Low","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0090129","count":2},{"id":"GO:0003344","count":2}]},{"hash":"1185888249269900475","title":"Unknown","description":"These proteins touch a wide mix of GO terms (phenylpropanoid metabolism, acetyl-CoA biosynthesis, fatty acid transport, lipoteichoic acid biosynthesis, bioluminescence, seed germination regulation, nonribosomal peptide biosynthesis) with no clear shared function, and the cluster has no edges or interactions, so there is no cohesive theme to name it after. Confidence: None","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009698","count":1},{"id":"GO:0019427","count":1},{"id":"GO:0044539","count":1},{"id":"GO:0008218","count":1},{"id":"GO:0070395","count":1}]},{"hash":"183001650973454313","title":"Lung angiogenesis and epithelial morphogenesis","description":"The top GO terms are dominated by angiogenesis and its regulation, with additional terms pointing to lung development processes (type II pneumocyte differentiation and branching morphogenesis of an epithelial tube) and nitric oxide signaling. This suggests a cluster of proteins involved in vascular development within the lung and related epithelial morphogenesis, rather than a single narrow function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0045765","count":2},{"id":"GO:0043517","count":1},{"id":"GO:0035732","count":1},{"id":"GO:0071346","count":1}]},{"hash":"596983179993213443","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0032196","count":2},{"id":"GO:0006313","count":1},{"id":"GO:0002439","count":1}]},{"hash":"1619452232658308873","title":"Calcineurin-NFAT signaling in development","description":"Most top terms point to regulation of the calcineurin-NFAT pathway (calcium-dependent transcription signaling). Several terms also involve developmental processes such as Schwann cell development and vascular morphogenesis, suggesting calcium-regulated signaling in development. Some terms are unrelated (ascospore formation, chromatin binding regulation), so the link is partial. Overall, the cluster is best described by a calcium-NFAT signaling in development axis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051531","count":2},{"id":"GO:0014044","count":2},{"id":"GO:0032516","count":2},{"id":"GO:0060316","count":2},{"id":"GO:0001569","count":2}]},{"hash":"1109924141252610701","title":"Epigenetic Regulation of Transcription","description":"Proteins in this cluster show a common thread of transcriptional control by RNA polymerase II coupled with histone modification processes (e.g., H4-K20 trimethylation, histone methylation regulation, H3-K9 acetylation) and responses to histone deacetylase inhibitors, pointing to epigenetic regulation of gene expression. Some developmental GO terms are present but the dominant signal ties to chromatin-mediated transcription control.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":2},{"id":"GO:0034773","count":1},{"id":"GO:0035441","count":1},{"id":"GO:0035984","count":1},{"id":"GO:0031060","count":1}]},{"hash":"1741138762412948236","title":"Cytoskeleton Organization and Cell Polarity","description":"The top GO terms point to actin- and cytoskeleton-related processes (actin cortical patch assembly; thin filament assembly; cell shape and polarity maintenance) with related dynamic cellular activities (mitotic cytokinesis, vacuole inheritance). While some terms touch on development or platelet function, the common theme is cytoskeleton organization and its role in cell polarity and shape. Confidence reflects the high-level alignment but heterogeneity suggests a broad cytoskeletal focus rather than a single specific function.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":3},{"id":"GO:0000011","count":3},{"id":"GO:0000281","count":3},{"id":"GO:0070527","count":3},{"id":"GO:0043503","count":3}]},{"hash":"177504651820660907","title":"Collagen Remodeling and Complement Activation","description":"The GO terms are dominated by collagen-related processes (catabolic, biosynthetic, fibril organization) and cell adhesion, indicating extracellular matrix remodeling. In addition, complement activation pathways and chronic inflammatory response point to concurrent immune signaling. Together, these suggest a module centered on collagen/ECM turnover with immune involvement.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007155","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0035264","count":2}]},{"hash":"832407824916332102","title":"Unknown","description":"The top GO terms cover very disparate themes\u2014from methane/methanol metabolism and glycine betaine/choline pathways to cholesterol metabolism and cell division processes (FtsZ-dependent cytokinesis, spindle midzone assembly, cell cycle). With no clear cohesive function or shared pathway among the four proteins (and no edges), there isn\u2019t a single interpretable label to capture the cluster\u2019s biology.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046188","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0015945","count":1},{"id":"GO:0019285","count":1},{"id":"GO:0008203","count":1}]},{"hash":"177605349619546244","title":"Mitotic progression and genome maintenance","description":"The top GO terms cluster around cell-cycle control and genome integrity: G2/M transition, exit from mitosis, chromosome segregation, and nucleotide-excision repair, with supporting ubiquitin-proteasome\u2013mediated protein turnover. While a viral process term is present, the dominant signals point to proteins involved in mitosis and DNA repair, suggesting this cluster represents factors coordinating cell division with genome maintenance.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":2},{"id":"GO:0031146","count":2},{"id":"GO:0007059","count":2},{"id":"GO:0070911","count":2},{"id":"GO:0010458","count":2}]},{"hash":"1544769798990228292","title":"Chromatin organization and nucleosome assembly","description":"This cluster centers on chromatin-related processes: nucleosome assembly and positioning, histone modification, and heterochromatin organization, with proteins destined to chromatin and potential regulation of nucleus size.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":4},{"id":"GO:0098532","count":4},{"id":"GO:0071169","count":4},{"id":"GO:0016584","count":4},{"id":"GO:0070828","count":4}]},{"hash":"328671233419971627","title":"Unknown","description":"These GO terms describe diverse processes including metal ion response (cadmium), telomere maintenance/localization, protein trafficking into host cell cytoplasm, telomere and Cajal body localization regulation, sperm-egg binding, protein quality control, immunoglobulin class switching, cell cycle, and apoptosis regulation. There is no clear common function linking all four proteins; the terms span multiple unrelated cellular processes, suggesting the cluster is not functionally cohesive. Therefore the cluster is best labeled Unknown.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":4},{"id":"GO:1904851","count":4},{"id":"GO:0044053","count":4},{"id":"GO:0032212","count":4},{"id":"GO:1904871","count":4}]},{"hash":"1700163421735901345","title":"Sterol Biosynthesis","description":"The top GO terms are all biosynthetic processes for sterols (brassinosteroid, cholesterol, ergosterol), spanning plants, animals, and fungi. This cross-kingdom pattern suggests the proteins are involved in sterol synthesis or closely related steps, justifying the label Sterol Biosynthesis.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016132","count":1},{"id":"GO:0006695","count":1},{"id":"GO:0006696","count":1}]},{"hash":"12086510635008501","title":"Nucleotide Biosynthesis and Salvage","description":"The GO terms cluster around synthesis and remodeling of nucleotides (ADP biosynthesis, AMP salvage, nucleoside monophosphate phosphorylation, purine ribonucleotide interconversion, ITP metabolism, CDP biosynthesis), indicating a cohesive theme of nucleotide production and recycling. Some development and viral process terms appear as outliers or broader cellular context, but the dominant signal is nucleotide metabolism. ","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006172","count":4},{"id":"GO:0001889","count":4},{"id":"GO:0015951","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0044209","count":4}]},{"hash":"1151419484792868977","title":"Iron ion transport and detoxification","description":"The terms show a clear enrichment for iron handling: iron ion transport, detoxification, siderophore-iron import, and related iron sequestration. Other terms mention stress response and redox processes, which can accompany metal homeostasis. Despite some obsolete terms, the dominant theme across the cluster is iron metabolism and transport.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048147","count":2},{"id":"GO:0006950","count":1},{"id":"GO:0030261","count":1},{"id":"GO:0055114","count":1},{"id":"GO:1990461","count":1}]},{"hash":"822427357414323843","title":"Cell Proliferation and Ribosome Biogenesis","description":"The top GO terms cluster around cell population proliferation, mitotic cell cycle and spindle assembly, multicellular organism growth, and ribosome biogenesis, suggesting a core program of growth and division. Additional terms for ER-Golgi vesicle transport and retrograde transport indicate active secretory pathway activity typical of proliferative cells. Some terms (brain development, androgen receptor signaling) may reflect tissue-specific contexts, but the overarching theme is cellular growth and division machinery. Therefore, the label captures the primary function represented by this cluster.