[{"hash":"951141472104158069","title":"Neural Development and Forebrain Formation","description":"This cluster is dominated by GO terms related to brain and nervous system development (brain development, neural tube closure, forebrain development, nervous system development). While there are a few secondary signals (ER stress\u2013induced apoptosis, innate immune signaling), the core theme ties to neural development and forebrain formation.","confidence":"Medium","size":29,"edges":245,"triangles":1009,"max_degree":28,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0001843","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0070059","count":3}]},{"hash":"2103541161820586439","title":"Dendritic spine morphogenesis and synaptic plasticity","description":"This cluster is dominated by GO terms tying to synapse formation and function: dendritic spine morphogenesis, regulation of synaptic plasticity (positive regulation of excitatory postsynaptic potential, long-term synaptic depression), and regulation of Rho signaling, which links to cytoskeletal remodeling critical for spine development. While a few terms touch on social or vocalization behavior, the strongest signals point to neuronal connectivity and plasticity as the shared function of these proteins.","confidence":"High","size":29,"edges":159,"triangles":437,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0071625","count":6},{"id":"GO:0051835","count":6},{"id":"GO:0060292","count":6},{"id":"GO:2000463","count":6}]},{"hash":"1240116542814230309","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":380,"triangles":3065,"max_degree":28,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0042273","count":13},{"id":"GO:0000472","count":11},{"id":"GO:0000480","count":11},{"id":"GO:0000463","count":10},{"id":"GO:0000466","count":10}]},{"hash":"1413147591649897629","title":"Virus-host interactions and viral replication","description":"This cluster combines GO terms tied to viral life cycle steps (virion assembly, viral budding, viral release, proviral latency) with host-cell processes (DNA-templated transcription, mRNA splicing, miRNA catabolic process) and symbiont-related interactions, suggesting proteins involved in virus-host manipulation and the viral replication cycle. The presence of ESCRT-mediated budding and host apoptosis activation further supports a theme of viruses co-opting host machinery, rather than a purely host-centered function.","confidence":"High","size":29,"edges":303,"triangles":1722,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0010587","count":6},{"id":"GO:0000398","count":6},{"id":"GO:0030260","count":5},{"id":"GO:0039702","count":5}]},{"hash":"413749516996077744","title":"Neural development with ER-stress\u2013induced apoptosis","description":"The dominant signals are neural development (forebrain development, neural tube closure) and transcriptional control, combined with ER-stress\u2013driven intrinsic apoptosis and cell-cycle processes. This suggests a module of genes coordinating neural development with stress responses and proliferation, with proteostasis (ERAD) involved under stress. Confidence: Medium","confidence":"","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":15},{"id":"GO:0070059","count":12},{"id":"GO:0030900","count":12},{"id":"GO:0000278","count":12},{"id":"GO:0001843","count":12}]},{"hash":"228345873712976687","title":"TLR signaling and innate immune activation","description":"This cluster is dominated by GO terms for Toll-like receptor signaling (TLR1/2/8), MyD88-dependent pathways, and NF-\u03baB\u2013mediated responses, along with defense against bacteria and interferon production. The convergence on TLR signaling and innate immune responses indicates a cohesive function in initiating and modulating innate immunity. Cellular response to chloroquine may reflect related immune modulation. ","confidence":"High","size":29,"edges":393,"triangles":3316,"max_degree":28,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032741","count":29},{"id":"GO:0050830","count":29},{"id":"GO:0034130","count":29},{"id":"GO:0042346","count":29},{"id":"GO:0034134","count":29}]},{"hash":"304510052734608356","title":"Mitotic Cell Cycle with Immune and Reproductive Signaling","description":"This cluster shows a strong emphasis on cell division and mitosis (cell division, mitotic cell cycle) alongside innate immune/interferon responses and some reproductive signaling terms (prostate development, male differentiation, steroid receptor assembly). The dominant pattern is mitotic progression, with co-occurring immune signaling and some steroid-related reproductive signals, so the label reflects the core theme while acknowledging the mixed signals. ","confidence":"Medium","size":29,"edges":256,"triangles":1274,"max_degree":27,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":14},{"id":"GO:0071357","count":13},{"id":"GO:0046661","count":12},{"id":"GO:0030850","count":12},{"id":"GO:0006463","count":12}]},{"hash":"326614105523961937","title":"mRNA Processing and Translation Initiation Regulation","description":"The top GO terms point to post-transcriptional control of gene expression and translation initiation, including mRNA stability under stress, splicing and polyadenylation, mRNA modification, and assembly of translation initiation complexes (eIF4F) with translation reinitiation. This suggests a cohesive module coordinating mRNA maturation and the start of protein synthesis, especially under stress and regulatory RNA influences.","confidence":"High","size":29,"edges":192,"triangles":617,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":21},{"id":"GO:0031047","count":17},{"id":"GO:0006378","count":17},{"id":"GO:0045292","count":17},{"id":"GO:0006446","count":16}]},{"hash":"1718413505503944092","title":"Cytokine signaling and NMDA receptor regulation","description":"The GO terms center on inflammatory signaling (cellular responses to IL-6 and TNF) and modulation of neuronal activity via NMDA receptor regulation, suggesting a core theme of inflammation-related signaling with neuronal function. Additional terms related to ubiquitin-dependent protein turnover indicate broader regulation of protein homeostasis within this signaling context. While there are some developmental terms, the inflammatory and neuronal regulation signals are the strongest cohesive thread. ","confidence":"Medium","size":29,"edges":83,"triangles":90,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0097202","count":3},{"id":"GO:0071354","count":3},{"id":"GO:0071356","count":3},{"id":"GO:2000310","count":3},{"id":"GO:0043162","count":2}]},{"hash":"490152400637448703","title":"Membrane transport and lipid/peptide export","description":"This cluster is dominated by GO terms for transmembrane transport and movement of lipids and peptides (phospholipid translocation, xenobiotic transport, ceramide translocation, oligopeptide export from mitochondrion, bacteriocin transport, cysteine transport), with an additional signal related to immune peptide processing via MHC I, suggesting a core theme of membrane-associated transport and peptide/lipid trafficking. The presence of a mercury ion response may reflect broader stress responsiveness linked to transport processes. Confidence in this thematic label is Medium.","confidence":"Medium","size":29,"edges":179,"triangles":558,"max_degree":23,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045332","count":15},{"id":"GO:0006855","count":14},{"id":"GO:0046689","count":13},{"id":"GO:0090374","count":13},{"id":"GO:0030153","count":13}]},{"hash":"1437671668079775838","title":"Cytoskeletal remodeling and cellular stress responses","description":"This cluster is driven by actin filament bundle assembly and cell migration terms, signaling Cytoskeletal remodeling. It also includes heat response and apoptotic processes, indicating broader cellular stress responses, with additional signals related to telomere maintenance and immune signaling (NOD2). Overall, the theme centers on cytoskeletal dynamics linked to stress and damage responses.","confidence":"Medium","size":29,"edges":7,"triangles":2,"max_degree":3,"top_function":"lysosome organization","top_go_terms":[{"id":"GO:0000083","count":8},{"id":"GO:0070431","count":7},{"id":"GO:0032088","count":7},{"id":"GO:2001275","count":6},{"id":"GO:1904355","count":6}]},{"hash":"263717634414056852","title":"Sarcomere Organization and Muscle Contraction","description":"The cluster is enriched for GO terms related to sarcomere organization, muscle filament sliding and contraction in cardiac and skeletal muscle contexts (including ventricular morphogenesis and fiber-type transitions). This points to a core module of contractile apparatus components and regulators coordinating sarcomere structure and force generation in heart and skeletal muscle.","confidence":"High","size":29,"edges":29,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":3},{"id":"GO:0014883","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0032972","count":2},{"id":"GO:0055010","count":2}]},{"hash":"1887132144570383387","title":"GPCR-Mediated cAMP/cGMP Signaling","description":"Cluster is dominated by GPCR-related signaling and production of second messengers cAMP and cGMP (adenosine/adrenergic receptor pathways, forskolin response), along with blue light signaling and hypoxia detection, all pointing to a coherent GPCR-driven signaling module with intracellular signal transduction and cAMP/cGMP dynamics. The negative regulation of oocyte maturation term also fits the known role of cAMP in maintaining oocyte arrest, supporting a unifying GPCR-cAMP/cGMP theme.","confidence":"High","size":29,"edges":273,"triangles":1396,"max_degree":27,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:1900194","count":21},{"id":"GO:0006171","count":21},{"id":"GO:0070483","count":21},{"id":"GO:1904322","count":21},{"id":"GO:0006182","count":21}]},{"hash":"772322764153888324","title":"Phosphatase-regulated MAPK signaling and cell cycle control","description":"The top GO terms point to negative regulation of signaling pathways (T cell receptor signaling, ERK/MAPK cascade) and direct involvement in dephosphorylation of tyrosine residues, which indicates a cluster rich in protein phosphatases that temper kinase signaling. Additional terms related to cell division processes (meiotic spindle disassembly, kinetochore localization, cell cycle, and septation signaling) suggest these phosphatases also coordinate cell-cycle events. The combination of signaling silencing and cell-cycle regulation supports a cohesive theme centered on phosphatase-driven control of MAPK signaling and cell-cycle progression, even though some terms reflect broader biological contexts. ","confidence":"Medium","size":29,"edges":265,"triangles":1289,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":24},{"id":"GO:0070373","count":24},{"id":"GO:0000200","count":24},{"id":"GO:0035335","count":22},{"id":"GO:2000808","count":18}]},{"hash":"2271654703731664532","title":"Protein and RNA methylation","description":"The cluster is dominated by GO terms for diverse methylation activities across proteins (peptidyl-arginine/lysine methylation, histone methylation) and RNAs (rRNA, tRNA methylation, mRNA capping), suggesting involvement of methyltransferases and RNA processing/modification pathways. Cellular growth and senescence terms may reflect downstream effects of these modification processes. Overall, a coherent theme around methylation-based regulation ties these proteins together.","confidence":"High","size":29,"edges":80,"triangles":44,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0019919","count":14},{"id":"GO:0016049","count":13},{"id":"GO:0090398","count":13},{"id":"GO:0043985","count":13},{"id":"GO:0031167","count":13}]},{"hash":"283250062702245893","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0006413","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0097352","count":1},{"id":"GO:0048702","count":1}]},{"hash":"9265388775380004","title":"Neural development and neurotransmitter transport","description":"This cluster combines terms for CNS development (perineurial glial growth, thalamus development) with multiple neurotransmission-related processes (glycinergic regulation, glycine secretion, dopamine uptake) and amino acid transport (proline, leucine, taurine, leucine). The convergence on neural growth, glial involvement, and amino-acid\u2013mediated signaling suggests a cohesive theme of neural development paired with neurotransmitter transport and regulation.","confidence":"High","size":29,"edges":259,"triangles":1104,"max_degree":27,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042066","count":22},{"id":"GO:1905847","count":22},{"id":"GO:0021794","count":22},{"id":"GO:0015824","count":22},{"id":"GO:0060092","count":22}]},{"hash":"719963352613744260","title":"Thermoception and Nociception Signaling","description":"This cluster is driven by GO terms related to temperature and pain sensing (thermoception, detection of temperature stimulus, detection of mechanical stimulus in pain perception, and response to pain), with calcium ion import indicating neuronal signaling. While vasopressin secretion and heart-related action potential regulation appear as secondary associations, the dominant theme is sensory detection of heat and pain.","confidence":"High","size":29,"edges":4,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1901594","count":26},{"id":"GO:0050966","count":26},{"id":"GO:0098703","count":26},{"id":"GO:0030103","count":26},{"id":"GO:0050960","count":26}]},{"hash":"680145942925522919","title":"Protein deglutamylation","description":"The top GO terms are dominated by C-terminal protein deglutamylation and protein branching point deglutamylation, pointing to a shared role in removing polyglutamylation from substrates. Other terms (insulin processing, liver regeneration, glucose response) are present but less central, so the strongest, most representative theme is deglutamylation activity. Overall, the cluster appears to comprise proteins involved in protein deglutamylation.","confidence":"High","size":29,"edges":26,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035609","count":11},{"id":"GO:0021702","count":10},{"id":"GO:0002002","count":10},{"id":"GO:0010757","count":10},{"id":"GO:0030070","count":10}]},{"hash":"2064791394295213460","title":"Neural development and synaptic regulation","description":"The top GO terms center on retina development and synaptic processes (synapse organization, cholinergic transmission regulation), pointing to nervous system development and signaling. There are also stress-responsive and xenobiotic response terms (glucocorticoid response, xenobiotic stimulus), plus growth regulation, which can intersect neural tissue function. Some terms (floral organ morphogenesis, raffinose biosynthesis) likely reflect cross-species annotation noise. ","confidence":"Medium","size":29,"edges":110,"triangles":179,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":6},{"id":"GO:0051384","count":5},{"id":"GO:0008285","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0048147","count":4}]},{"hash":"1931717524666222468","title":"Proton transport and flagellar motility","description":"Top GO terms cluster around proton transmembrane transport, vacuolar acidification, and energy-related complex assembly, with explicit mentions of bacterial-type flagellum assembly and flagellum-dependent motility. This suggests a common theme of energy generation via proton motive force linked to motility, primarily in bacteria, complemented by related housekeeping processes. Therefore, the label focuses on proton transport and flagellar motility as the core shared function.","confidence":"Medium","size":29,"edges":379,"triangles":3035,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0007035","count":3},{"id":"GO:0015991","count":3},{"id":"GO:0033617","count":3},{"id":"GO:0071973","count":2},{"id":"GO:0001649","count":2}]},{"hash":"2043087368328428725","title":"Innate immune signaling and cell growth","description":"The top terms point to innate immune pathway activity (NOD2 signaling, IL-12 regulation, response to a chemical stimulus) alongside proliferation-related processes (cell cycle, cell growth) and regulatory post-translational modification (protein ADP-ribosylation). A glycerophospholipid catabolic process also suggests membrane remodeling linked to signaling. Together, these suggest a cluster centered on immune signaling intertwined with growth/regulatory responses, hence the proposed label.