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0008283","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0000747","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0090307","count":3}]},{"hash":"1192830835549742586","title":"ER-Golgi secretory and vesicle trafficking","description":"The top GO terms cluster around transport between the ER and Golgi, Golgi to plasma membrane, endosome-lysosome pathways, and vacuole targeting, all central to the secretory/endomembrane system. Some developmental terms appear, but the repeated pattern points to vesicle trafficking and protein targeting as the core function of this cluster.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034379","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0042461","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0090162","count":2}]},{"hash":"517693569902565713","title":"RNA processing and ncRNA-mediated gene silencing","description":"The terms cluster around RNA metabolism and transcription control: ncRNA-mediated gene silencing, miRNA and pre-miRNA processing, spliceosome-regulated mRNA splicing, and transcriptional regulation terms. This suggests the proteins function together in RNA processing and ncRNA-guided gene regulation rather than a single enzymatic activity.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:1901724","count":1},{"id":"GO:1902219","count":1},{"id":"GO:0006351","count":1}]},{"hash":"1022425740117992746","title":"Unknown","description":"The four proteins show a wide mix of GO terms (ribosome biogenesis, kinase activation, placenta development, transcription regulation, metabolism, nitric oxide biosynthesis, TGF-beta regulation, tetrapyrrole linkage, cell size regulation). There isn't a single coherent function or pathway uniting these terms, so a specific, representative label can't be determined from the provided annotations.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":1},{"id":"GO:0032147","count":1},{"id":"GO:0001890","count":1},{"id":"GO:0032092","count":1},{"id":"GO:0045429","count":1}]},{"hash":"1268738488255296979","title":"RNA processing and translation control","description":"We see a cluster of proteins linked to RNA metabolism and post-transcriptional regulation: mRNA splicing via the spliceosome, translation initiation (including IRES-dependent initiation), miRNA- and ncRNA-mediated silencing, and stress granule localization. Together these terms point to a cohesive theme of RNA processing and control of gene expression at the translational level, including stress-related localization.  ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905663","count":1},{"id":"GO:0001731","count":1},{"id":"GO:1901407","count":1},{"id":"GO:0035278","count":1},{"id":"GO:0075522","count":1}]},{"hash":"249356055105403098","title":"RNA processing and translation control","description":"The GO terms converge on post-transcriptional regulation: mRNA splicing via spliceosome, formation of the translation preinitiation complex, IRES-dependent translation, and ncRNA- or miRNA-mediated silencing. This suggests these proteins are involved in RNA processing and control of translation, despite some obsoletes and broad terms. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905663","count":1},{"id":"GO:0001731","count":1},{"id":"GO:1901407","count":1},{"id":"GO:0035278","count":1},{"id":"GO:0075522","count":1}]},{"hash":"1822055893101509239","title":"GPCR Signaling and Regulation","description":"The top GO terms cluster around G protein-coupled receptor signaling, including GPCR internalization, serotonin/adrenergic receptor pathways, opsin signaling, prostaglandin responses, and downstream modulation via Rho signaling and mucus secretion. This suggests a cohesive theme of GPCR-mediated signaling and its regulatory effects across tissues.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":4},{"id":"GO:0007198","count":4},{"id":"GO:0070963","count":4},{"id":"GO:0002031","count":4},{"id":"GO:0071799","count":4}]},{"hash":"848518997558259123","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018189","count":1},{"id":"GO:0019700","count":1},{"id":"GO:0006364","count":1},{"id":"GO:0008033","count":1},{"id":"GO:1903999","count":1}]},{"hash":"1860937484431292667","title":"Ribosome biogenesis and RNA processing","description":"This cluster features multiple GO terms tied to ribosome assembly and rRNA maturation (maturation of SSU-rRNA, maturation of 5.8S rRNA, ribosomal large subunit biogenesis) and RNA processing (mRNA splicing via spliceosome), suggesting a core theme around ribosome biogenesis and RNA processing. Other terms like ER-Golgi transport and polyubiquitination are present but less central to the cluster's main signal.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0000209","count":2},{"id":"GO:0048568","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0000466","count":2}]},{"hash":"2121389274283380820","title":"Glycolysis and Gluconeogenesis","description":"The top GO terms are dominated by glycolysis- and gluconeogenesis-related processes: canonical glycolysis, fructose catabolic process to GAP, fructose-1,6-bisphosphate metabolism, and gluconeogenesis. This suggests the proteins in the cluster are involved in carbohydrate energy metabolism, converting glucose/fructose through glycolytic steps and back via gluconeogenesis. A few terms (V-type ATPase assembly, protein export from nucleus) are less directly connected and may reflect secondary annotations or regulatory roles. Overall, the cluster appears to represent a carbohydrate metabolic module centered on glycolysis and its reverse pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061621","count":1},{"id":"GO:0070072","count":1},{"id":"GO:0032781","count":1},{"id":"GO:0061624","count":1},{"id":"GO:0006116","count":1}]},{"hash":"1682531122969898434","title":"Skeletal muscle contraction regulation and calcium handling","description":"The GO terms predominantly point to regulation of muscle contraction in skeletal muscle, with both calcium ion transport/handling and membrane potential maintenance (repolarization, electrochemical gradient), which are central to excitation-contraction coupling. A few terms are obsolete or peripheral, but the core theme remains calcium-driven contraction control.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051001","count":1},{"id":"GO:0051208","count":1},{"id":"GO:0097755","count":1},{"id":"GO:0031448","count":1},{"id":"GO:0060003","count":1}]},{"hash":"1061928160953582233","title":"Transmembrane Transport of Ions and Metabolites","description":"The top GO terms point to a shared function of transporting various metabolites and ions across membranes (succinate, malate, citrate, arsenite, potassium, sodium, monoatomic anions) and a general transmembrane transport category, suggesting the proteins work together as transporters. The lone ribosomal large subunit assembly term appears as noise/outlier rather than defining the cluster\u2019s role. This overall pattern supports a transport-focused label.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015744","count":1},{"id":"GO:0015743","count":1},{"id":"GO:0015700","count":1},{"id":"GO:0055085","count":1},{"id":"GO:0006813","count":1}]},{"hash":"165759095271479634","title":"Synaptic adhesion and neural development","description":"This cluster is enriched for terms tied to synapses and neural development: postsynaptic density clustering, glutamatergic synaptic transmission, cadherin- and other cell\u2013cell adhesion, and positive regulation of protein localization to the synapse. While a few terms touch on vascular or kidney development, the dominant theme centers on neuronal synapse organization and neural development.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902897","count":1},{"id":"GO:1902355","count":1},{"id":"GO:0007157","count":1},{"id":"GO:0035249","count":1},{"id":"GO:0007399","count":1}]},{"hash":"186035557548037885","title":"Glycerophospholipid biosynthesis and membrane signaling","description":"The dominant GO terms describe synthesis of core phospholipids (PS, PE, PG) and related lipid signaling (platelet activating factor), with additional terms pointing to membrane trafficking and stress-related membrane potential regulation. This suggests a cohesive cluster centered on phospholipid biosynthesis and membrane homeostasis.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006659","count":2},{"id":"GO:0006655","count":2},{"id":"GO:0006646","count":2},{"id":"GO:0010512","count":2},{"id":"GO:1905711","count":2}]},{"hash":"992701041130650956","title":"Unknown","description":"The GO terms span several unrelated processes (ER tail-anchored protein insertion, root hair elongation, cobalt ion response, various metabolic and regulatory activities) with no coherent shared function, so there isn\u2019t a clear, representative label beyond Unknown. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071816","count":1},{"id":"GO:0048767","count":1},{"id":"GO:0071279","count":1},{"id":"GO:0006003","count":1},{"id":"GO:0010666","count":1}]},{"hash":"1763078127698857017","title":"Polysaccharide biosynthesis and catabolism","description":"Top GO terms span glycogen, glucan, starch, trehalose, maltose, and sucrose metabolism in both biosynthesis and breakdown, plus polysaccharide digestion, indicating a common theme of polysaccharide metabolism rather than a single specific pathway.