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046475","count":28},{"id":"GO:1901594","count":28},{"id":"GO:0070431","count":28},{"id":"GO:0043488","count":28},{"id":"GO:0007049","count":28}]},{"hash":"1396270430955555608","title":"Developmental morphogenesis and remodeling","description":"This cluster centers on development- and morphogenesis-related processes, including bone formation/remodeling (intramembranous ossification, bone resorption), organ morphogenesis (lung tube branching), and neural development signals (neural precursor proliferation) with Wnt pathway associations. Although some terms touch on immune or endocrine processes, the dominant theme ties to tissue shaping and developmental remodeling across multiple lineages. ","confidence":"Medium","size":29,"edges":314,"triangles":2027,"max_degree":27,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:2000179","count":19},{"id":"GO:0051603","count":18},{"id":"GO:0045453","count":18},{"id":"GO:0050790","count":18},{"id":"GO:0001957","count":18}]},{"hash":"794791880813159551","title":"ERK-regulated tissue development","description":"Top GO terms cluster around ERK1/ERK2 cascade regulation and diverse organ development (heart, photoreceptors, lung, mammary gland, kidney glomerulus) with associated proliferation and maintenance processes, suggesting these proteins participate in ERK-driven signaling that coordinates multi-tissue development; some terms (defense response, dopamine uptake, visual perception) reflect broader signaling roles but do not override the central developmental theme. ","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":21},{"id":"GO:0007507","count":21},{"id":"GO:0042742","count":19},{"id":"GO:0007601","count":19},{"id":"GO:0045494","count":19}]},{"hash":"1050408057319967851","title":"Complement Activation and Neural Adhesion","description":"This cluster shows enrichment for complement activation pathways (classical, lectin, alternative) and for cell-cell adhesion, synapse assembly, and extracellular matrix organization, suggesting proteins involved in immune signaling as well as neuronal development and ECM interactions. This supports a label focused on immune activity linked to neural adhesion and migration.","confidence":"Medium","size":29,"edges":248,"triangles":1122,"max_degree":24,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006958","count":6},{"id":"GO:0051965","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0007156","count":4},{"id":"GO:0021836","count":4}]},{"hash":"45295813340738867","title":"TGF-\u03b2 signaling in cardiac morphogenesis","description":"Many of the top GO terms cluster around TGF-\u03b2 signaling, including TGF-\u03b2 receptor complex assembly and SMAD phosphorylation, as well as EMT-related processes in endocardial cushion formation and atrioventricular canal morphogenesis, which are key aspects of heart development and trabecula formation. Some terms also reference metanephric kidney development, but the dominant theme appears to be TGF-\u03b2\u2013mediated cardiac morphogenesis and related EMT events. Confidence: Medium","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031953","count":5},{"id":"GO:0072218","count":4},{"id":"GO:0061384","count":4},{"id":"GO:0007181","count":4},{"id":"GO:1905222","count":4}]},{"hash":"695338945938383725","title":"Nervous system development and axon signaling","description":"The cluster is mainly driven by nervous system\u2013related GO terms: peripheral nervous system development, transmission of nerve impulse, clustering of voltage-gated sodium channels, and protein localization to the paranode region of the axon, all pointing to axon biology and neural signaling. While angiogenesis and immune regulation terms appear among the top terms, they seem less central to the core theme and may reflect broader developmental processes or pleiotropy in this protein set. Overall, the dominant signal suggests nervous system development and axonal conduction functions.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043031","count":6},{"id":"GO:0001525","count":6},{"id":"GO:0045765","count":5},{"id":"GO:0045663","count":5},{"id":"GO:0002175","count":5}]},{"hash":"100487605678638647","title":"Intestinal endothelial barrier and microvilli assembly","description":"The top GO terms point to barrier formation in the intestinal endothelium and microvillus organization (e.g., establishment of the endothelial intestinal barrier, microvillus assembly), with supporting signals like VEGF receptor signaling and cAMP-related pathways. Despite no observed edges, the recurring themes suggest a functional cluster centered on intestinal barrier integrity and apical microvilli rather than disparate processes. Some terms (dendrite morphogenesis, cardiac apoptosis) may reflect annotation noise rather than core function.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090557","count":2},{"id":"GO:2000064","count":2},{"id":"GO:0030949","count":2},{"id":"GO:0019933","count":2},{"id":"GO:0033137","count":2}]},{"hash":"367865681460433339","title":"Diverse solute transporters (sugars and ions)","description":"These proteins are strongly linked to membrane transport activities for a range of solutes, including sugars (glucose, xylose, lactose, trehalose), organic acids (sialic acid, urate, ascorbic acid) and inorganic ions (potassium, phosphate). The prominence of diverse transmembrane transport GO terms suggests the cluster comprises solute transporters with broad substrate scope, rather than a single substrate specialty.","confidence":"High","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":29},{"id":"GO:0035435","count":29},{"id":"GO:0015753","count":29},{"id":"GO:0015739","count":29},{"id":"GO:0005989","count":29}]},{"hash":"1908150217510993878","title":"Collagen Fibril Organization and Skeletal Development","description":"The top GO terms are dominated by collagen fibril organization, somite and skeletal system development, and related cell adhesion, indicating a coherent theme of extracellular matrix remodeling and connective tissue/bone formation. Additional terms about neural adhesion and innate immunity may reflect broader tissue remodeling contexts, but the core signal points to ECM- and skeletal-development processes.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":7},{"id":"GO:0043277","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0045087","count":5},{"id":"GO:0061053","count":4}]},{"hash":"2049045982749146918","title":"Osteoimmunology: Immune Remodeling and Inflammation","description":"The cluster shows immune-related terms (immune response, regulation of inflammatory response, B cell proliferation) together with bone remodeling and regulation of bone resorption, plus adhesion and signaling components (cell-matrix adhesion, peptidyl-tyrosine phosphorylation). This pattern suggests osteoimmunology, i.e., immune signaling influencing bone turnover and inflammatory processes.","confidence":"High","size":29,"edges":101,"triangles":88,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":8},{"id":"GO:0045892","count":6},{"id":"GO:0046849","count":5},{"id":"GO:0006955","count":5},{"id":"GO:0030890","count":5}]},{"hash":"673783347685321886","title":"Vascular adhesion and angiogenesis","description":"This cluster is enriched for terms around blood vessel biology: blood vessel remodeling, sprouting angiogenesis, coagulation, and multiple forms of cell adhesion (cell-matrix and cell-cell). Together these suggest proteins involved in endothelial adhesion and angiogenic remodeling; note that memory and obsolete oxidation-reduction terms may reflect annotation noise.","confidence":"Medium","size":29,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0007613","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0007596","count":7},{"id":"GO:0045907","count":6}]},{"hash":"725755078545343701","title":"Olfactory neuron development and axon guidance","description":"The top GO terms strongly point to olfactory system development (olfactory nerve formation, placode morphogenesis) and neural connectivity processes (axon fasciculation and axon extension during guidance, positive regulation of synapse assembly). Together these indicate a cohesive theme of olfactory neuron formation and neural wiring, with a broader context of neural development reflected by related terms. Some peripheral terms (e.g., sprouting angiogenesis, vocalization behavior) exist but do not override the central olfactory/axonal development signal.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0021628","count":3},{"id":"GO:0071699","count":3},{"id":"GO:0007413","count":3},{"id":"GO:0048846","count":3}]},{"hash":"996674038268588571","title":"Regulation of Synaptic Transmission and NMDA Receptors","description":"The top GO terms converge on synaptic organization, modulation of postsynaptic potentials (both inhibitory and excitatory), NMDA receptor activity, and receptor internalization, indicating proteins that modulate synaptic signaling and receptor dynamics rather than basic metabolism. Although a couple of terms are broad, the overall theme centers on neuronal communication at the synapse.","confidence":"High","size":29,"edges":333,"triangles":2276,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0042136","count":25},{"id":"GO:2000331","count":25},{"id":"GO:0090394","count":25},{"id":"GO:2000310","count":25},{"id":"GO:0032223","count":25}]},{"hash":"1384508843547595227","title":"Transmembrane Transporters","description":"This cluster is dominated by GO terms for transporting substances across membranes\u2014ions (K+, Ca2+, Na+), sugars (sialic acid, arabinose, fucose), nitrite, amino acids, and xenobiotics\u2014indicating a group of membrane transporter proteins with a broad substrate range rather than a single substrate or pathway.","confidence":"High","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015739","count":14},{"id":"GO:0071805","count":13},{"id":"GO:1990034","count":11},{"id":"GO:0032973","count":11},{"id":"GO:0035435","count":9}]},{"hash":"567625096378014221","title":"GPCR-Mediated Neuromodulation and Cardiovascular Signaling","description":"The cluster is dominated by GO terms pointing to G protein-coupled receptor signaling affecting neural processes and cardiovascular regulation (dopamine and endocannabinoid signaling, histamine signaling, vasoconstriction, and cardiac contraction), with operant conditioning reflecting neural modulation of behavior. Some terms are broader or peripheral, but the core theme is GPCR-driven signaling in neural and cardiovascular physiology.","confidence":"High","size":29,"edges":371,"triangles":2827,"max_degree":28,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":29},{"id":"GO:0035106","count":29},{"id":"GO:0055117","count":29},{"id":"GO:0031649","count":29},{"id":"GO:1902239","count":29}]},{"hash":"2115569741498761860","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":269,"triangles":1351,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":4},{"id":"GO:0000466","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0000027","count":3},{"id":"GO:1902626","count":3}]},{"hash":"1994171696745384391","title":"Neuronal signaling and maturation regulation","description":"This cluster's GO terms center on neuronal signaling, maturation, and development, including dopamine response, tangential migration in the olfactory bulb, and Wnt signalosome assembly.","confidence":"","size":28,"edges":38,"triangles":19,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1905289","count":14},{"id":"GO:0090394","count":14},{"id":"GO:1905279","count":14},{"id":"GO:1904887","count":14},{"id":"GO:0014041","count":14}]},{"hash":"1986565461731835456","title":"Innate immune and nociception signaling","description":"This cluster is driven by innate immune-related terms such as NOD2 signaling and negative regulation of IL-12 production, along with nociception-related terms like detection of mechanical stimulus involved in pain and response to capsazepine. While there are additional terms related to lipid catabolism and RNA stability, the strongest shared theme appears to be immune signaling intertwined with pain/sensory responses, suggesting a coherent, though not exclusive, functional core. Confidence: Medium","confidence":"","size":28,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046475","count":5},{"id":"GO:1901594","count":5},{"id":"GO:0070431","count":5},{"id":"GO:0043488","count":5},{"id":"GO:1904743","count":5}]},{"hash":"1129332783674257767","title":"Chromatin organization and nucleosome assembly","description":"The terms point to chromatin organization and nucleosome dynamics: heterochromatin formation, nucleosome assembly, localization of proteins to chromatin, and histone methylation patterns, indicating a cohesive theme of chromatin structure and regulation. A couple of outliers (sound perception, LPS response) are present but do not define the cluster.","confidence":"High","size":28,"edges":119,"triangles":208,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0071169","count":6},{"id":"GO:0070828","count":6},{"id":"GO:0080182","count":6},{"id":"GO:0006334","count":6},{"id":"GO:0016584","count":6}]},{"hash":"229168104695627636","title":"SA node cardiac electrical signaling","description":"The top GO terms point to regulation of SA node cell action potentials, membrane depolarization, and intercellular communication in cardiac tissue, plus associated cytoskeletal and membrane maintenance processes. This combination suggests proteins involved in cardiac electrical signaling and cell-to-cell communication, especially in the SA node and atrial cardiac muscle context. A few terms are less central (vitamin D response, transcription regulation), but the dominant signal supports a cardiac electrical signaling theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000083","count":17},{"id":"GO:0033280","count":16},{"id":"GO:0016567","count":16},{"id":"GO:0010650","count":15},{"id":"GO:1900827","count":15}]},{"hash":"986258240441944318","title":"TNF-NF-\u03baB immune signaling and apoptosis","description":"This cluster centers on TNF/NF-\u03baB\u2013driven immune signaling, with interleukin-1\u2013related response and antibody production, and includes extrinsic and execution phases of apoptosis, suggesting a coordinated inflammatory and apoptotic program. ","confidence":"High","size":28,"edges":142,"triangles":272,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043123","count":4},{"id":"GO:0033209","count":4},{"id":"GO:0097202","count":4},{"id":"GO:0032760","count":4},{"id":"GO:0071260","count":4}]},{"hash":"1368905757132042868","title":"Ribosome biogenesis and translation machinery","description":"Dominant GO terms point to ribosome assembly, rRNA processing, snoRNP biogenesis, and translation, defining a ribosome biogenesis/translation cluster. The presence of maturation steps for SSU/LSU rRNA and box C/D snoRNP components supports a core function in producing and translating ribosomes. A few terms (fertilization, splicing