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":1},{"id":"GO:0005993","count":1},{"id":"GO:0000023","count":1},{"id":"GO:0030980","count":1},{"id":"GO:0005983","count":1}]},{"hash":"1634650614728435512","title":"Actin-based muscle structure and contraction","description":"The cluster\u2019s top GO terms are dominated by actin cytoskeleton processes (nucleation, capping, sarcomere organization, skeletal myofibril assembly) and muscle contraction, indicating the proteins likely participate in actin dynamics underlying muscle structure and function; a few terms touch broader cytoskeletal or neural contexts, but the muscle-related signals prevail. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007270","count":1},{"id":"GO:0051694","count":1},{"id":"GO:0014866","count":1},{"id":"GO:0045010","count":1},{"id":"GO:0045745","count":1}]},{"hash":"952432594653773911","title":"Neural development and synaptic signaling","description":"The top GO terms point to neural development and synaptic regulation (e.g., cochlea morphogenesis, regulation of neuron apoptotic processes, synapse structural plasticity) with associated signaling (Wnt pathway). Some terms about Golgi localization and tight junctions are present, but the dominant pattern involves neural development and synaptic signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010796","count":3},{"id":"GO:0031384","count":3},{"id":"GO:0051683","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0090263","count":3}]},{"hash":"507641954168498968","title":"Unknown","description":"The GO terms span energy metabolism (ATP synthesis coupled electron transport; proton transmembrane transport) and diverse developmental processes (aorta smooth muscle morphogenesis, cuticle and skin development, basement membrane formation, endodermal differentiation, lymphangiogenesis) as well as locomotory behavior, with no clear unifying function for all four proteins. Thus no coherent cluster-level function is apparent.","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0042773","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0060414","count":1},{"id":"GO:0042338","count":1}]},{"hash":"2047652771341285708","title":"Unknown","description":"The GO terms are scattered across antibiotic and nonribosomal peptide biosynthesis, metal ion response, various metabolism and regulatory processes, and even seemingly unrelated organismal processes, with no clear shared function or pathway linking all proteins. Given zero edges and no coherent theme, there isn\u2019t a specific label that meaningfully represents this cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":1},{"id":"GO:0043041","count":1},{"id":"GO:0071279","count":1},{"id":"GO:0006003","count":1},{"id":"GO:0010666","count":1}]},{"hash":"126039516876887454","title":"Neural Development and Axon Guidance","description":"The cluster\u2019s GO terms overwhelmingly point to nervous system development and axon pathfinding (neurogenesis; semaphorin-plexin signaling in axon guidance; corticospinal neuron axon guidance; anterior/posterior axon guidance). Additional terms touch on cell adhesion and lens fiber differentiation, suggesting a broader developmental program that includes neural and ocular tissues. The sparse connectivity (2 edges, no triangles) indicates these proteins may act in related developmental processes rather than a single tightly connected module.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":1},{"id":"GO:2001189","count":1},{"id":"GO:1902287","count":1},{"id":"GO:0070306","count":1},{"id":"GO:0007157","count":1}]},{"hash":"2226053907982758596","title":"Neuroendocrine stress and metabolism","description":"The cluster centers on neuroendocrine signaling and energy regulation, with GO terms tied to GPCR-cAMP signaling activating adenylate cyclase, corticosterone and ACTH-related secretion, blood pressure regulation, thermogenesis, and energy metabolism (e.g., diet-induced thermogenesis, electron transport chain). There are also brain-related terms such as cerebral cortex regionalization and cellular responses to temperature, which together suggest a theme of neuroendocrine control of stress responses and metabolic energy use. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010579","count":2},{"id":"GO:0045777","count":2},{"id":"GO:0022900","count":2},{"id":"GO:0002024","count":2},{"id":"GO:0071502","count":2}]},{"hash":"1977539495168634965","title":"ER-Golgi transport and COPI vesicles","description":"Top terms indicate ER-to-Golgi vesicle transport, Golgi ribbon formation, COPI-coated vesicle budding, ER lumen protein retention, and regulation of protein exit from the ER, with additional hints of secretion (Wnt) and minimal developmental terms. The dominant signal is the secretory pathway and vesicle trafficking between ER and Golgi, suggesting this cluster represents components of the ER\u2013Golgi transport system and Golgi organization rather than unrelated processes.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0090161","count":2},{"id":"GO:0035964","count":1},{"id":"GO:0001893","count":1},{"id":"GO:0032525","count":1}]},{"hash":"885370324783778054","title":"ER-Golgi Trafficking and Wnt Secretion","description":"The GO terms cluster around COPI-coated vesicle budding, ER-to-Golgi transport, ER retention, and Golgi organization, with an emphasis on Wnt protein secretion, indicating a coherent role in the ER\u2013Golgi secretory pathway. Some non-trafficking terms appear, but the dominant signal is vesicle transport and protein export.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035964","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0001893","count":1},{"id":"GO:0032525","count":1},{"id":"GO:0006621","count":1}]},{"hash":"2152688138750456164","title":"Unknown","description":"The GO terms span diverse biology\u2014from development (lens fiber, forebrain), to aging, to cytoskeletal regulation (Arp2/3, microtubule severing), to RNA processing and mitosis\u2014yet there are no network connections and no single shared function tying the proteins together. This makes it inappropriate to assign a specific, representative label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070306","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0034316","count":1},{"id":"GO:0030900","count":1}]},{"hash":"1374150716805375396","title":"Neural and glial signaling regulation","description":"The terms cluster around signaling control in excitable and supporting cells: neural plasticity (long-term potentiation), signaling cascades (calcineurin-NFAT; phosphorylation), glial roles (astrocyte activation; Schwann cell development), and sensory/electrical signaling (phototransduction; cardiac conduction). Together they suggest a cohesive theme of regulating communication in neural and glial contexts, with some cross-talk to sensory and muscle-related signaling. This supports a specific, representative label centered on neural and glial signaling regulation.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051531","count":3},{"id":"GO:0010800","count":3},{"id":"GO:1901844","count":3},{"id":"GO:0007602","count":3},{"id":"GO:0048143","count":3}]},{"hash":"656020614696294050","title":"Unknown","description":"The GO terms show a mix of cardiac electrical activity (atrial and Purkinje cell action potentials), immune and neural development, and endocrine processes, with little overlap tying the four proteins to a single function. This lack of a cohesive theme means no reliable label beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902260","count":1},{"id":"GO:1902259","count":1},{"id":"GO:0043029","count":1},{"id":"GO:0086002","count":1},{"id":"GO:0086047","count":1}]},{"hash":"330666716828019863","title":"GPCR Signaling and Regulation","description":"The top GO terms cluster around G protein-coupled receptor signaling and its regulation, including adrenergic/serotonin receptor pathways, GPCR internalization, opsin- and prostaglandin-related signaling, Rho-mediated signal transduction, and mucus secretion responses, indicating a cohesive GPCR-centric functional theme across signaling, trafficking, and downstream cellular responses.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":4},{"id":"GO:0007198","count":4},{"id":"GO:0070963","count":4},{"id":"GO:0002031","count":4},{"id":"GO:0071799","count":4}]},{"hash":"1356998463713755138","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034145","count":1},{"id":"GO:2000391","count":1},{"id":"GO:2000661","count":1},{"id":"GO:0002756","count":1},{"id":"GO:0071222","count":1}]},{"hash":"1636958795142726473","title":"Cardiac Action Potential and Membrane Potential Regulation","description":"The strongest signals are cardiac-specific membrane dynamics: regulation of resting membrane potential, membrane repolarization, and the cardiac muscle action potential involved in contraction. While there are additional stimulus-response terms (glucose, nicotine, dsRNA, testosterone) and a nervous system theme, the core cluster centers on cardiac excitability and electrical signaling, with ischemia and neural context as peripheral notes. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"nervous system process","top_go_terms":[{"id":"GO:0071333","count":4},{"id":"GO:0043330","count":4},{"id":"GO:0071316","count":3},{"id":"GO:0060075","count":3},{"id":"GO:0051877","count":3}]},{"hash":"1232349517688703331","title":"Nutrient-Triggered Yeast Morphogenesis and GPCR Signaling","description":"The cluster centers on yeast-like morphogenesis (pseudohyphal and invasive growth in response to glucose limitation), implying nutrient-triggered shape changes. It also features GPCR and adenylate cyclase/cGMP signaling components, linking nutrient sensing to signaling cascades, with additional trafficking-related terms (ER exit, surface localization, lysosomal enzyme secretion) that may reflect coordinated protein trafficking during adaptive growth.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000010","count":1},{"id":"GO:0001403","count":1},{"id":"GO:0061060","count":1},{"id":"GO:0070863","count":1},{"id":"GO:0033299","count":1}]},{"hash":"1906842457402069211","title":"Oxidative Detoxification and Glutathione Metabolism","description":"The terms cluster around detoxification and redox homeostasis: cellular oxidant detoxification, glutathione derivative biosynthetic process, and detoxification of nitrogen compounds, with inflammatory response modulation. Together these suggest proteins involved in neutralizing reactive species and maintaining redox balance, including glutathione-related metabolism.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035732","count":4},{"id":"GO:0070458","count":4},{"id":"GO:0060316","count":4},{"id":"GO:0032930","count":4},{"id":"GO:0071222","count":4}]},{"hash":"2062621308331894445","title":"Inflammation-driven redox signaling and lipid mediators","description":"The top GO terms point to innate immune and redox processes: nitric oxide storage, detoxification of nitrogen compounds, oxidant detoxification, superoxide generation, LPS response, glutathione biosynthesis, and prostaglandin biosynthesis. Together they suggest a coherent theme of inflammatory signaling coordinated with antioxidant defenses and lipid mediator production (NO and prostaglandins). The oligodendrocyte development term is less consistent, making the overall theme plausible but not perfect. Confidence: Medium","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035732","count":4},{"id":"GO:0070458","count":4},{"id":"GO:0060316","count":4},{"id":"GO:0032930","count":4},{"id":"GO:0071222","count":4}]},{"hash":"1573243655234850063","title":"Nucleotide and folate metabolism","description":"The GO terms are largely centered on nucleotide and folate biosynthesis and interconversion (purine nucleobase and purine nucleotide biosynthetic processes, tetrahydrofolate interconversion, 10-formyltetrahydrofolate biosynthesis, and related biosynthetic activity). While a couple terms pertain to development or immune regulation, the dominant signal is metabolic biosynthesis related to nucleotides and folate cofactors, suggesting a metabolic module shared by the proteins. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009113","count":1},{"id":"GO:0006164","count":1},{"id":"GO:0035999","count":1},{"id":"GO:0001780","count":1},{"id":"GO:0048702","count":1}]},{"hash":"689658934815540002","title":"Actin Dynamics and Cell Motility","description":"The cluster is dominated by GO terms about actin filament regulation (capping at pointed and barbed ends, actin nucleation regulation, sequestration of actin monomers) and structural assembly (terminal web), plus processes tied to cell movement and membrane organization (wound healing, spreading of epidermal cells, plasma membrane raft polarization). A few terms also touch on vesicle trafficking, which often intersects with actin dynamics. Together these point to a cohesive theme of actin cytoskeleton remodeling driving cell migration and membrane-associated processes.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003400","count":1},{"id":"GO:0051694","count":1},{"id":"GO:0035729","count":1},{"id":"GO:1903689","count":1},{"id":"GO:1903906","count":1}]},{"hash":"1993954661424624156","title":"Mitochondrial Respiratory Chain Assembly and Import","description":"The top GO terms point to assembly of mitochondrial respiratory chain complexes (notably complex IV) and processes for importing/inserting proteins into the mitochondrial inner membrane, with an additionalNote on cytochrome c regulation\u2014together indicating a mitochondria-focused assembly/import functional cluster.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:0090201","count":1},{"id":"GO:0097250","count":1},{"id":"GO:0001302","count":1},{"id":"GO:0045039","count":1}]},{"hash":"1359442514719139244","title":"Synaptic receptor trafficking and signaling","description":"The set clusters around neuronal communication and membrane trafficking: glutamatergic synaptic transmission, receptor recycling, and regulation of endosome size point to proteins involved in synaptic receptor turnover and vesicle routing. General transport and Rho-signaling regulation suggest cytoskeletal and trafficking control, while some regulatory transcription terms imply broader regulatory roles. Overall, these proteins likely participate in synaptic signaling with regulated receptor trafficking.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006810","count":1},{"id":"GO:0060316","count":1},{"id":"GO:0035249","count":1},{"id":"GO:0051036","count":1},{"id":"GO:0006355","count":1}]},{"hash":"481257652519509568","title":"Polysaccharide metabolism (starch, glycogen, trehalose)","description":"The top GO terms cluster around storage and mobilization of complex carbohydrates\u2014glycogen, starch/amylopectin, alpha-glucan, trehalose, maltose, and related sugar metabolism\u2014covering both biosynthetic and catabolic processes, indicating a cohesive polysaccharide metabolism module.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":1},{"id":"GO:0005993","count":1},{"id":"GO:0000023","count":1},{"id":"GO:0030980","count":1},{"id":"GO:0044245","count":1}]},{"hash":"1151949753506483802","title":"Dopaminergic neuronal signaling","description":"These proteins show strong enrichment for neural communication terms: action potential, transmission of nerve impulse, and dopaminergic synaptic transmission, plus inhibitory postsynaptic potentials and related ion transport. The combination points to roles in neuronal excitability and dopamine-mediated synaptic signaling, rather than metabolic or structural processes. Confidence in this label is High.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001508","count":4},{"id":"GO:0043200","count":4},{"id":"GO:2000344","count":4},{"id":"GO:0071805","count":4},{"id":"GO:0051971","count":4}]},{"hash":"149638581675684726","title":"Insect Development and Tissue Differentiation","description":"The top GO terms cluster around developmental processes and tissue differentiation (eye development, axonogenesis, chondrocyte and fat cell differentiation, myoblast proliferation) with insect-specific pupariation indicating metamorphosis, suggesting a cohesive theme of insect development and differentiation across tissues.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904468","count":3},{"id":"GO:0035073","count":2},{"id":"GO:2000288","count":2},{"id":"GO:0009444","count":2},{"id":"GO:2000253","count":2}]},{"hash":"959813234621743538","title":"Glutamatergic Synapse Assembly and Adhesion","description":"The top GO terms emphasize synaptic organization and function (regulation of PSD-95 clustering, glutamatergic transmission, localization to synapse) together with cadherin-mediated cell-cell adhesion, pointing to a neural synapse assembly/adhesion theme. While some terms touch broader developmental processes, the strongest signal is neuronal synapse formation and adhesion.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902897","count":2},{"id":"GO:1902355","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1402674177538752203","title":"Embryonic development and morphogenesis","description":"The top GO terms point to a broad set of embryonic development processes across tissues\u2014placental development, EMT in heart development, pancreatic cell development, left-right patterning, trophoblast differentiation, cartilage morphogenesis, and endocrine system development. This suggests the cluster represents proteins involved in embryogenesis and tissue morphogenesis rather than a single specialized pathway.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060806","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0003323","count":1},{"id":"GO:0060972","count":1},{"id":"GO:0060707","count":1}]},{"hash":"804583438658845487","title":"Unknown","description":"The GO terms cover a wide range of tissue-specific differentiation processes (cerebellar neurons, basophils, pro-T cells, Th2/IL-5 cytokine production, type II pneumocytes, heart development, mammary epithelium), plus an obsolete transcriptional activation term; there is no coherent shared function or pathway linking these proteins, so a single descriptive label cannot be confidently assigned.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021691","count":3},{"id":"GO:0071733","count":3},{"id":"GO:0030221","count":3},{"id":"GO:2000553","count":3},{"id":"GO:2000664","count":3}]},{"hash":"48652987627770657","title":"Histone deacetylation and transcriptional regulation","description":"These proteins show enrichment for histone deacetylation terms (GO:1990619, GO:0034983), pointing to chromatin remodeling and transcriptional control. Additional terms touch on growth and immune-related processes (stem cell proliferation, cardiac muscle growth, MHC II biosynthesis), suggesting a regulatory module where chromatin state influences development and immune gene expression. The deacetylation focus provides a cohesive theme for the cluster.