regulation) may reflect broader annotations but do not override the ribosome-centric theme.","confidence":"High","size":28,"edges":374,"triangles":3175,"max_degree":27,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":17},{"id":"GO:0042254","count":9},{"id":"GO:0000462","count":5},{"id":"GO:0048025","count":4},{"id":"GO:0000470","count":4}]},{"hash":"970799576625285356","title":"Immune signaling and cell adhesion/migration","description":"The cluster is dominated by innate and adaptive immune signaling (innate immune response; B cell and T cell receptor signaling) and by integrin-mediated signaling, cell migration, and adhesion-related processes, suggesting a cohesive theme of immune cell activation with adhesion and motility. While a few terms like long-term synaptic potentiation and branching in mammary gland morphogenesis are present, they do not define the core function of this cluster. ","confidence":"High","size":28,"edges":121,"triangles":303,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0007229","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0050852","count":4},{"id":"GO:0060291","count":4}]},{"hash":"845918609589523079","title":"Muscle cell signaling and localization","description":"The terms cluster around intracellular signaling and targeted protein localization in muscle-related contexts, including GTPase and TOR signaling, lysosomal and M-band localization, and cardiac/renal membrane-associated processes. This points to a theme of muscle/organ-specific signaling with precise protein targeting, rather than a single unified pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0034260","count":4},{"id":"GO:0030011","count":3},{"id":"GO:1902043","count":3},{"id":"GO:0036059","count":3},{"id":"GO:0006977","count":3}]},{"hash":"771536209925490733","title":"Methionine salvage and choline/betaine metabolism","description":"The top GO terms are dominated by methionine salvage, S-methylmethionine cycle, and choline/betaine catabolism, indicating a core role in methionine salvage and one-carbon/methyl-group metabolism. Some terms related to broader metabolic responses (gluconeogenesis, response to amino acids) likely reflect metabolic context rather than defining a separate pathway. ","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0071267","count":14},{"id":"GO:0033528","count":14},{"id":"GO:0042426","count":14},{"id":"GO:0042558","count":14},{"id":"GO:0050666","count":14}]},{"hash":"911051393450501301","title":"Cardiac electrophysiology and contraction regulation","description":"Several top GO terms point to the heart's electrical activity and contraction, including regulation of SA node action potential, membrane depolarization during cardiac action potentials, and communication between SA node and atrial cardiomyocytes. Additional terms relate to modulation of muscle contraction, aligning with cardiac excitation-contraction coupling. While there are some general cell cycle terms present, the dominant theme is cardiac electrical activity and contractile control.","confidence":"High","size":28,"edges":43,"triangles":32,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0010650","count":3},{"id":"GO:1900827","count":3}]},{"hash":"1541916875166712667","title":"TLR/MyD88-driven inflammatory signaling","description":"These proteins cluster around toll-like receptor signaling and innate immune activation, with multiple terms for MyD88-dependent TLR pathways, NF-\u03baB\u2013mediated transcription, and production/regulation of inflammatory cytokines (IL-6, IL-18, chemokines). The defense response to Gram-positive bacteria also fits, supporting a core theme of TLR-driven innate immunity. A single outlier term (male gonad development) is likely an annotation artifact rather than a core function of the cluster.","confidence":"High","size":28,"edges":110,"triangles":116,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002755","count":13},{"id":"GO:0045410","count":13},{"id":"GO:0051092","count":11},{"id":"GO:0008584","count":11},{"id":"GO:0032741","count":11}]},{"hash":"1887690977190149400","title":"Innate Immune Signaling and Ubiquitination","description":"The top terms center on innate immune response and regulation of NF-kappaB activity, with supporting evidence of ubiquitin-mediated protein regulation (autoubiquitination and degradation pathways) and host\u2013pathogen interactions (viral entry/RNA replication, LPS signaling). While a plant-specific term appears among the list, the prevailing theme across the cluster is immune signaling modulation via ubiquitination, especially influencing NF-kappaB\u2013related responses. This suggests proteins function together to shape antiviral and inflammatory signaling networks.","confidence":"Medium","size":28,"edges":153,"triangles":409,"max_degree":22,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":16},{"id":"GO:0007182","count":15},{"id":"GO:0045087","count":15},{"id":"GO:0046598","count":15},{"id":"GO:2000059","count":15}]},{"hash":"1212720277362133997","title":"Immune signaling and chemotaxis proteins","description":"The cluster is dominated by GO terms related to immune signaling (NF-kappaB transcription factor activity, T cell receptor signaling) and chemotaxis, suggesting a core function in immune response signaling and cell movement toward chemical cues. Some terms like sterol import or meiotic processes appear, but the strongest, most coherent theme is immune signaling and chemotaxis. ","confidence":"Medium","size":28,"edges":22,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":28},{"id":"GO:0035376","count":28},{"id":"GO:0006935","count":28},{"id":"GO:0051436","count":28},{"id":"GO:0046826","count":28}]},{"hash":"1635692944522733560","title":"Ubiquitin-Driven NF-kappaB Regulation","description":"The cluster is centered on ubiquitination processes (polyubiquitination, actin ubiquitination, ERAD-related pathways) and NF-kappaB signaling regulation (I-kappaB phosphorylation and NF-kappaB activity), with immune-context associations such as T follicular helper cell differentiation and vitamin D response, suggesting a coherent theme of ubiquitin-mediated modulation of NF-kappaB in immune signaling.","confidence":"High","size":28,"edges":98,"triangles":139,"max_degree":23,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":27},{"id":"GO:0051092","count":26},{"id":"GO:1903721","count":26},{"id":"GO:0097039","count":26},{"id":"GO:0061470","count":26}]},{"hash":"1696038427540425895","title":"Adipogenesis, lipid metabolism, and innate immune signaling","description":"The top GO terms cluster around fat cell differentiation and lipid metabolism (fat cell differentiation; glycerophospholipid catabolic process), while others point to innate immune pathways (NOD2 signaling) and immune-related responses. This suggests proteins involved in adipocyte/lipid biology with integrated innate immune signaling, alongside some general gene regulation processes. Confidence in this thematic link is Medium.","confidence":"Medium","size":28,"edges":12,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":9},{"id":"GO:0033280","count":9},{"id":"GO:0010745","count":9},{"id":"GO:0045444","count":9},{"id":"GO:0046475","count":8}]},{"hash":"1426535458970013906","title":"Neurovascular development and synapse formation","description":"This cluster is driven by GO terms highlighting neural and vascular development (heart and retina development, angiogenesis), plus synaptic assembly/organization and neuron\u2013cell adhesion, suggesting a neurovascular development theme with synaptogenesis. Secondary terms like xenobiotic response and insulin secretion appear ancillary and do not define the core function.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008284","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0007158","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0007156","count":3}]},{"hash":"1030203115022486550","title":"Cytoskeletal remodeling and mechanotransduction","description":"The top GO terms emphasize actin filament bundle assembly, cell migration, and cellular responses to mechanical stimuli, pointing to cytoskeletal remodeling and mechanotransduction as the cluster\u2019s core theme. Some terms (immune signaling and SA node conduction) appear peripheral, but the dominant pattern is related to cytoskeletal dynamics and how cells sense/respond to mechanical cues.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":9},{"id":"GO:2001275","count":9},{"id":"GO:0002268","count":9},{"id":"GO:0098907","count":9},{"id":"GO:0016477","count":9}]},{"hash":"1180678223200566385","title":"Neural signaling and sensory perception","description":"The cluster shows strong representation of nervous-system functions: dopaminergic synaptic transmission, visual perception and learning, behavioral response to cocaine, pain perception, and neuron-related ERK signaling, which together point to neuronal communication and sensory processing. Some terms like heart development and electron transport chain appear as outliers, but the dominant pattern is neural signaling and perception.","confidence":"Medium","size":28,"edges":38,"triangles":45,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":14},{"id":"GO:0048148","count":13},{"id":"GO:0001963","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0010759","count":13}]},{"hash":"2188354316323365386","title":"Unknown","description":"The terms span diverse areas: development (blastocyst formation), neural/synaptic assembly, extrinsic apoptotic signaling, organelle localization (lysosome, M-band), TOR signaling, and cardiac electrophysiology. There isn\u2019t a single cohesive function tying these proteins together, so a specific, representative label is not justifiable. ","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0001825","count":6},{"id":"GO:0051965","count":5},{"id":"GO:1902043","count":4},{"id":"GO:0036059","count":4},{"id":"GO:0006977","count":4}]},{"hash":"1422690302169833284","title":"Integrin-Mediated Adhesion and Migration","description":"This cluster is dominated by GO terms centered on adhesion and movement mediated by integrins, including heterotypic cell-cell adhesion, cell-matrix adhesion, integrin signaling, extravasation, and substrate-dependent migration. Additional terms point to ECM remodeling (metallopeptidase activity) and related developmental or regenerative contexts, supporting a cohesive theme of cells attaching to and migrating through the extracellular matrix via integrin pathways. Minor elements like T cell activation reflect immune-cell interactions during migration but do not overturn the primary adhesion/migration theme.","confidence":"High","size":28,"edges":376,"triangles":3224,"max_degree":27,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0034113","count":20},{"id":"GO:0007229","count":20},{"id":"GO:0045123","count":20},{"id":"GO:0035987","count":20},{"id":"GO:0006929","count":19}]},{"hash":"1851903094620140721","title":"IGF/Insulin Signaling in Muscle and Bone","description":"This cluster is dominated by GO terms related to insulin and IGF receptor signaling, as well as activation of Akt (protein kinase B), which are central to insulin/IGF pathways driving muscle cell maintenance and regeneration, plus involvement in bone maturation. The presence of skeletal muscle satellite cell maintenance and bone mineralization terms supports a musculoskeletal signaling theme, with calcium signaling further tying into these pathways. A few terms (vasoconstriction, secretion) are less directly connected, but overall the cluster centers on insulin/IGF signaling affecting muscle and bone biology.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033160","count":2},{"id":"GO:0050714","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0045907","count":2},{"id":"GO:0051592","count":2}]},{"hash":"1677579292148704418","title":"Placental and Embryonic Development","description":"The top terms are dominated by placental and embryonic processes (trophoblast giant cell differentiation, epithelial-to-mesenchymal transition in endocardial cushion formation, cartilage morphogenesis, endocrine system development, left-right patterning, and pancreatic cell development). A few terms describe general RNA processing and ribosome export, which are widespread cellular functions and do not negate the developmental theme. Overall, the cluster seems to group proteins involved in placenta/embryo development, with some accompanying housekeeping roles.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":19},{"id":"GO:0003198","count":19},{"id":"GO:0060536","count":19},{"id":"GO:0035270","count":19},{"id":"GO:0060806","count":19}]},{"hash":"1583298788986086788","title":"Neural crest migration and axon guidance","description":"The cluster centers on neural development and connectivity: neural crest cell migration, sympathetic neuron projection guidance, trigeminal nerve organization, and semaphorin-plexin\u2013mediated axon guidance, plus synapse assembly and cell adhesion. ECM remodeling via collagen fibril organization likely supports these processes, tying the proteins to neural crest\u2013derived migration and axon pathfinding.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":5},{"id":"GO:0043277","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0006958","count":5}]},{"hash":"746125639917622525","title":"Starch, glycogen, and trehalose metabolism","description":"The cluster is strongly enriched for terms governing biosynthesis and degradation of storage polysaccharides, including starch/amylopectin, alpha-glucans, trehalose, glycogen, maltose, and sucrose. This points to a cohesive function in synthesis and breakdown of storage carbohydrates rather than signaling or transport. Therefore, it represents starch/glycogen/trehalose metabolism.","confidence":"High","size":28,"edges":51,"triangles":50,"max_degree":9,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0019252","count":12},{"id":"GO:0030979","count":12},{"id":"GO:0005992","count":12},{"id":"GO:0005980","count":12},{"id":"GO:0010021","count":12}]},{"hash":"529692739013806079","title":"Unknown","description":"The top GO terms span diverse processes (angiogenesis regulation, transcription regulation, muscle regeneration, kidney development, vascular differentiation, hearing, immune cell proliferation, cell-matrix adhesion, ear structures, and ion transport), with no clear single functional theme linking all proteins.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0016525","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0014834","count":3},{"id":"GO:0072218","count":3},{"id":"GO:1905065","count":3}]},{"hash":"1412747497844836833","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":77,"triangles":70,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":21},{"id":"GO:0030206","count":21},{"id":"GO:0048702","count":12},{"id":"GO:0006068","count":12},{"id":"GO:0009812","count":12}]},{"hash":"1322598911104134697","title":"Cranial neural crest and ganglia development","description":"The cluster is enriched in neural crest migration and cranial ganglia development terms (ventral trunk neural crest migration, trigeminal/facioacoustic ganglion development, facial nerve organization, sympathetic ganglion development) and axon guidance, indicating a cohesive theme of cranial neural crest\u2013derived structures forming neural connections.","confidence":"High","size":28,"edges":163,"triangles":486,"max_degree":27,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0006689","count":7},{"id":"GO:0051692","count":7},{"id":"GO:0036486","count":6},{"id":"GO:0060666","count":6},{"id":"GO:0061551","count":6}]},{"hash":"2048536426719323066","title":"Auditory sensation and neural synaptic regulation","description":"This cluster centers on sensory and neural signaling, with terms like sensory perception of sound, otolith tethering, and positive regulation of glutamatergic synaptic transmission, suggesting auditory/sensory-neural function. Related adhesion and basement membrane terms may reflect structural contexts for sensory organs but do not override the neural theme. ","confidence":"Medium","size":28,"edges":301,"triangles":1821,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0048265","count":6},{"id":"GO:0007160","count":6},{"id":"GO:0007605","count":5},{"id":"GO:0051968","count":4},{"id":"GO:0002853","count":4}]},{"hash":"836067422436399230","title":"Potassium Homeostasis and Membrane Potential Regulation","description":"The strongest signals in this cluster are potassium ion transmembrane transport, regulation and stabilization of membrane potential, and intracellular potassium ion homeostasis, which together point to proteins that control cellular excitability and potassium balance. The inclusion of a membrane repolarization term (atrial cardiac muscle) reinforces the focus on potassium-channel\u2013driven membrane dynamics. Additional terms related to mechanosensation and signaling (cAMP biosynthesis, corticotropin secretion) suggest these proteins also participate in broader signaling cascades linked to membrane potential and stress responses, but the core theme remains potassium homeostasis and membrane potential regulation.","confidence":"High","size":28,"edges":33,"triangles":21,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":6},{"id":"GO:0098914","count":6},{"id":"GO:0060075","count":6},{"id":"GO:0030322","count":5},{"id":"GO:0030007","count":5}]},{"hash":"990238308595179736","title":"Golgi\u2013endosome\u2013lysosome transport","description":"The cluster is enriched for vesicle trafficking terms across the endomembrane system\u2014Golgi-to-endosome transport, endocytosis, lysosome/vacuole targeting, and multivesicular body sorting\u2014indicating a cohesive module of proteins coordinating vesicle formation, sorting, and delivery. Occasional terms related to apoptosis or actin regulation appear but do not define the core function; the dominant theme is intracellular transport within the endomembrane network.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006895","count":12},{"id":"GO:0006915","count":7},{"id":"GO:0006886","count":7},{"id":"GO:0006622","count":7},{"id":"GO:0006897","count":6}]},{"hash":"1770240047886775735","title":"Ubiquitin-NF-kappaB Signaling in Innate Immunity","description":"The top GO terms indicate a strong emphasis on ubiquitin-related processes (K63-linked ubiquitination, ubiquitin-dependent catabolic processes) and regulation of NF-kappaB signaling, combined with innate immune and antiviral defense terms. This points to a cohesive theme of ubiquitin-mediated modulation of NF-kappaB pathways in innate immune responses, rather than a cardiac-specific function, despite a couple of cardiac regulation terms appearing. Confidence in this thematic link is moderate, given the presence of immune-related terms as well as a few outliers.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070534","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0032088","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0051092","count":2}]},{"hash":"438170927563602208","title":"NF-kappaB-driven inflammation and development","description":"The cluster shows strong signals for inflammatory/immune processes (response to lipopolysaccharide; NF-kappaB transcription factor activity; negative regulation of B cell proliferation) alongside developmental and differentiation pathways (osteoblast differentiation; Notch signaling; hair follicle development; odontogenesis). This suggests a theme centered on inflammation-associated signaling that also modulates tissue development and differentiation.","confidence":"Medium","size":27,"edges":257,"triangles":1294,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0097192","count":3},{"id":"GO:0030889","count":3},{"id":"GO:0001649","count":2}]},{"hash":"243920236551616335","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":10},{"id":"GO:0001731","count":10},{"id":"GO:0000480","count":9},{"id":"GO:0000472","count":9},{"id":"GO:0051013","count":8}]},{"hash":"1625216527658000144","title":"Mitotic cell cycle & ribosome biogenesis","description":"The terms cluster around mitotic cell division and DNA replication (cell division, APC-dependent catabolic process, Okazaki fragment processing) together with RNA processing and ribosome biogenesis (mRNA splicing, rRNA maturation, translation preinitiation complex formation, ubiquitination), suggesting proteins linked to cell cycle control and ribosome assembly. ","confidence":"Medium","size":27,"edges":28,"triangles":7,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0071276","count":7},{"id":"GO:0000398","count":6},{"id":"GO:0000209","count":6},{"id":"GO:0031145","count":6}]},{"hash":"418932365061673632","title":"ERAD and Aggresome Proteostasis","description":"This cluster is dominated by GO terms related to ubiquitin-mediated quality control, including protein autoubiquitination, ER-associated degradation (ERAD), and aggresome assembly, all pointing to proteostasis management in the ER and cytosol. Additional terms touch on unfolded protein response and regulation of related processes, reinforcing a cohesive theme of maintaining protein homeostasis through degradation and sequestration pathways.","confidence":"High","size":27,"edges":193,"triangles":717,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051865","count":12},{"id":"GO:0030433","count":11},{"id":"GO:0070842","count":9},{"id":"GO:0010216","count":9},{"id":"GO:1902236","count":8}]},{"hash":"179941743538479262","title":"Extrinsic Apoptosis and Immune Regulation","description":"The top GO terms center on death-receptor\u2013mediated apoptotic signaling (extrinsic pathway, TRAIL-activated signals) and immune processes (interferon signaling, CD8+ T cell extravasation). Together these suggest proteins involved in extrinsic apoptosis with immune-regulatory roles; peripheral terms like spleen development or cocaine behavioral response can be contexts in which such pathways operate.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902043","count":4},{"id":"GO:0048148","count":3},{"id":"GO:0036462","count":3},{"id":"GO:0048536","count":3},{"id":"GO:0097202","count":3}]},{"hash":"1089511920393322278","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":248,"triangles":1233,"max_degree":26,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0000027","count":4},{"id":"GO:0000462","count":3},{"id":"GO:0002181","count":3},{"id":"GO:0006620","count":2}]},{"hash":"618605145087434881","title":"Chaperone-assisted protein folding and maturation","description":"This cluster centers on protein quality control, folding, and maturation, with GO terms spanning chaperone-dependent refolding, iron-sulfur cluster\u2013mediated maturation, redox homeostasis, and ERAD-related processes, suggesting coordinated protein folding and maturation pathways; a few terms like DNA replication appear incidental. ","confidence":"High","size":27,"edges":258,"triangles":1445,"max_degree":26,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031204","count":20},{"id":"GO:0006260","count":20},{"id":"GO:0090084","count":20},{"id":"GO:1900035","count":20},{"id":"GO:0070389","count":20}]},{"hash":"1012081162351288742","title":"Mitochondrial translation and energy production","description":"The cluster is strongly enriched for mitochondrial translation, general translation, and mitochondrial energy metabolism terms (e.g., ATP synthesis coupled electron transport, protein import into the mitochondrial matrix), indicating a cohesive group of proteins involved in mitochondrial protein synthesis and linked respiration/energy generation.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0032543","count":4},{"id":"GO:0006450","count":1},{"id":"GO:0006407","count":1},{"id":"GO:0030150","count":1}]},{"hash":"2187220299102319226","title":"Embryonic Development and Neural Differentiation","description":"This cluster accumulates GO terms across multiple organ systems (pancreas, lung/bronchial morphogenesis, eye, bone) and rich neural development programs (oligodendrocyte and motor neuron fate, GABAergic interneuron differentiation, subpallium fate), all pointing to broad embryonic development and lineage specification. The presence of transcription by RNA polymerase II suggests active gene expression driving these differentiation processes, supporting a cohesive developmental theme rather than a single tissue-specific function.","confidence":"High","size":27,"edges":347,"triangles":2827,"max_degree":26,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":17},{"id":"GO:0031018","count":16},{"id":"GO:0060435","count":15},{"id":"GO:0021530","count":15},{"id":"GO:0021520","count":15}]},{"hash":"271017507106963470","title":"Ribosome biogenesis and RNA methylation","description":"The cluster is dominated by translation and ribosome-related GO terms (translation, ribosome biogenesis, maturation of SSU/LSU rRNA) plus rRNA and tRNA methylation, indicating proteins involved in ribosome assembly and RNA modification; mitochondrial translation is also represented, supporting a broader role in protein synthesis machinery.","confidence":"High","size":27,"edges":322,"triangles":2464,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0070476","count":2},{"id":"GO:0030490","count":2},{"id":"GO:0030488","count":2},{"id":"GO:0042254","count":2}]},{"hash":"512054103740683308","title":"Innate Immune Regulation and Transcription Control","description":"The cluster features GO terms tied to innate immune response, defense against virus, and negative regulation of activated T cell proliferation, plus ubiquitination and negative regulation of protein kinase activity, which together point to immune signaling and its control. A DNA-templated transcription term and broader ubiquitination hints suggest coordinated transcriptional and post-translational regulation underlying these immune processes. Some annotations (liver regeneration, cellular response to potassium ion) seem less directly related and may reflect protein multifunctionality or context-specific roles. Overall, the dominant themes are immune signaling modulation and transcriptional/ubiquitin-based regulation, justifying the label.","confidence":"Medium","size":27,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0016567","count":3},{"id":"GO:0097421","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2}]},{"hash":"517202659319675593","title":"Vitamin and Coenzyme Biosynthesis with Amino Acid Metabolism","description":"The cluster centers on biosynthetic pathways for vitamins and coenzymes (menaquinone, phylloquinone, coenzyme M) and amino acid metabolism (valine, tryptophan, threonine), with additional signals of fatty acid oxidation and antibiotic biosynthesis, suggesting a broad bacterial metabolism cluster focused on small-molecule biosynthesis and turnover.","confidence":"Medium","size":27,"edges":109,"triangles":187,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":10},{"id":"GO:0009234","count":8},{"id":"GO:0006635","count":8},{"id":"GO:0042372","count":8},{"id":"GO:0006574","count":8}]},{"hash":"1066298759775240611","title":"Ubiquitin-Mediated Innate Immune Regulation","description":"The cluster shows strong enrichment for ubiquitination-related processes (protein autoubiquitination, K63-linked ubiquitination, actin ubiquitination) alongside innate immune response terms and signaling regulation (lipopolysaccharide signaling, NF-kappaB-related regulation). Additional terms about regulating intracellular transport of viral material and cytoskeletal dynamics (microtubule depolymerization) suggest a coherent theme where ubiquitin signaling modulates immune responses and cellular trafficking during host defense.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":23},{"id":"GO:1901253","count":23},{"id":"GO:1903762","count":23},{"id":"GO:0051092","count":22},{"id":"GO:0045087","count":22}]},{"hash":"1260056708524938053","title":"Unknown","description":"The GO terms span innate immunity, stress responses, development, metabolic signaling, and chromatin regulation, with no single cohesive function across the cluster; the diversity suggests no common theme beyond broad cellular stress and regulation, so Unknown.","confidence":"","size":27,"edges":133,"triangles":375,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0006986","count":4},{"id":"GO:0046548","count":4},{"id":"GO:0038108","count":4},{"id":"GO:0003085","count":4}]},{"hash":"1279237229514767309","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":4},{"id":"GO:0015986","count":3},{"id":"GO:1902600","count":3},{"id":"GO:0042773","count":2},{"id":"GO:0009060","count":2}]},{"hash":"335263540331106942","title":"Intestinal microvillus assembly and barrier establishment","description":"This cluster centers on gut epithelial processes: microvillus assembly and establishment of the intestinal barrier (endothelial/gut barrier). Receptor clustering and dense core granule maturation suggest secretory and signaling roles in intestinal/immune context, supporting a theme of intestinal surface organization and barrier function. Overall, the terms point to intestinal mucosal surface architecture and barrier-related functions, with ancillary immune/secretory roles.","confidence":"Medium","size":27,"edges":37,"triangles":20,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":3},{"id":"GO:0043113","count":3},{"id":"GO:0090557","count":2},{"id":"GO:0019933","count":2},{"id":"GO:0030033","count":2}]},{"hash":"468797407498429693","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":10,"triangles":2,"max_degree":5,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":27},{"id":"GO:0043123","count":27},{"id":"GO:0007026","count":26},{"id":"GO:0007014","count":26},{"id":"GO:0032897","count":26}]},{"hash":"2241127735454922997","title":"ECM Organization and Junctional Adhesion in Sensory Tissues","description":"The cluster is enriched for extracellular matrix and adhesion terms (cell-matrix adhesion, basement membrane development, septate/junction assembly) and structures tied to sensory systems (otolith tethering, sensory perception of sound), suggesting a module focused on ECM-driven tissue organization in sensory tissues. Additional signals like ERK cascade regulation and ubiquitin-dependent proteolysis indicate linked signaling and protein turnover within this structural context, while immune and xenobiotic/nutrient responses appear secondary. Overall, the dominant theme is ECM-mediated adhesion and barrier formation in sensory-related tissues.","confidence":"Medium","size":27,"edges":69,"triangles":74,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0002853","count":3},{"id":"GO:0035889","count":3},{"id":"GO:0090528","count":3}]},{"hash":"553007709404347877","title":"Steroid and retinoid hormone and pigment biosynthesis","description":"This cluster is dominated by biosynthetic GO terms for steroid hormones (androgen, estrogen, glucocorticoid), retinoids (retinoic acid, retinol), melanin, and related cofactor and lipid pathways (BH4 biosynthesis, sphingolipid metabolism), suggesting a core theme of diverse hormone, vitamin, and pigment biosynthesis. The methotrexate response term is a less central, secondary association but does not undermine the main biosynthetic pattern.","confidence":"High","size":27,"edges":351,"triangles":2925,"max_degree":26,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008209","count":27},{"id":"GO:0006729","count":27},{"id":"GO:0002138","count":27},{"id":"GO:0031427","count":27},{"id":"GO:0006704","count":27}]},{"hash":"1185157430833658627","title":"Cytoskeleton remodeling and cell migration","description":"The cluster shows enrichment in pathways controlling receptor signaling (growth hormone receptor and Kit), cell adhesion, lamellipodium assembly, actin cytoskeleton dynamics, fibroblast migration, and axon guidance. Together these suggest a functional module of cytoskeleton-driven motility and adhesion signaling.","confidence":"High","size":27,"edges":29,"triangles":10,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060396","count":5},{"id":"GO:0038109","count":5},{"id":"GO:0007160","count":4},{"id":"GO:0008045","count":4},{"id":"GO:0010763","count":4}]},{"hash":"314930520499180557","title":"Diverse Metabolic Pathways","description":"This cluster shows a mix of biosynthetic and catabolic GO terms (antibiotic, menaquinone, biotin, PHB, beta-ketoadipate, uracil catabolism, halogenated hydrocarbon degradation, phospholipid dephosphorylation, strigolactone biosynthesis), indicating a broad metabolism-focused grouping rather than a single pathway.","confidence":"Medium","size":27,"edges":173,"triangles":510,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":21},{"id":"GO:0009234","count":18},{"id":"GO:0009102","count":18},{"id":"GO:0055114","count":18},{"id":"GO:0042619","count":17}]},{"hash":"1478913884138057225","title":"Embryogenesis and organ morphogenesis","description":"The top GO terms cluster around developmental processes: trophoblast giant cell differentiation, epithelial-to-mesenchymal transition in heart development, cartilage morphogenesis, endocrine system development, left/right pattern formation, and pancreatic cell development. While there are a couple of general cellular processes (mRNA splicing and ribosomal export) present, the dominant signal is embryonic development and tissue/organelle morphogenesis.