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000648","count":2},{"id":"GO:1990619","count":1},{"id":"GO:0034983","count":1},{"id":"GO:0003247","count":1},{"id":"GO:0035729","count":1}]},{"hash":"1921518569216131557","title":"HDAC-driven chromatin remodeling and stress responses","description":"The top GO terms center on deacetylation activities (peptidyl-lysine deacetylation, histone H3 deacetylation, Hsp90 deacetylation) and heterochromatin formation, pointing to HDAC- and chromatin-remodeling activities. Additional terms describe proteostasis and stress responses (aggresome assembly, type 2 mitophagy) with some developmental contexts (fungiform papilla formation, skeletal muscle regulation), suggesting a broader cluster tied to chromatin regulation and cellular stress adaptation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034983","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0030466","count":3},{"id":"GO:0070932","count":3},{"id":"GO:0009861","count":3}]},{"hash":"1948331958016289927","title":"Developmental Regulation and Differentiation","description":"This cluster shows a preponderance of GO terms tied to developmental processes and cell fate decisions\u2014pituitary gland development, positive regulation of stem cell proliferation, neuron projection development, and erythrocyte differentiation\u2014along with an apoptotic process term. While a few terms appear unrelated (e.g., capsule polysaccharide biosynthetic process, tetrahydrofolate metabolic process), the dominant signal is developmental regulation and differentiation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":2},{"id":"GO:0007568","count":2},{"id":"GO:2000648","count":2},{"id":"GO:0045793","count":2},{"id":"GO:0006915","count":2}]},{"hash":"957380100547312033","title":"Unknown","description":"The GO terms span diverse processes (chromatin silencing regulation, voltage-gated channel activity, cerebellar structure, antibody isotype switching, RNA localization and miRNA processing, plant hormone biosynthesis, and transcription elongation control), with no single cohesive function tying the proteins together, so no informative label other than Unknown.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090055","count":1},{"id":"GO:1905150","count":1},{"id":"GO:0021685","count":1},{"id":"GO:0045190","count":1},{"id":"GO:0051237","count":1}]},{"hash":"709626192201997392","title":"Neural development and morphogenesis","description":"This cluster is dominated by GO terms related to neurogenesis, CNS projection neuron axonogenesis, and dendritic spine morphogenesis, suggesting a core function in neural development and neuronal connectivity. Other signaling terms (PI3K/AKT pathway, tyrosine autophosphorylation) support a broader signaling role, while the few non-neural terms appear incidental; thus the label reflects the primary theme without overstating cross-tissue roles.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":3},{"id":"GO:0021952","count":3},{"id":"GO:0072178","count":3},{"id":"GO:0071688","count":3},{"id":"GO:0001779","count":3}]},{"hash":"2301330970147468855","title":"Neuronal apoptosis and inflammatory signaling regulation","description":"GO terms indicate both positive and negative regulation of neuronal stress responses, including apoptosis pathways, dopamine biosynthesis, and inflammatory signaling, alongside protein modification/degradation processes. This suggests a role in balancing neuronal survival signaling with neuroimmune responses.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903384","count":1},{"id":"GO:2000825","count":1},{"id":"GO:1903181","count":1},{"id":"GO:1903073","count":1},{"id":"GO:0002866","count":1}]},{"hash":"1216358774425639919","title":"Unknown","description":"The terms shown are highly diverse, including nervous system myelin maintenance, fungal lipid/sterol metabolism (ergosterol), unsaturated fatty acid biosynthesis, mitochondrial inheritance, sebaceous gland differentiation, nitric oxide production, nitrate assimilation, ergosterol regulation, chitin-based cuticle development, and cartilage development. There is no clear, singular function or pathway tying these together, so a coherent label is not justifiable from the given data.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":2},{"id":"GO:0006675","count":2},{"id":"GO:0006636","count":2},{"id":"GO:0000001","count":2},{"id":"GO:0001949","count":2}]},{"hash":"1852480521151350003","title":"Neural development and cytoskeletal regulation","description":"This cluster shows several brain/forebrain and lens differentiation terms, suggesting neural/ocular development involvement. The presence of actin and microtubule\u2013associated terms (nucleation regulation, capping, severing) alongside protein ubiquitination and autophosphorylation points to coordinated signaling and cytoskeletal remodeling during development. A few terms (e.g., rRNA processing) appear unrelated noise, but do not override the main developmental and cytoskeletal theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0070306","count":1},{"id":"GO:0007568","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0034316","count":1}]},{"hash":"1482917928332440816","title":"Cell division and neural signaling","description":"The top GO terms are dominated by mitotic processes (spindle localization, chromosome condensation, mitotic nuclear division, cytokinesis), pointing to a core mitosis-related function. The presence of neural crest migration and synaptic transmission terms suggests additional roles in neural development and signaling, though these are less frequent. Overall, the cluster seems centered on cell division with some neural signaling associations, hence the label reflects both aspects. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001755","count":2},{"id":"GO:0000281","count":2},{"id":"GO:0007076","count":2},{"id":"GO:0045840","count":2},{"id":"GO:0040001","count":2}]},{"hash":"1128937828610947619","title":"Mitochondrial Electron Transport and ROS Homeostasis","description":"This cluster centers on mitochondrial respiration: terms like ubiquinol to cytochrome c and cytochrome c to oxygen point to electron transport chain activity, while cytochrome c-heme linkage and apoptosis-related annotations reflect mitochondrial signaling. Added redox and hydrogen peroxide\u2013related terms (redox homeostasis, hydrogen peroxide metabolic process, negative regulation of hydrogen peroxide biosynthetic process) indicate regulation of reactive oxygen species. The occasional photosynthesis term likely reflects plant annotations but does not override the dominant mitochondrial-ROS theme, suggesting a cohesive module of mitochondrial electron transport and redox balance.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0010730","count":1},{"id":"GO:0034465","count":1},{"id":"GO:0006122","count":1},{"id":"GO:0018063","count":1}]},{"hash":"650291453941873384","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms for translation (GO:0006412) and ribosome biogenesis (GO:0042254), plus tyrosyl-tRNA aminoacylation (GO:0006437) and maintenance of translational fidelity (GO:1990145). This points to components of the protein synthesis machinery, including ribosome assembly and translation, with tRNA charging and quality control as key features. Some transcription-related terms and stress responses likely reflect broader cellular regulation present in the proteins but do not override the central role in translation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0042254","count":1},{"id":"GO:0000455","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0006353","count":1}]},{"hash":"1868980938136589576","title":"Cytokinesis and microtubule organization","description":"The cluster centers on cell division and cytoskeletal processes: FtsZ-dependent cytokinesis, cell septum assembly, spindle midzone/pole body assembly, cytoplasmic microtubule organization, and general cell cycle/division terms. A few outliers (translation regulation, neuron differentiation, mechanical sensing) exist but do not outweigh the division-centric theme. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043093","count":2},{"id":"GO:0090529","count":2},{"id":"GO:2000767","count":2},{"id":"GO:0051256","count":2},{"id":"GO:0007049","count":2}]},{"hash":"640895719846051854","title":"Ubiquitin-Proteasome Protein Degradation","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes (SCF-dependent proteasomal degradation, ERAD, polyubiquitination), indicating a shared function in ubiquitin-mediated protein degradation, i.e., the proteasome pathway; a few unrelated terms exist but the core signal is proteostasis via ubiquitination.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0070306","count":2},{"id":"GO:0007568","count":2}]},{"hash":"1351147560729698604","title":"Proteostasis and Protein Quality Control","description":"The cluster is best characterized by terms related to handling and turnover of proteins, including protein unfolding, aggresome assembly, protein processing, and oxidation-dependent protein catabolic processes, which together point to cellular proteostasis mechanisms. Some other GO terms appear more context-specific or broader, but the core signals support a proteostasis theme.