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":6},{"id":"GO:0003198","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0060806","count":5}]},{"hash":"1143012810923370567","title":"FGFR-MAPK Developmental Signaling","description":"This cluster is dominated by GO terms related to developmental processes and FGFR signaling, including heart and nervous system development, lung mesenchyme development, planar polarity establishment, convergent extension, and ERK/MAPK cascade regulation. The convergence on FGFR signaling and broad organogenesis roles suggests proteins in this cluster participate in FGFR-driven developmental signaling and morphogenesis.","confidence":"High","size":27,"edges":66,"triangles":31,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001736","count":23},{"id":"GO:2000830","count":23},{"id":"GO:0007507","count":23},{"id":"GO:0014068","count":23},{"id":"GO:0035607","count":23}]},{"hash":"1991462154535398834","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":156,"triangles":455,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0072203","count":9},{"id":"GO:0045879","count":9},{"id":"GO:0001746","count":8},{"id":"GO:0015936","count":8},{"id":"GO:0060831","count":8}]},{"hash":"665749313233263578","title":"Chondrogenesis and BMP signaling","description":"The top GO terms cluster around cartilage development: regulation of BMP signaling (positive and negative), chondrocyte differentiation, cartilage condensation, and cell-matrix adhesion, with supporting terms on IGF signaling and fibroblast migration. This points to a coordinated program of cartilage formation and extracellular matrix remodeling regulated by BMP signaling.","confidence":"High","size":27,"edges":156,"triangles":422,"max_degree":21,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0001558","count":14},{"id":"GO:0030513","count":13},{"id":"GO:0007596","count":13},{"id":"GO:0001502","count":12},{"id":"GO:0043569","count":12}]},{"hash":"849519933462906325","title":"Embryonic and placental development","description":"This cluster is dominated by GO terms tied to embryogenesis and placental formation, including trophoblast giant cell differentiation, EMT in endocardial cushion formation, cartilage morphogenesis, endocrine system development, left-right pattern formation, and pancreatic cell development. Minor terms like ribosomal export and mRNA splicing likely reflect general cellular machinery rather than core function of the cluster. Together these terms point to developmental programs active in early development, placental biology, and organogenesis, supporting the label \u201cEmbryonic and placental development.\u201d","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060806","count":4}]},{"hash":"1919580513735997146","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":99,"triangles":132,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0046115","count":4},{"id":"GO:0006148","count":4},{"id":"GO:0046835","count":4},{"id":"GO:0070329","count":4},{"id":"GO:0006189","count":4}]},{"hash":"258950015268621080","title":"Membrane Transporters and Vesicle Loading Proteins","description":"The top terms are dominated by transmembrane transport of diverse substrates and ions (phosphate, sialic acid, potassium, nitrite, arabinose, sodium, xenobiotic), plus a specific term for loading neurotransmitters into synaptic vesicles. This points to a shared function as membrane transporters, potentially with roles in neurotransmitter handling; a peripheral metabolic term (fucose metabolic process) may be incidental. Overall, the cluster reflects membrane transport activity across multiple substrates and contexts.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":5},{"id":"GO:0015739","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0006004","count":5},{"id":"GO:0015707","count":5}]},{"hash":"2038988575656626245","title":"Organ Development and Tissue Morphogenesis","description":"This cluster is dominated by GO terms related to organ and tissue development, notably heart development, nipple morphogenesis, and lung connective tissue development, plus regulation of cell proliferation and synapse assembly, all pointing to roles in developmental processes and tissue structuring rather than a single pathway. Confidence is Medium.","confidence":"","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0060658","count":4},{"id":"GO:0060427","count":4},{"id":"GO:1902960","count":4}]},{"hash":"1097723760456712229","title":"Neural regeneration and synapse formation","description":"The top GO terms cluster around neural development and repair (neuron cell-cell adhesion, peripheral nervous system axon regeneration, regulation of axon extension during regeneration, and positive regulation of synapse assembly) with collagen fibril organization, suggesting extracellular matrix remodeling supports neural regeneration. Angiogenesis and some signaling terms appear as broader tissue remodeling context rather than core functions. ","confidence":"Medium","size":27,"edges":12,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007158","count":6},{"id":"GO:1905240","count":6},{"id":"GO:0001525","count":6},{"id":"GO:0014012","count":6},{"id":"GO:0048692","count":6}]},{"hash":"595054935653880082","title":"Cardiac morphogenesis and calcium signaling","description":"This cluster centers on heart development features (outflow tract morphogenesis, left ventricular morphogenesis, Purkinje signaling) and calcium handling (calcium ion detection, regulation of calcium transporters, caffeine response), indicating a cohesive theme of cardiac development linked to calcium signaling. Minor terms like ossification reflect broader developmental processes but are less central to the primary theme.","confidence":"High","size":27,"edges":14,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0003151","count":2},{"id":"GO:1901896","count":2},{"id":"GO:0071313","count":2},{"id":"GO:0098910","count":2}]},{"hash":"2124313076019334903","title":"Cardiac calcium signaling and electrophysiology","description":"These terms cluster around heart function and calcium signaling: ventricular action potential regulation, membrane repolarization, heart-rate control by cardiac conduction, vasoconstriction, and calcium ion handling (import and response). The combination suggests a group of proteins involved in cardiac electrophysiology and calcium-dependent signaling, with additional stress-related cues (startle, pain, temperature) reflecting sympathetic modulation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001964","count":2},{"id":"GO:0098703","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0098911","count":2},{"id":"GO:0042310","count":2}]},{"hash":"1704977856628683723","title":"Neural, inflammatory, and cardiovascular signaling","description":"The top GO terms cluster around neural signaling (dopamine receptor signaling, endocannabinoid signaling, trans-synaptic signaling), vascular effects (vasoconstriction, regulation of cardiac muscle contraction), inflammatory regulation (IL-1\u03b2 production), and related physiological processes (gastric histamine secretion, heat generation). This points to a broad signaling module that coordinates neural activity with cardiovascular tone, endocrine/gastrointestinal processes, and stress/inflammation, rather than a single specific pathway. Therefore, a general neural\u2013endocrine\u2013cardiovascular signaling label fits best.","confidence":"Medium","size":27,"edges":215,"triangles":800,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":26},{"id":"GO:0035106","count":26},{"id":"GO:0055117","count":26},{"id":"GO:0031649","count":26},{"id":"GO:1902239","count":26}]},{"hash":"1793017756728136049","title":"Dopaminergic Signaling and Cocaine Response","description":"The GO terms are dominated by nervous system functions: dopaminergic synaptic transmission, sensory perceptions (pain and vision), GPCR signaling with ERK1/2 activation, and behavioral responses to cocaine, all pointing to neuronal signaling and reward pathways. Electron transport chain terms align with neuronal energy demands, supporting a neural-focused cluster. While cardiovascular terms appear (heart development, blood pressure), they are less central to the dominant neural theme, so the label remains representative overall.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":26},{"id":"GO:0019233","count":26},{"id":"GO:0070374","count":26},{"id":"GO:0048148","count":26},{"id":"GO:0001963","count":26}]},{"hash":"1985255795121282334","title":"Plant metabolism, detoxification, and strigolactone biosynthesis","description":"The cluster contains diverse metabolic and detox pathways (triglyceride catabolism, beta-ketoadipate and xenobiotic degradation, cellular oxidant detoxification) alongside plant-specific hormone biosynthesis (strigolactone) and developmental processes (secondary shoot formation). This points to a cohesive theme of broad metabolism with plant growth regulation. ","confidence":"Medium","size":26,"edges":62,"triangles":44,"max_degree":15,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0019433","count":21},{"id":"GO:0042952","count":14},{"id":"GO:0098869","count":14},{"id":"GO:0006212","count":12},{"id":"GO:0019260","count":12}]},{"hash":"1817596784324585839","title":"Post-transcriptional regulation: splicing and translation control","description":"These terms cluster around post-transcriptional gene regulation, including ncRNA-mediated silencing, alternative splicing via the spliceosome, mRNA stability in stress, and various aspects of translation initiation and reinitiation (including miRNA-mediated silencing). Together they point to coordinated control of gene expression at RNA processing and translational levels.","confidence":"High","size":26,"edges":269,"triangles":1761,"max_degree":25,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":12},{"id":"GO:0000381","count":11},{"id":"GO:0010610","count":11},{"id":"GO:0006446","count":10},{"id":"GO:0002188","count":10}]},{"hash":"2092218961077317955","title":"Innate immune signaling and antimicrobial defense","description":"The top GO terms cluster around innate immune activation: TLR1 signaling, defense against Gram-positive bacteria, antimicrobial peptide production, and NF-kappaB signaling (including non-canonical). These indicate a core function in innate immune response and inflammatory signaling. Other terms like axonogenesis or nipple morphogenesis may be secondary or pleiotropic. Overall, the cluster appears to be centered on innate immunity and antimicrobial defense.","confidence":"High","size":26,"edges":192,"triangles":938,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032741","count":26},{"id":"GO:0006963","count":26},{"id":"GO:0051901","count":26},{"id":"GO:1905279","count":26},{"id":"GO:0007409","count":26}]},{"hash":"867571149866073178","title":"Translation Machinery and mRNA Turnover","description":"This cluster is dominated by GO terms tied to core and specialized translation processes: cytoplasmic and mitochondrial translation, initiation/elongation/termination phases, and selenocysteine incorporation, plus regulation of translation. The presence of deadenylation-dependent mRNA decay indicates a link between translation and mRNA turnover, and the antibiotic response term fits with translation-targeting antibiotics. A non-core term like glial cell proliferation appears incidental. Overall, the proteins likely function together in protein synthesis and its regulation. ","confidence":"High","size":26,"edges":305,"triangles":2261,"max_degree":25,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0046677","count":11},{"id":"GO:2000767","count":10},{"id":"GO:0001514","count":10},{"id":"GO:0045901","count":10}]},{"hash":"1715698989210156747","title":"Unknown","description":"The GO terms are diverse: cell cycle/spindle assembly; DNA integration/proviral latency; immune signaling. There is no single cohesive function linking all 26 proteins; the terms seem to reflect unrelated processes, so a concise functional label cannot be assigned.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0051225","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2}]},{"hash":"1494680055451231562","title":"Developmental Chromatin Regulation and Genome Maintenance","description":"The top GO terms indicate strong links to developmental processes (skin, gonad, spinal cord development, gastrulation) together with chromatin modification (H3K27 and H3K79 methylation) and genome maintenance activities (sister chromatid cohesion, homologous recombination repair, cell cycle checkpoint regulation, microtubule severing). This suggests a cohesive theme where chromatin state during development interfaces with genome integrity and cell division.","confidence":"High","size":26,"edges":109,"triangles":202,"max_degree":22,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0043588","count":22},{"id":"GO:0008584","count":21},{"id":"GO:0021510","count":21},{"id":"GO:0007369","count":21},{"id":"GO:0070734","count":21}]},{"hash":"1813831460236899380","title":"Chromatin modification and transcription regulation","description":"The top GO terms point to histone demethylation (H3K36, H3K4) and DNA-templated transcription, highlighting chromatin remodeling and transcription control as the core function. Additional terms for various peptidyl hydroxylations suggest broader nuclear post-translational modification activities, reinforcing a chromatin-centered regulatory theme. While there are some developmental signaling terms (Notch, osteoblast differentiation, vasculogenesis), they appear related to transcriptional regulation within signaling contexts, supporting a label focused on chromatin modification and transcription.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070544","count":9},{"id":"GO:0034720","count":9},{"id":"GO:0030961","count":7},{"id":"GO:2001214","count":7},{"id":"GO:0036138","count":7}]},{"hash":"1225025253041403808","title":"DNA replication and cell cycle regulation","description":"The cluster is dominated by GO terms tied to DNA replication, recombination, transcriptional regulation of DNA-templated processes, and regulation of the cell cycle, including endomitotic cell cycles, indicating a core theme of genome maintenance and cell-cycle control. A few terms related to development or metabolic cofactor biosynthesis appear as peripheral connections but do not redefine the main theme.","confidence":"High","size":26,"edges":186,"triangles":642,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0001824","count":6},{"id":"GO:0097011","count":6},{"id":"GO:0045892","count":6},{"id":"GO:0006310","count":5}]},{"hash":"2301805462471856375","title":"Nucleolar RNA Processing and Ribosome Biogenesis","description":"The cluster shows multiple GO terms tied to rRNA maturation (5.8S and LSU), nucleolar localization, RNA splicing and spliceosome dynamics, and helicase/GTPase regulation, all pointing to RNA processing and ribosome assembly in the nucleolus. Some terms like apoptosis/lysosome localization may reflect broader cellular stress, but the core theme is ribosome biogenesis and RNA metabolism.","confidence":"High","size":26,"edges":310,"triangles":2265,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0051096","count":4},{"id":"GO:0035156","count":3},{"id":"GO:0034260","count":3},{"id":"GO:0061462","count":3},{"id":"GO:0006915","count":3}]},{"hash":"1968959927677710098","title":"Immune signaling and cell cycle regulation","description":"This cluster is enriched for immune signaling terms (NF-kappaB transcription factor activity regulation; interleukin-2-mediated signaling) alongside cell-cycle related terms (meiotic cell cycle; attachment of spindle microtubules to kinetochores), suggesting proteins that participate in immune pathways and cell-cycle control. Additional terms like chemotaxis, sterol import, and rhythmic processes point to broader, coordinated cellular regulation but do not override the core immune/cell-cycle theme.","confidence":"Medium","size":26,"edges":55,"triangles":30,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":24},{"id":"GO:0035376","count":24},{"id":"GO:0006935","count":24},{"id":"GO:0051436","count":24},{"id":"GO:0046826","count":24}]},{"hash":"1592676299208094584","title":"Neuronal development and GABAergic synaptic signaling","description":"The cluster centers on nervous system development and GABAergic synaptic transmission, with supporting roles for membrane trafficking (Golgi to plasma membrane transport, membrane targeting) and protein modification (palmitoylation) that facilitate synapse formation and function. Ion homeostasis terms (chloride, bicarbonate) align with neuronal excitability, while odontogenesis appears less connected.","confidence":"High","size":26,"edges":124,"triangles":195,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:1900006","count":2},{"id":"GO:0043001","count":1},{"id":"GO:0018230","count":1},{"id":"GO:0006612","count":1}]},{"hash":"2066222378983087325","title":"Ubiquitin-Proteasome-Mediated Proteolysis","description":"The top GO terms cluster around protein ubiquitination and degradation via the proteasome (polyubiquitination, ERAD, SCF-dependent proteasomal degradation, APC/C-dependent proteolysis), indicating proteins focused on tagging substrates for destruction and regulating cell cycle. Some transcription and development terms may be linked as downstream effects, but the dominant theme is ubiquitin-dependent proteolysis and proteasomal turnover.","confidence":"High","size":26,"edges":214,"triangles":944,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000209","count":16},{"id":"GO:0030433","count":16},{"id":"GO:0042787","count":16},{"id":"GO:0031146","count":15},{"id":"GO:0051301","count":14}]},{"hash":"1776279315316172623","title":"Central carbon metabolism: glycolysis to TCA","description":"This cluster is dominated by core energy pathways: glycolytic process, the TCA cycle, glyoxylate cycle, pentose phosphate shunt, and general glucose metabolism, indicating a set of proteins involved in central carbon metabolism and energy production. Some terms are marked obsolete, likely from older GO annotations, but the overall theme remains energy metabolism. ","confidence":"High","size":26,"edges":264,"triangles":1630,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":13},{"id":"GO:0006099","count":12},{"id":"GO:0006096","count":9},{"id":"GO:0006097","count":5},{"id":"GO:0006098","count":5}]},{"hash":"687636294412567109","title":"Ciliogenesis and transition zone assembly","description":"Based on the top terms, the cluster is dominated by ciliogenesis-related processes: ciliary basal body\u2013plasma membrane docking, ciliary transition zone assembly, and protein localization to the ciliary transition zone, along with axoneme/sperm flagellum assembly and actin involvement in ciliogenesis. Other terms (DNA-templated transcription, DNA integration, proviral latency) are present but less representative of the core theme, which is the formation and function of cilia and their transition zones. Therefore, a label focused on ciliogenesis and transition zone assembly best captures the common function of this cluster.","confidence":"High","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0051017","count":2}]},{"hash":"832356955519098121","title":"Inflammation signaling and macrophage activation","description":"This cluster is dominated by GO terms related to innate immune and inflammatory responses, including innate immune response, inflammatory response, regulation of macrophage activation, and MAP kinase signaling, with arachidonate secretion also pointing to inflammatory mediators. While translation and some gene-expression regulation terms appear, the core signal centers on immune/inflammatory processes and macrophage-associated signaling, justifying the chosen label.","confidence":"High","size":26,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0051014","count":2},{"id":"GO:0070207","count":1}]},{"hash":"1191694085893909032","title":"Action Potential Regulation in Excitable Cells","description":"This cluster centers on GO terms related to neuronal action potentials, ion channel regulation (including potassium channel activity), and membrane repolarization in excitable tissues, with supporting signals from synaptic plasticity and cytoskeletal dynamics. The overall theme is regulation of electrical excitability in neurons and cardiac cells, with some ancillary circadian and cytoskeletal links, making this label representative and specific.","confidence":"Medium","size":26,"edges":273,"triangles":1654,"max_degree":25,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0050966","count":10},{"id":"GO:1902260","count":9},{"id":"GO:0045188","count":9},{"id":"GO:0044335","count":9},{"id":"GO:1900454","count":9}]},{"hash":"1197847239903557722","title":"Developmental Signaling, Neural Guidance, and Stress Response","description":"This cluster centers on development- and signaling-related terms (keratinocyte differentiation; multicellular organism development; retinal ganglion cell axon guidance) and key pathways (Wnt; Hippo). It also includes apoptosis and stress-response terms (apoptotic process; cellular response to arsenite) and a neural-behavior term (behavioral response to cocaine), suggesting a broad developmental\u2013neural signaling module with stress responsiveness.","confidence":"Medium","size":26,"edges":299,"triangles":2142,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0060044","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0035329","count":4}]},{"hash":"1829584810949507484","title":"Cardiac development and contraction signaling","description":"The cluster is dominated by GO terms related to heart development, cardiac muscle contraction, and cardiac hypertrophy under stress, as well as cytoskeletal remodeling (actin crosslink formation) and organization of ion channels (voltage-gated K+ channel clustering), which together point to heart development and cardiac muscle function. Although a few terms are obsolete or broader in scope, the overall pattern aligns with cardiac signaling and contraction pathways, suggesting a cohesive cardiac-focused cluster.","confidence":"High","size":26,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":24},{"id":"GO:0007205","count":21},{"id":"GO:0045163","count":21},{"id":"GO:0060048","count":21},{"id":"GO:0032516","count":21}]},{"hash":"905300124935399038","title":"CDK-Dependent Cell Cycle Control","description":"The top GO terms center on negative regulation of cyclin-dependent kinase activity and core cell-cycle processes, with accompanying signals for cell growth; this strongly suggests the cluster represents CDK-mediated cell cycle regulation, despite some peripheral lipid and immune-related terms.","confidence":"Medium","size":26,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":4},{"id":"GO:0046475","count":3},{"id":"GO:1901594","count":3},{"id":"GO:0070431","count":3},{"id":"GO:0043488","count":3}]},{"hash":"410247170096820621","title":"Endosomal trafficking and Golgi retention","description":"The GO terms strongly point to intracellular transport along endosomal-lysosomal pathways, including endosome-to-lysosome transport, endocytic recycling, endosomal vesicle fusion, and protein retention in the Golgi, suggesting a cohesive endomembrane trafficking role. While mitotic cell cycle and morphogenesis terms appear, they are less central to the cluster\u2019s main theme.","confidence":"High","size":26,"edges":14,"triangles":2,"max_degree":4,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0008333","count":4},{"id":"GO:0000278","count":3},{"id":"GO:1990126","count":3},{"id":"GO:0016197","count":3}]},{"hash":"1481222238193726895","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":299,"triangles":2060,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0006898","count":4},{"id":"GO:0007565","count":4},{"id":"GO:0001771","count":3},{"id":"GO:0006935","count":3},{"id":"GO:0043277","count":3}]},{"hash":"2059092867609997326","title":"Telomere maintenance and protection regulators","description":"Predominant GO terms point to telomere biology, including regulation of telomere maintenance, telomere capping, telomerase-dependent maintenance, and localization to telomeric regions. This suggests a group of proteins involved in maintaining chromosome end integrity rather than a single signaling pathway. Some neuronal-related terms appear in the list, possibly reflecting misannotations or multifunctional proteins, but the telomere-focused terms dominate, supporting a telomere maintenance/regulation interpretation.","confidence":"Medium","size":26,"edges":44,"triangles":22,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:1904743","count":2},{"id":"GO:0070213","count":2},{"id":"GO:1901187","count":2},{"id":"GO:1904357","count":2}]},{"hash":"1704760794830608472","title":"Vesicle Trafficking and Exocytosis Regulation","description":"This cluster is dominated by GO terms tied to vesicle trafficking and membrane fusion/exocytosis (positive regulation of exosomal secretion; viral budding via host ESCRT; regulation of calcium ion-dependent neurotransmitter exocytosis). Additional membrane-related terms (establishment/maintenance of transmembrane electrochemical gradient; membrane repolarization) reinforce a membrane trafficking/signaling theme, while a few outliers (meiotic cell cycle, epoxygenase P450 pathway, muscle contraction regulation) do not override this pattern.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903543","count":2},{"id":"GO:0051321","count":2},{"id":"GO:0039702","count":2},{"id":"GO:1905123","count":1},{"id":"GO:0010248","count":1}]},{"hash":"1182067343237105824","title":"Lipid Homeostasis and Vesicle Trafficking","description":"The cluster features strong signals for lipid metabolism and management (phospholipid, triglyceride, cholesterol storage; LDL remodeling) alongside vesicle-related processes (calcium-dependent exocytosis, protein transport, GTPase activity), suggesting a cohesive role in lipid handling linked to membrane trafficking. Development terms appear secondary.","confidence":"Medium","size":26,"edges":41,"triangles":22,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045956","count":6},{"id":"GO:0055091","count":5},{"id":"GO:0021510","count":5},{"id":"GO:0015031","count":5},{"id":"GO:0043547","count":4}]},{"hash":"1523382598303000233","title":"Ubiquitin-Mediated Innate Antiviral Defense","description":"Top terms indicate innate immune response and multiple ubiquitination processes (K63-linked ubiquitination, autoubiquitination, actin ubiquitination), alongside host control of viral material transport and viral release. This points to a cohesive theme of ubiquitin-dependent innate antiviral signaling and defense.","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0051865","count":11},{"id":"GO:0031664","count":11},{"id":"GO:1901253","count":11}]},{"hash":"218178985083607932","title":"Bacterial cell wall metabolism and amino acid transport","description":"Most of the top GO terms cluster around bacterial cell envelope processes: cell wall macromolecule catabolic process, peptidoglycan metabolic process, and cell wall organization, plus amino acid transport and L-phenylalanine biosynthesis. Methanol catabolic process and ectoine transmembrane transport also point to microbial metabolism. A few terms (glutamate receptor signaling, complement activation, kidney development) appear as noise or cross-species annotations, but the dominant signal is cell-wall\u2013related metabolism and amino acid handling, suggesting this cluster represents bacteria-focused cell wall remodeling/metabolism with amino acid transport.","confidence":"High","size":26,"edges":36,"triangles":2,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0016998","count":9},{"id":"GO:0006865","count":9},{"id":"GO:0046170","count":9},{"id":"GO:0009094","count":9},{"id":"GO:0071555","count":9}]},{"hash":"515710336222480043","title":"Immune signaling and mechanotransduction","description":"The top GO terms point to immune regulation (negative regulation of IL-12 production, follicular dendritic cell differentiation, NF-kappaB related activity) alongside mechano-responsive processes (cellular response to mechanical stimulus, response to muscle stretch) and cardiac-associated signaling (SA node regulation and communication), suggesting a cluster of proteins involved in immune signaling coupled with mechanotransduction across tissues.","confidence":"Medium","size":26,"edges":152,"triangles":499,"max_degree":25,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045083","count":9},{"id":"GO:0002268","count":9},{"id":"GO:0098907","count":9},{"id":"GO:0035994","count":9},{"id":"GO:0097284","count":9}]},{"hash":"1332264731456139622","title":"Actin Cytoskeleton and Muscle Assembly","description":"This cluster is dominated by terms related to actin crosslinking, myofibril assembly, calcium signaling, and cardiac muscle-related regulation, pointing to a module of cytoskeletal organization and muscle function. Some annotations about conjugation and karyogamy appear, but the prominent theme centers on actin-based structure and muscle contraction mechanisms.","confidence":"Medium","size":26,"edges":304,"triangles":2196,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000754","count":26},{"id":"GO:0051764","count":26},{"id":"GO:1903244","count":26},{"id":"GO:0038163","count":26},{"id":"GO:2000678","count":26}]},{"hash":"2154293905180603678","title":"Embryonic organogenesis and morphogenesis","description":"The proteins cluster is enriched for GO terms spanning embryonic morphogenesis across multiple tissues (pancreas, eye, digestive tract, neural crest\u2013derived