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903715","count":3},{"id":"GO:0090305","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0001824","count":3},{"id":"GO:0043335","count":3}]},{"hash":"352131022384035247","title":"RNAP II transcription regulation and ubiquitination","description":"This cluster shows a clear emphasis on RNA polymerase II\u2013driven transcription regulation (initiation and preinitiation complex assembly) together with ubiquitin-related processes (free ubiquitin chain polymerization and protein ubiquitination), suggesting nuclear proteins involved in transcriptional control modulated by ubiquitination. Minor terms related to mRNA export and targeting support a broader nuclear role but do not contradict the core theme. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010994","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0016973","count":1},{"id":"GO:0000209","count":1},{"id":"GO:0006367","count":1}]},{"hash":"730690967042046612","title":"RNA processing and translation regulation","description":"The GO terms cluster around post-transcriptional RNA control: mRNA stability regulation, spliceosome-mediated splicing, formation of translation initiation complexes (including IRES-dependent initiation), and RNA silencing by miRNA and other ncRNAs. This points to a coherent theme of RNA processing and regulation of translation rather than a single enzyme function.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010610","count":3},{"id":"GO:1905663","count":2},{"id":"GO:0001731","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0035278","count":2}]},{"hash":"1394633293289182151","title":"RNA processing and transcription regulation","description":"This cluster is driven by nuclear RNA metabolism activities (mRNA export, pre-miRNA processing, miRNA turnover) and transcription-related processes (DNA-templated transcription and its termination regulation), with accompanying ATP-dependent and helicase activity regulation, pointing to a coherent role in RNA maturation/export and transcription control.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016973","count":2},{"id":"GO:0032781","count":2},{"id":"GO:0051096","count":2},{"id":"GO:1901724","count":1},{"id":"GO:1902219","count":1}]},{"hash":"992153904868210462","title":"RNA Polymerase Transcription Initiation Machinery","description":"This cluster is dominated by GO terms describing assembly of preinitiation complexes and initiation of transcription across RNA polymerases I, II, and III, plus related transcription initiation processes. The core signal is transcription initiation machinery rather than a single RNA polymerase type, with Pol I/II/III-specific terms indicating a shared initiation capability.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051123","count":2},{"id":"GO:1903357","count":1},{"id":"GO:0070898","count":1},{"id":"GO:0006352","count":1},{"id":"GO:0045893","count":1}]},{"hash":"1178408128965254314","title":"Unknown","description":"Top terms are too heterogeneous, spanning neuronal receptor clustering and molybdenum cofactor biosynthesis plus diverse, unrelated processes; there is no single cohesive theme linking these proteins, so a specific function label cannot be assigned.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097112","count":1},{"id":"GO:0006777","count":1},{"id":"GO:0072579","count":1},{"id":"GO:0032324","count":1},{"id":"GO:0018315","count":1}]},{"hash":"902428544087887819","title":"Embryonic Development and Stem Cell Proliferation","description":"Top GO terms center on embryonic development and progenitor/stem cell proliferation (in utero embryonic development, pituitary gland development, neural precursor and primitive erythrocyte differentiation). A couple of metabolic terms (glycerol-3-phosphate catabolic process, thiamine biosynthetic process) may reflect general cellular growth supporting development rather than core specialization. Overall, the cluster seems best described by development and proliferation processes.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":2},{"id":"GO:2000648","count":2},{"id":"GO:2000179","count":2},{"id":"GO:0045793","count":2},{"id":"GO:0046168","count":2}]},{"hash":"271004016742738153","title":"Brain Development and Neurogenesis","description":"The top GO terms cluster around cerebral cortex development, pituitary gland development, and positive regulation of neural precursor and stem cell proliferation, pointing to a brain development and neural progenitor growth theme. Some metabolic terms appear ancillary, but the dominant signal is neural development. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021987","count":2},{"id":"GO:0021983","count":1},{"id":"GO:0007568","count":1},{"id":"GO:2000648","count":1},{"id":"GO:2000179","count":1}]},{"hash":"135281318633991604","title":"Ubiquitination and RNA Processing","description":"This cluster is dominated by GO terms for ubiquitin-related regulation (protein ubiquitination, deubiquitination, histone H2A ubiquitination) and RNA metabolism (RNA splicing, alternative splicing regulation, RNA export), suggesting a shared theme around ubiquitin signaling and post-transcriptional processing. Some terms about chloroplast mRNA modification and heart morphogenesis appear less connected and may reflect annotation noise or multifunctionality, but the core connectivity centers on ubiquitination and RNA processing pathways.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:1900871","count":1},{"id":"GO:0008380","count":1},{"id":"GO:0003203","count":1},{"id":"GO:0000381","count":1}]},{"hash":"830147037691022330","title":"Negative regulation of signaling pathways","description":"Most of the top GO terms point to dampening or modulating signaling, especially in immune contexts (negative regulation of IL-2 signaling, TCR signaling, TLR9 signaling) and cell adhesion signaling, with an additional neural-development angle (cerebellar cortex formation, oligodendrocyte progenitor regulation) and membrane excitability. The presence of the receptor-type protein tyrosine phosphatase signaling term supports a theme of cell-surface\u2013mediated signal modulation. Overall, the cluster seems to group proteins that attenuate signaling across immune and neural contexts.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1902206","count":2},{"id":"GO:0021697","count":2},{"id":"GO:0007185","count":2},{"id":"GO:0050860","count":2},{"id":"GO:0033629","count":2}]},{"hash":"2302779622371844623","title":"Neural Plate Morphogenesis and Cytoskeleton Regulation","description":"The cluster centers on developmental processes such as neural plate development and morphogenesis, with strong signals for cytoskeletal dynamics (localization to cortical microtubule cytoskeleton, regulation of actin cytoskeleton by cell\u2013cell adhesion) and structural remodeling during development. While there are some broader developmental terms (e.g., endothelial proliferation, papilla formation), the dominant theme ties neural plate morphogenesis to cytoskeletal regulation, suggesting the proteins collaborate in shaping tissues through cytoskeletal reorganization.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001840","count":2},{"id":"GO:0072699","count":2},{"id":"GO:0060188","count":2},{"id":"GO:0071681","count":2},{"id":"GO:0090138","count":2}]},{"hash":"858185423684282071","title":"Developmental patterning and morphogenesis","description":"Top GO terms indicate broad involvement in developmental processes across tissues (neural plate development, dorsal identity and dorsal root ganglion development; oviduct development; cuticle pattern formation). The presence of cytoskeletal organization and cell-cell adhesion terms suggests morphogenetic remodeling as a common thread. Taken together, the cluster appears to represent general developmental patterning and morphogenesis rather than a single pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001840","count":2},{"id":"GO:0072699","count":2},{"id":"GO:0071681","count":2},{"id":"GO:0090138","count":2},{"id":"GO:0061198","count":2}]},{"hash":"159493731850283173","title":"Unknown","description":"The top GO terms span unrelated developmental, metabolic, signaling, and immune processes (neurogenesis, genital morphogenesis, triglyceride catabolism, retinoic acid signaling, apoptosis, lithium/LPS responses, complement activation). With zero edges and only dispersed single-term annotations, there is no clear unifying function linking these proteins, so a coherent, specific cluster label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":1},{"id":"GO:0048807","count":1},{"id":"GO:2000098","count":1},{"id":"GO:0019433","count":1},{"id":"GO:0048385","count":1}]},{"hash":"364540927444444852","title":"Unknown","description":"The GO terms are highly diverse with no single functional theme; there is no coherent connection among the terms (and edges are absent), spanning development, organ formation, neuronal migration, synaptic structure, mitotic spindle regulation, phagosome processing, and nucleolar localization. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:0060661","count":1},{"id":"GO:0099139","count":1},{"id":"GO:1903215","count":1},{"id":"GO:0021831","count":1}]},{"hash":"2006909561838507219","title":"Unknown","description":"The top GO terms cover neural signaling, immune regulation, kidney podocyte development, extracellular matrix remodeling, and mitochondrial membrane organization, with no single dominant theme tying them together. With only three proteins and a dispersed function set, a specific cohesive label isn\u2019t evident.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032226","count":2},{"id":"GO:0045861","count":2},{"id":"GO:1900210","count":2},{"id":"GO:2000049","count":2},{"id":"GO:0032623","count":2}]},{"hash":"546040951824818803","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0060056","count":2},{"id":"GO:0042403","count":2},{"id":"GO:0007269","count":2},{"id":"GO:0035719","count":1}]},{"hash":"882713218751807046","title":"Wnt signaling in mesoderm and proboscis development","description":"This cluster\u2019s GO terms are centered on developmental processes, especially Wnt signaling and mesoderm development, with an additional signal of proboscis development. The remaining terms relate to protein localization to the cell surface and lipoprotein receptor particle metabolism, which may reflect receptor trafficking linked to signaling. Overall, the proteins appear to participate in developmental signaling pathways during tissue/organ formation.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032799","count":1},{"id":"GO:0016055","count":1},{"id":"GO:0007498","count":1},{"id":"GO:0048728","count":1},{"id":"GO:0034394","count":1}]},{"hash":"1818964396420047661","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035719","count":1},{"id":"GO:0006458","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0036494","count":1}]},{"hash":"66540060552812524","title":"RNA splicing and editing","description":"This cluster is best characterized by terms tied to post-transcriptional RNA processing: RNA splicing, regulation of alternative mRNA splicing via the spliceosome, pre-miRNA processing, and adenosine-to-inosine RNA editing, with supporting signals from RNA modification and degradation processes (mRNA cap methylation and rRNA catabolic activity). While there are a few outliers related to neural traits or innate immunity, the predominant theme is RNA maturation and regulation after transcription.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097309","count":1},{"id":"GO:0006382","count":1},{"id":"GO:0016075","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0061744","count":1}]},{"hash":"2040132483388693696","title":"Innate Immune Cytokine Regulation and NF-kB Signaling","description":"The top GO terms are dominated by regulation of cytokine production (IL-13, IL-5, TNF) and non-canonical NF-kappaB signaling, plus LPS-mediated signaling, all pointing to innate immune response modulation via NF-kB pathways. A few terms (axon guidance, angiogenesis, viral mRNA export) are less directly connected, suggesting pleiotropy, but the core signal centers on immune cytokine regulation and NF-kB signaling.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000666","count":1},{"id":"GO:0038061","count":1},{"id":"GO:0033564","count":1},{"id":"GO:2000663","count":1},{"id":"GO:0072660","count":1}]},{"hash":"1652967176434044951","title":"Antiviral innate immune signaling","description":"These proteins cluster around innate immune response and antiviral defense, with top GO terms highlighting defense against virus and positive regulation of NF-kappaB signaling. While a few terms in the list relate to other processes (stress granule localization, heart development), the strongest and most coherent theme is antiviral innate immunity driven by NF-\u03baB signaling.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0051607","count":2},{"id":"GO:1903608","count":1},{"id":"GO:0098904","count":1}]},{"hash":"1428166182772962031","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098504","count":1},{"id":"GO:1904355","count":1},{"id":"GO:0051973","count":1},{"id":"GO:0016311","count":1},{"id":"GO:0016032","count":1}]},{"hash":"285913464027936077","title":"Unknown","description":"The GO terms span diverse catabolic pathways (amino acids and various sugars) and separate biosynthetic processes for vitamins K1/K2, plus cell wall remodeling and an insect development term, with little unifying function across the set. This suggests no single coherent function defining the cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":1},{"id":"GO:0016998","count":1},{"id":"GO:0019394","count":1},{"id":"GO:0009063","count":1},{"id":"GO:0071555","count":1}]},{"hash":"460101247265856901","title":"Lectin-mediated innate immunity and complement activation","description":"These GO terms converge on innate immune recognition through C-type lectin receptors and the lectin pathway of complement activation, plus leukocyte adhesion and inflammatory signaling (e.g., basophil activation, arachidonate secretion, responses to fungal origin). A few kidney development terms may be annotation noise, but the dominant signal points to lectin-mediated immune function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050901","count":1},{"id":"GO:0071226","count":1},{"id":"GO:0002223","count":1},{"id":"GO:0072287","count":1},{"id":"GO:0090238","count":1}]},{"hash":"1036801771511198053","title":"Viral integration and proviral latency","description":"The top GO terms cluster around viral genome processing: DNA recombination and integration, RNA-templated DNA biosynthesis, viral penetration into the host nucleus, and establishment of integrated proviral latency, plus related host RNA interference interactions (negative regulation of siRNA processing). Together, these point to a shared function of viral genome integration and latency in the host, with some host\u2013symbiont interaction terms that may reflect broader host-viral dynamics.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903704","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2}]},{"hash":"1712417142883409782","title":"Neuroendocrine signaling and synaptic regulation","description":"The terms cluster around brain endocrine control and neural signaling: secretion of corticotropin and growth hormone, corticosterone regulation, CRH response, calcium signaling linked to synapse maintenance, and motor learning; with supportive hints of cerebral cortex development. This points to a cohesive theme of neuroendocrine communication and synaptic function in the brain, with a few developmental terms that fit this overarching context.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019953","count":1},{"id":"GO:0032792","count":1},{"id":"GO:2000852","count":1},{"id":"GO:0051458","count":1},{"id":"GO:0021796","count":1}]},{"hash":"782468642496004407","title":"GPCR Signaling","description":"Top GO terms converge on G protein-coupled receptor signaling and downstream pathways (adenylyl cyclase activity, GPCR internalization, Rho signaling, opsin and prostaglandin responses), with additional hints toward mucus secretion regulation. This suggests the cluster represents GPCR-mediated signal transduction and its physiological outputs.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070257","count":3},{"id":"GO:0007198","count":3},{"id":"GO:0070963","count":3},{"id":"GO:0002031","count":3},{"id":"GO:0071799","count":3}]},{"hash":"1330834943588628416","title":"Proteoglycan Biosynthesis and ECM Adhesion","description":"The top GO terms cluster around proteoglycan biosynthesis (chondroitin sulfate and heparan sulfate) and processes related to lens transparency and cell adhesion, pointing to extracellular matrix composition and cell-matrix interactions as the core function of this cluster. Some broader terms (thyroid hormone metabolism, insulin response) may reflect additional regulatory connections but do not outweigh the proteoglycan/ECM theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036438","count":2},{"id":"GO:0034116","count":2},{"id":"GO:0050892","count":2},{"id":"GO:0050901","count":2},{"id":"GO:0060352","count":2}]},{"hash":"1893449271573780199","title":"GPCR Signaling and Neuronal Modulation","description":"The top GO terms point to G protein-coupled receptor signaling, including serotonin receptor pathways that inhibit adenylate cyclase, GPCR internalization, and downstream effects like prostaglandin responses and Rho signaling. This aligns with locomotory behavior and neuromodulation, suggesting a cluster centered on GPCR-mediated signaling in neurons, with some trafficking-related terms reflecting receptor processing and trafficking.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0006465","count":1},{"id":"GO:0045047","count":1},{"id":"GO:0070257","count":1}]},{"hash":"1150353359815840747","title":"Rho signaling and growth regulation","description":"The top GO terms cluster around regulation of cell growth and Rho-mediated signal transduction, with supporting terms related to growth factor responses, tyrosine autophosphorylation, and various signaling pathways in immune and neural contexts. While there are several diverse processes listed, the unifying theme appears to be signaling networks that modulate cell growth and responses to external stimuli, potentially linking cytoskeletal dynamics and cell-cycle aspects like centriole replication. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0061387","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0060968","count":3},{"id":"GO:0007099","count":3},{"id":"GO:0045425","count":3}]},{"hash":"1122166571886055535","title":"Lipid metabolism and membrane biogenesis","description":"The top GO terms cluster around lipid production and sterol-related pathways (unsaturated fatty acid biosynthesis; ergosterol and glycosphingolipid metabolism; sebaceous gland and myelin maintenance), plus related androgen metabolism and membrane-associated processes. While there are a few peripheral terms (nitric oxide/nitrate metabolism, mitochondrial inheritance), the dominant signal points to lipid metabolism and membrane biogenesis as the common theme of this cluster.