structures, craniofacial regions) and includes transcriptional regulation during development, indicating a role in coordinating early organogenesis.","confidence":"High","size":26,"edges":322,"triangles":2531,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":18},{"id":"GO:0006366","count":17},{"id":"GO:0048048","count":17},{"id":"GO:0090190","count":16},{"id":"GO:0048557","count":16}]},{"hash":"1912096799983906984","title":"MAPK Signaling and Immune Response","description":"The cluster centers on MAPK pathway activity, with GO terms for ERK1/ERK2 cascade and p38MAPK cascade, and a PMA-induced cellular response, suggesting a PKC\u2192MAPK signaling theme. Additional terms for innate immune response, apoptotic processes, and transcriptional regulation (DNA-templated transcription, alternative splicing) indicate coordinated gene regulation under stress/stimulation. Overall, the proteins likely function together in MAPK-driven signaling that modulates immune/stress responses and downstream transcriptional programs.","confidence":"High","size":26,"edges":322,"triangles":2531,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1904628","count":4},{"id":"GO:0097011","count":4},{"id":"GO:0070371","count":4},{"id":"GO:0038066","count":4},{"id":"GO:0007399","count":4}]},{"hash":"1212346416284388709","title":"Neural Crest\u2013Related Axon Guidance","description":"This cluster centers on axon guidance and neural development, highlighted by terms for neural crest migration, sympathetic and branchiomotor neuron projection, trigeminal nerve organization, and semaphorin-plexin signaling. The tight grouping around axon pathfinding and nervous system patterning suggests a cohesive module driving neuronal wiring, especially in neural crest\u2013derived or cranial/peripheral neurons. Confidence in this label is High.","confidence":"","size":26,"edges":138,"triangles":359,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0036486","count":7},{"id":"GO:0097490","count":7},{"id":"GO:0007413","count":7},{"id":"GO:0021637","count":7},{"id":"GO:1902287","count":7}]},{"hash":"1663043376331795109","title":"Neuronal mechanosensation and osmoregulation","description":"This cluster gathers GO terms tied to sodium ion transport, mechanosensory and nociceptive perception, regulation of synaptic activity and neurotransmitter secretion, and water/ion homeostasis, including sensory modalities like salty taste. Together they point to neuronal signaling and sensory transduction with osmotic balance, rather than a single metabolic pathway. ","confidence":"High","size":26,"edges":182,"triangles":610,"max_degree":23,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0035725","count":8},{"id":"GO:1905792","count":7},{"id":"GO:0060025","count":7},{"id":"GO:0071467","count":7},{"id":"GO:0035179","count":7}]},{"hash":"1557712478525386514","title":"GPCR signaling and phototransduction regulation","description":"The cluster is enriched for GO terms centered on G protein-coupled receptor (GPCR) signaling and phototransduction, including phototransduction, GPCR internalization, ERK cascade regulation, and adenylate cyclase-related signaling. Also present are ubiquitination-related terms that point to regulation of signaling protein turnover, which commonly modulates GPCR pathways. These terms together suggest a cohesive role in GPCR-mediated signaling and phototransduction control.","confidence":"High","size":26,"edges":195,"triangles":724,"max_degree":24,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0031397","count":9},{"id":"GO:0070374","count":8},{"id":"GO:0016567","count":8},{"id":"GO:0031651","count":8},{"id":"GO:0071879","count":8}]},{"hash":"2090739651743149105","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":9,"triangles":0,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":24},{"id":"GO:0007026","count":24},{"id":"GO:0007014","count":24},{"id":"GO:0032897","count":24},{"id":"GO:0043123","count":24}]},{"hash":"1148631758621148323","title":"Hormone, vitamin, and pigment biosynthesis","description":"Many top GO terms cluster around biosynthetic processes for signaling molecules and related metabolites: androgen, estrogen, and glucocorticoid biosynthesis; retinoic acid and retinol metabolism; tetrahydrobiopterin biosynthesis; melanin biosynthesis; and related lipid-derived pathways. This suggests a cohesive theme of biosynthesis of steroids, vitamins, and pigments across the proteins.","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008209","count":25},{"id":"GO:0006729","count":25},{"id":"GO:0002138","count":25},{"id":"GO:0031427","count":25},{"id":"GO:0006704","count":25}]},{"hash":"924437610559110710","title":"Mechanosensory signaling and synaptic regulation","description":"Based on the top GO terms, the cluster centers on sensory input processing (mechanosensory behavior regulation, detection of mechanical stimuli with nociception, salty taste) and modulation of neurotransmitter release (negative regulation of neurotransmitter secretion; regulation of synaptic activity). This points to proteins involved in transducing sensory signals and tuning synaptic output, with additional pH-related responses that may reflect broader homeostatic control in sensory contexts.","confidence":"High","size":26,"edges":177,"triangles":548,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:1905792","count":10},{"id":"GO:0060025","count":10},{"id":"GO:0071467","count":10},{"id":"GO:0035179","count":10},{"id":"GO:0050966","count":10}]},{"hash":"676450645205309177","title":"Cell adhesion and ERK signaling in angiogenesis","description":"GO terms point to cell-matrix adhesion, protein localization to the cell surface, and regulation of the ERK1/2 cascade, together with angiogenesis and nerve repair-related processes, suggesting a cohesive theme of extracellular signaling and tissue remodeling. Some terms related to inflammation and regeneration support this, while a few metabolic terms appear as outliers.","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":5},{"id":"GO:0014012","count":3},{"id":"GO:0034394","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0071347","count":3}]},{"hash":"1051981021278060997","title":"Immune signaling and developmental morphogenesis","description":"Top terms show immune-related regulation (NF-kappaB pathway, complement activation) alongside diverse developmental processes (neuronal/vascular morphogenesis, neural crest migration, angiogenesis, organ branching) and growth-factor signaling (HGF receptor). This combination suggests a cluster of proteins involved in signaling coordination for immune responses and tissue morphogenesis, rather than a single cohesive pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007253","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0048168","count":2},{"id":"GO:0036486","count":2}]},{"hash":"1485321705076207135","title":"Developmental transcriptional regulation in heart, muscle, and brain","description":"The cluster combines GO terms related to heart development, skeletal muscle regeneration, cerebellar cortex development, and gliogenesis with transcriptional control processes (DNA-templated transcription and transcription elongation regulation), suggesting a shared module of developmental programs governed by transcriptional and epigenetic mechanisms across muscle and neural tissues. The presence of histone modification-related terms and a note on IL-6 production adds an inflammatory/epigenetic regulatory dimension that can accompany development. Overall, a cohesive theme is developmental transcriptional regulation spanning muscle and brain tissues.","confidence":"Medium","size":26,"edges":84,"triangles":82,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0014834","count":3},{"id":"GO:0014013","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0014898","count":3}]},{"hash":"997736784972221038","title":"Unknown","description":"The cluster's top GO terms span immunity (interleukin-4 response, lymphocyte proliferation), metabolism (purine, GMP, GTP, mandelate), protein structure (homotetramerization), retina development, and even photosynthetic pathways, indicating no single cohesive function; the terms are too heterogeneous to confidently assign a specific biological theme.","confidence":"","size":26,"edges":205,"triangles":972,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":18},{"id":"GO:0071353","count":17},{"id":"GO:0060041","count":17},{"id":"GO:0046651","count":17},{"id":"GO:0051289","count":17}]},{"hash":"1136617197840005637","title":"Transmembrane Transporters (ions and metabolites)","description":"Proteins in this cluster are enriched for transmembrane transport across membranes, covering a broad set of substrates including nitrates, various ions (K+, Na+, phosphate, nitrite), sugars (galactose), vitamins, and other metabolites (4-hydroxyphenylacetate, sialic acid, fucose). This cohesive set indicates a group of membrane transport proteins responsible for moving diverse solutes, rather than catalytic or signaling roles.","confidence":"High","size":26,"edges":6,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015706","count":14},{"id":"GO:0071805","count":13},{"id":"GO:0035725","count":13},{"id":"GO:0015757","count":12},{"id":"GO:0035461","count":12}]},{"hash":"1222626680814373591","title":"Cardiac Potassium Transport and Membrane Potential","description":"This cluster is driven by GO terms tied to membrane potential regulation and potassium ion transport in cardiac tissue, including atrial action potential repolarization, resting potential regulation, intracellular potassium homeostasis, and stabilization of membrane potential, along with heart-rate regulation via cardiac conduction. Additional terms about mechanosensation and temperature response may reflect broader ion-channel functions but do not override the core cardiac membrane/potassium theme.","confidence":"High","size":26,"edges":22,"triangles":3,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0098914","count":14},{"id":"GO:0060075","count":13},{"id":"GO:0071805","count":13},{"id":"GO:0050976","count":13},{"id":"GO:0030007","count":12}]},{"hash":"363180798980978042","title":"Unknown","description":"The top GO terms span cell cycle and growth regulation, mRNA stability, glycerophospholipid catabolism, and innate immune signaling (NOD2 pathway and IL-12 regulation), plus a miscellaneous \u201cresponse to capsazepine.\u201d The lack of a single coherent function and the presence of obsolete terms suggest no clear unifying theme for this cluster. Confidence: None","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000083","count":8},{"id":"GO:0046475","count":6},{"id":"GO:1901594","count":6},{"id":"GO:0070431","count":6},{"id":"GO:0043488","count":6}]},{"hash":"2033390388095876632","title":"ECM Remodeling and Vascular Development","description":"The top GO terms center on endothelial cell migration, collagen fibril organization, and blood coagulation, indicating extracellular matrix remodeling and vascular development. Other terms relate to signaling, immune response, and neural processes, but they are secondary to the core ECM/vessel theme, so the label captures the main function of the cluster.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043542","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0090103","count":2},{"id":"GO:0072378","count":2},{"id":"GO:0030199","count":2}]},{"hash":"2132313918884558201","title":"Steroid Hormone and Pigment Biosynthesis","description":"The top GO terms point to biosynthesis of diverse bioactive molecules, especially steroid hormones (androgen, estrogen, glucocorticoid) along with retinoids (retinoic acid, retinol), pigments (melanin), and lipid-related metabolites (sphingolipid precursor). This pattern suggests a cluster focused on the biosynthesis of hormones and related metabolites, rather than a single tightly defined pathway. ","confidence":"High","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008209","count":26},{"id":"GO:0006729","count":26},{"id":"GO:0002138","count":26},{"id":"GO:0031427","count":26},{"id":"GO:0006704","count":26}]},{"hash":"87736422559587062","title":"Coagulation and extracellular matrix proteins","description":"Most prominent terms involve extracellular and circulatory processes: complement activation, collagen fibril organization, lipoprotein clearance, and blood coagulation, indicating a cluster enriched for secreted extracellular matrix and hemostasis proteins. A few terms about transcription regulation, cell cycle alignment, and development appear but are less representative. Overall, the common theme is ECM/hemostasis.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0034381","count":2},{"id":"GO:0007596","count":2}]},{"hash":"1799782996291735563","title":"Embryonic Development and Tissue Morphogenesis","description":"These GO terms cluster around embryogenesis and tissue morphogenesis across diverse organs (heart cushion EMT, placenta/trophoblast, cartilage, hair follicles, pancreas, endocrine development, left-right patterning). The common thread is developmental processes that shape tissues and organ systems, rather than a single molecular function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":7},{"id":"GO:0060707","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060806","count":6}]},{"hash":"2287661536443439972","title":"Transmembrane Transport of Ions and Metabolites","description":"The top GO terms cluster around transport across membranes for a broad set of substrates\u2014nitrate/nitrite, various sugars (arabinose, fucose, sialic acid), sodium and potassium ions, xenobiotics\u2014and even neurotransmitter loading into synaptic vesicles. This points to a cohesive group of membrane transporters facilitating movement of ions and small molecules, across diverse functional contexts.","confidence":"High","size":26,"edges":198,"triangles":732,"max_degree":22,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0042128","count":24},{"id":"GO:0035435","count":23},{"id":"GO:0015739","count":23},{"id":"GO:0071805","count":23},{"id":"GO:0006004","count":23}]},{"hash":"2039574398477112487","title":"Neural adhesion and synapse formation","description":"The GO terms emphasize cell-cell adhesion (homophilic/heterophilic), synapse assembly, neuron migration, retina morphogenesis, and myelination, with supporting roles for paranodal junctions and collagen organization, indicating proteins coordinating neural connectivity and CNS development.","confidence":"Medium","size":26,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007156","count":10},{"id":"GO:0051965","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0001501","count":7},{"id":"GO:0021836","count":7}]},{"hash":"1739364287480916604","title":"GPCR Signaling and Cardiovascular Regulation","description":"The top GO terms point to adenylate cyclase-activating GPCR signaling, and several terms relate to blood pressure, cardiac muscle contraction, and vasoconstriction, indicating a core role in GPCR-mediated cardiovascular regulation. While metabolic terms like electron transport and heat generation are present, the dominant theme ties to GPCR signaling influencing cardiovascular functions.","confidence":"Medium","size":26,"edges":81,"triangles":64,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":26},{"id":"GO:0045777","count":26},{"id":"GO:0022900","count":26},{"id":"GO:0001697","count":25},{"id":"GO:0035106","count":25}]},{"hash":"1860683954423792418","title":"DNA repair and transcription regulation","description":"The cluster is dominated by GO terms related to DNA-templated transcription and multiple DNA repair pathways (double-strand break repair, mitochondrial DNA repair, DNA ligation in repair, and localization to DSBs) and telomere maintenance. Developmental