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":2},{"id":"GO:0006636","count":2},{"id":"GO:0000001","count":2},{"id":"GO:0001949","count":2},{"id":"GO:0006809","count":2}]},{"hash":"137136969954857950","title":"Unknown","description":"The three proteins show a highly diverse set of GO terms, including immune defense, glucose response, angiogenesis, transcription, and various signaling and cell-cycle processes, with no clear, shared function or pathway tying them together. This diversity suggests there is no cohesive biological theme for this cluster.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0071333","count":2},{"id":"GO:0045766","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1847007683896801711","title":"Actin Cytoskeleton Regulation","description":"The strongest signals are actin-related processes: actin rod assembly and positive regulation of actin filament depolymerization, complemented by protein dephosphorylation, which together point to dynamic regulation of the cytoskeleton. Other terms (testosterone response, various biosynthetic catabolic processes) appear ancillary or noisy, so the core theme is cytoskeletal regulation rather than a single cohesive metabolic pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0097755","count":3},{"id":"GO:0033574","count":3},{"id":"GO:0046050","count":3},{"id":"GO:0006470","count":3},{"id":"GO:0031247","count":3}]},{"hash":"92664969099088228","title":"Unknown","description":"The GO terms span antibacterial response, bacterial flagellum organization, membrane targeting and various transports, ER stress response, plant hormone transport, and cell division, with no single coherent function tying the cluster together, and the lack of edges suggests heterogeneity or noise. Therefore a specific label can\u2019t be confidently assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0044781","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0036498","count":1}]},{"hash":"449062635462193071","title":"Amino acid and polyamine metabolism","description":"Top GO terms predominantly point to biosynthesis and catabolism of amino acids (lysine, ornithine, proline) and related metabolites (putrescine, GABA), along with biosynthetic processes for biotin and ectoine and even antibiotic biosynthesis. This shared theme indicates the cluster represents amino acid metabolism and related pathways, including polyamine turnover. ","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010121","count":2},{"id":"GO:0009089","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0009447","count":2}]},{"hash":"1005618050321126708","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030183","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0097680","count":1},{"id":"GO:0030217","count":1},{"id":"GO:0045002","count":1}]},{"hash":"1660558271516716962","title":"GPCR signaling and trafficking","description":"The terms center on G protein-coupled receptor signaling, including adenylate cyclase\u2013related pathways (activation and inhibition), GPCR internalization, and downstream effects like Rho signaling, plus related responses such as mucus secretion and prostaglandin responses. This points to a coherent theme of GPCR signaling and its regulation/trafficking.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070257","count":1},{"id":"GO:0007198","count":1},{"id":"GO:0070963","count":1},{"id":"GO:0002031","count":1},{"id":"GO:0071799","count":1}]},{"hash":"1163520715892513671","title":"Metal ion and chemical stress response","description":"The top GO terms cluster around responses to a range of chemical and metal stresses (aluminum, cadmium, arsenic, cobalt), plus broader stress signals like ethanol, amino acids, glucocorticoids, and ionizing radiation, with a minor link to heme biosynthesis. This suggests the proteins work together in detoxification and metal ion homeostasis under chemical stress rather than a single, narrowly defined function.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043200","count":2},{"id":"GO:0045471","count":2},{"id":"GO:0010044","count":2},{"id":"GO:0046686","count":1},{"id":"GO:0046685","count":1}]},{"hash":"663868858983273351","title":"Unknown","description":"The GO terms are scattered across diverse metabolic processes (phenazine biosynthesis, nicotinamide/nicotinate metabolism, various catabolic processes, nitrogen utilization) and unrelated DNA-related terms (negative regulation of DNA amplification, replicative aging) with no clear shared function. Because there is no cohesive theme or evident functional linkage, a reliable, specific label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002047","count":1},{"id":"GO:1904524","count":1},{"id":"GO:0006769","count":1},{"id":"GO:0019740","count":1},{"id":"GO:0001302","count":1}]},{"hash":"1508464994865386813","title":"Ubiquitin-dependent proteolysis and DNA damage response","description":"The top GO term is ubiquitin-dependent protein catabolic process, suggesting these proteins function in ubiquitin-mediated protein turnover. Additional terms point to genome maintenance and cell fate decisions, including DNA damage recognition, apoptosis, and cell cycle checkpoint signaling, indicating a module where proteolysis coordinates DNA damage response and cell-cycle control. Some terms may reflect broader regulatory roles, but the central theme appears to be proteolysis linked to genome integrity and cell-cycle regulation.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0046621","count":1},{"id":"GO:0043045","count":1},{"id":"GO:0000715","count":1},{"id":"GO:0043029","count":1}]},{"hash":"66143657460661462","title":"Renal filtration and tubular transport","description":"This cluster centers on kidney-related processes: glomerular filtration, transepithelial water transport, urea and potassium ion transport, and metanephric (nephron) development, all pointing to renal function and urine formation. A few terms touch other systems, but the dominant themes indicate kidney physiology, so the label captures the core function. ","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046878","count":1},{"id":"GO:0071805","count":1},{"id":"GO:0003094","count":1},{"id":"GO:0035377","count":1},{"id":"GO:0035378","count":1}]},{"hash":"790817158834908858","title":"Drosophila eye and antennal development regulators","description":"The GO terms cluster around insect sensory organ development (antenna and eye/photoreceptor) and transcriptional regulation, pointing to transcription factors coordinating eye/antenna development in Drosophila.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0007469","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0045316","count":1},{"id":"GO:0035073","count":1}]},{"hash":"2100297259050134064","title":"Unknown","description":"The GO terms are diverse, including chorion development, heat\u2011shock chromosome puffing, cytokinesis, nucleolus organization, NHEJ-mediated DSB repair, DNA biosynthesis, V(D)J recombination, SMAD signaling, and X\u2011ray response. Because there is no single cohesive function dominating the cluster, it cannot be confidently labeled with a specific biological theme.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060717","count":1},{"id":"GO:0035080","count":1},{"id":"GO:0000910","count":1},{"id":"GO:0007000","count":1},{"id":"GO:0097680","count":1}]},{"hash":"85976398344261108","title":"Unknown","description":"There are no GO terms listed for this cluster (Top Terms empty) and there are no edges or triangles, indicating no detected shared function or interaction signal among the proteins. Without common annotations or connections, I cannot infer a coherent function category. Therefore, the cluster is labeled Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"14958513965954914","title":"Transmembrane Transporters for Ions and Metabolites","description":"Based on the GO terms, these proteins participate in transporting a variety of substrates across membranes\u2014succinate, malate, citrate, arsenite, and common ions (K+, Na+)\u2014as well as general and regulatory transmembrane transport. The shared theme is membrane-embedded transport activity with diverse substrates, suggesting a cohesive cluster of transport proteins.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015744","count":1},{"id":"GO:0015743","count":1},{"id":"GO:0015700","count":1},{"id":"GO:0055085","count":1},{"id":"GO:0006813","count":1}]},{"hash":"941271393254966327","title":"Neuronal excitability and synaptic signaling","description":"The top GO terms are dominated by neuronal activity: action potential, regulation of nerve impulse transmission, dopaminergic synaptic transmission, inhibitory postsynaptic potential, and potassium ion transport. These collectively point to neural signaling and excitability, with a few outliers such as acrosome-related terms, which do not override the main theme. ","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001508","count":1},{"id":"GO:0043200","count":1},{"id":"GO:2000344","count":1},{"id":"GO:0071805","count":1},{"id":"GO:0051971","count":1}]},{"hash":"1960446340234182957","title":"Unknown","description":"The GO terms are highly diverse (transcription, tissue development, innate immunity) and there are no interactions between proteins (edges 0), making it hard to infer a single shared function. This cluster does not show a coherent theme to label beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:1902855","count":1},{"id":"GO:0016570","count":1},{"id":"GO:0060613","count":1},{"id":"GO:0045087","count":1}]}]