terms (Wnt signaling, neural crest formation) imply a broader role where transcription and genome maintenance intersect during development. Overall, the proteins appear linked to nuclear genome maintenance and transcription, with a developmental angle.","confidence":"Medium","size":25,"edges":40,"triangles":5,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090263","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0051103","count":2}]},{"hash":"907480649076171185","title":"Mitotic cell cycle and ribosome biogenesis","description":"The cluster is dominated by GO terms related to cell division (centrosome cycle, mitotic cell cycle, cell cycle) and ribosome biogenesis/export, suggesting a cohesive theme around mitotic progression and ribosome assembly/protein synthesis. A few terms (NF-kappaB signaling, apoptosis) are present but seem ancillary to the core pattern. ","confidence":"Medium","size":25,"edges":22,"triangles":2,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0071550","count":3},{"id":"GO:0007098","count":2},{"id":"GO:0001764","count":2},{"id":"GO:1901001","count":2}]},{"hash":"1070974607285084243","title":"RNA processing and ribosome/telomerase assembly","description":"The top GO terms cluster around RNA maturation and modification (snoRNA-guided rRNA pseudouridylation, box H/ACA snoRNP assembly, snRNA pseudouridine synthesis), along with ribosome biogenesis and telomerase RNA-related assembly/stabilization/localization in Cajal bodies. These converge on RNA processing and the assembly of major RNA-protein complexes (ribosome and telomerase), with a few growth-related terms as ancillary context. Confidence: High","confidence":"","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0002136","count":1},{"id":"GO:0090669","count":1},{"id":"GO:0000454","count":1},{"id":"GO:0000493","count":1}]},{"hash":"2166634495376851116","title":"Cardiac and skeletal muscle transcriptional regulation","description":"The top GO terms show DNA-templated transcription and negative regulation of transcription by RNA polymerase II, as well as epigenetic regulation through histone modification. In addition, there are clear references to heart development and cardiac muscle hypertrophy, plus skeletal muscle satellite cell maintenance, suggesting a coherent theme of transcriptional and epigenetic control that shapes cardiac and skeletal muscle development and response to stress.","confidence":"High","size":25,"edges":114,"triangles":177,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0000122","count":6},{"id":"GO:2000616","count":6},{"id":"GO:0045857","count":6},{"id":"GO:0098532","count":6}]},{"hash":"28542436525174444","title":"Cardiac Muscle Signaling and Sarcomere Organization","description":"The top GO terms point strongly to cardiac-specific function: regulation of heart rate by cardiac conduction, regulation of atrial cardiac muscle cell action potential, and protein localization to the M-band, indicating roles in cardiac electrophysiology and sarcomere organization. Additional terms about GTPase activity and phosphatase regulation suggest broader signaling modulation, but the dominant theme is cardiac muscle signaling and sarcomeric localization; an outlier term on nephrocyte diaphragm assembly may reflect shared structural components rather than a core cardiac function.","confidence":"Medium","size":25,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:2001240","count":3},{"id":"GO:0086091","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0010923","count":2}]},{"hash":"1493290850067631396","title":"Viral genome integration and proviral latency","description":"The top GO terms cluster around DNA integration, replication, recombination, and RNA-templated DNA biosynthetic processes, plus DNA-templated transcription, which are hallmark steps of viral genome processing and retroelement activity. The explicit terms for viral penetration into the host nucleus and establishment of integrated proviral latency reinforce a retroviral-like infection and latency theme. Additional terms about symbiont entry and host apoptosis fit into intracellular pathogen\u2013host interaction contexts, supporting a cohesive theme of viral genome integration and latency within host cells.","confidence":"High","size":25,"edges":8,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0006278","count":3},{"id":"GO:0075732","count":3},{"id":"GO:1903704","count":3}]},{"hash":"2011094894091565047","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":110,"triangles":197,"max_degree":18,"top_function":"autophagy","top_go_terms":[{"id":"GO:0001782","count":8},{"id":"GO:0016567","count":7},{"id":"GO:0061470","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0061158","count":6}]},{"hash":"1779178795023788519","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":192,"triangles":796,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006617","count":1},{"id":"GO:0006616","count":1},{"id":"GO:0006614","count":1},{"id":"GO:0048702","count":1}]},{"hash":"1259122970194802529","title":"SA and atrial action potential regulation","description":"The terms cluster around SA node and atrial cardiac muscle action potentials, including regulation of SA node cell action potential, atrial cell communication, and regulation of membrane depolarization in cardiac cells, as well as maintenance of protein localization at the plasma membrane, which together indicate a shared function in cardiac electrical signaling and action potential propagation. A few terms touch on apoptotic signaling, but they are less representative of the main theme.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0098907","count":4},{"id":"GO:0086070","count":4},{"id":"GO:0072660","count":4},{"id":"GO:0010650","count":3},{"id":"GO:1900827","count":3}]},{"hash":"1611701992253942442","title":"Cytoskeleton Remodeling and Vesicle Trafficking in Development","description":"The top GO terms cluster around actin dynamics (actin filament bundle assembly, depolymerization), cilium assembly, and ER-to-Golgi vesicle transport, all of which are key components of cellular remodeling during development and morphogenesis (e.g., placenta morphogenesis). While there are also transcriptional and viral-host interaction terms, the dominant signal is cytoskeletal rearrangement and secretory trafficking linked to developmental processes, supporting a cohesive theme of structural and trafficking dynamics in developing cells.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060669","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0051017","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0030042","count":2}]},{"hash":"1507429760108474881","title":"Unknown","description":"The GO terms span neural development, innate immune signaling, intracellular trafficking, lysosomal function, synaptic regulation, and cell cycle processes, with no single cohesive theme linking them. This diversity suggests the cluster does not reflect one concise biological function.","confidence":"","size":25,"edges":85,"triangles":65,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022028","count":4},{"id":"GO:1905279","count":3},{"id":"GO:0034130","count":3},{"id":"GO:0071287","count":3},{"id":"GO:0002755","count":3}]},{"hash":"2195090169852413057","title":"Development and Lipid Homeostasis","description":"The top GO terms mix developmental processes (enamel mineralization, male gonad development, mammary gland alveolus development, larval wandering behavior) with metabolic regulation (energy homeostasis, triglyceride homeostasis, phosphatidic acid biosynthesis) and lipid signaling, suggesting a cluster of proteins coordinating development with lipid metabolism and tissue remodeling.","confidence":"Medium","size":25,"edges":158,"triangles":487,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070166","count":24},{"id":"GO:0008584","count":24},{"id":"GO:0090341","count":24},{"id":"GO:2000505","count":24},{"id":"GO:0051546","count":24}]},{"hash":"2065668906689154248","title":"TLR-Mediated Innate Immune Signaling","description":"The cluster centers on Toll-like receptor pathways (TLR1/2/4; MyD88-dependent signaling) and innate defense against Gram-positive bacteria, with additional hints of endosome-to-Golgi trafficking, suggesting a cohesive innate immune module.","confidence":"High","size":25,"edges":16,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1905279","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0034130","count":2},{"id":"GO:0034134","count":2},{"id":"GO:0002755","count":2}]},{"hash":"2270824614666799894","title":"Developmental Regulation and Chromatin Remodeling","description":"The proteins are linked to diverse developmental processes (brain development, oogenesis, vitellogenesis, gonad development, mononuclear cell migration) and to epigenetic/chromatin control (heterochromatin formation, histone methylation, transcription regulation), suggesting a cluster of factors that coordinate development with chromatin dynamics rather than a single tissue-specific function.","confidence":"Medium","size":25,"edges":104,"triangles":182,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0031508","count":7},{"id":"GO:0007296","count":7},{"id":"GO:0008584","count":7},{"id":"GO:0061086","count":7}]},{"hash":"2132838399854102597","title":"Chromatin remodeling and DNA repair with innate immune signaling","description":"Top GO terms indicate nuclear processes such as chromatin remodeling and nucleotide-excision repair, alongside DNA damage response and innate immune pathways (MyD88-dependent TLR signaling, type I interferon signaling, LPS signaling). A few developmental terms are present, which may reflect broader regulatory roles or annotation noise. Overall, the cluster appears to link chromatin dynamics and DNA repair with innate immune signaling, suggesting a regulatory axis where chromatin state influences immune responses.","confidence":"Medium","size":25,"edges":16,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007368","count":2},{"id":"GO:0043044","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0016584","count":2},{"id":"GO:0046784","count":2}]},{"hash":"1626630673431692665","title":"Redox homeostasis and detoxification","description":"Most terms point to managing cellular oxidative stress and detoxification, including cellular oxidant detoxification, oxidation-reduction processes, redox homeostasis, response to toxic substances, and related post-translational modification (deglutathionylation). While a few terms touch on metabolism and development (methylamine metabolism, prostaglandin biosynthesis, neural crest migration in heart formation), the dominant signal is maintaining redox balance and detoxification. ","confidence":"High","size":25,"edges":118,"triangles":304,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0098869","count":15},{"id":"GO:0055114","count":9},{"id":"GO:0045454","count":9},{"id":"GO:0009636","count":9},{"id":"GO:0030416","count":8}]},{"hash":"1230448795028423748","title":"Skeletal muscle development and sarcomere organization","description":"The cluster is dominated by muscle-related terms: skeletal muscle tissue development, skeletal muscle cell differentiation, and sarcomere organization, indicating a muscle development/sarcomere assembly theme. Other terms like nervous system development and B cell receptor signaling appear but do not counter, and the muscle-focused terms are the strongest signal guiding the label.","confidence":"High","size":25,"edges":40,"triangles":51,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":16},{"id":"GO:0007519","count":16},{"id":"GO:0050853","count":16},{"id":"GO:0035914","count":15},{"id":"GO:0032764","count":15}]},{"hash":"38766693732630928","title":"Auditory Hair Cell Cytoskeletal Signaling","description":"This cluster is dominated by terms related to the auditory system, notably auditory receptor cell stereocilium organization and vocalization behavior, pointing to hair-cell\u2013driven neural signaling. Supporting terms emphasize cytoskeletal dynamics (Rho signaling, protein dephosphorylation) and cell\u2013cell/junction localization, suggesting a core theme around hair cell cytoskeletal organization and neural signaling. A minority of terms touch on immune regulation, which may reflect multifunctional proteins rather than a primary theme. Overall, the core association is auditory/hair-cell cytoskeletal signaling. ","confidence":"Medium","size":25,"edges":202,"triangles":924,"max_degree":24,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0060088","count":22},{"id":"GO:0035023","count":22},{"id":"GO:0071315","count":22},{"id":"GO:1903028","count":22},{"id":"GO:0070433","count":22}]},{"hash":"1293169051078299565","title":"Proteostasis and intracellular trafficking","description":"This cluster centers on protein homeostasis and cargo handling within the cell, as indicated by repeated signals for protein folding and chaperone-assisted assembly, sumoylation, and ubiquitin-proteasome\u2013mediated quality control. Additional terms point to vesicle and organelle trafficking (lysosome localization and pigment/granule organization) and cytoskeletal involvement (tubulin complex assembly, mitotic chromosome alignment), suggesting a cohesive theme of folding, modification, degradation, and transport of proteins and organelles. Overall, the proteins appear to function together in maintaining proteostasis while coordinating intracellular trafficking.","confidence":"Medium","size":25,"edges":278,"triangles":1864,"max_degree":24,"top_function":"protein folding","top_go_terms":[{"id":"GO:0016925","count":3},{"id":"GO:0006457","count":3},{"id":"GO:0007021","count":3},{"id":"GO:0032968","count":3},{"id":"GO:0007080","count":3}]},{"hash":"2167745909701147917","title":"DNA Metabolism and Host-Interaction Signals","description":"The top GO terms cluster around genome-related processes\u2014DNA-templated transcription, DNA replication, and DNA integration\u2014along with entries on how cells interact with hosts (symbiont/viral entry) and related signaling (extrinsic apoptotic pathway). While there are also terms related to cell migration and heart development, the strongest common theme is DNA metabolism tied to host-cell interactions, with some contextual developmental signals. Confidence: Medium","confidence":"","size":25,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0035994","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0007507","count":3}]},{"hash":"2011769889636332233","title":"Developmental transcriptional regulation","description":"The top GO terms are dominated by transcription-related processes (RNA polymerase II transcription and regulation), together with multiple development-focused terms (myoblast fate, skeletal muscle fiber development, cardioblast migration, neural retina and bronchiole development, sex determination). This pattern indicates a cluster of proteins that broadly regulate developmental programs through transcriptional control across tissues, rather than a single tissue-specific pathway.","confidence":"High","size":25,"edges":171,"triangles":556,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":23},{"id":"GO:0007540","count":20},{"id":"GO:0003259","count":20},{"id":"GO:2000678","count":20},{"id":"GO:0007518","count":20}]},{"hash":"1936667457505912960","title":"DNA Repair and Cell Cycle Checkpoints","description":"This cluster is dominated by terms related to DNA damage response and genome integrity: nucleotide-excision repair, various DNA replication and checkpoint signaling (mitotic/meiosis), regulation of DNA replication, telomere maintenance, and protein phosphorylation as a regulatory mechanism. The presence of ionizing radiation response and meiotic checkpoints further supports a cohesive theme of detecting/repairing DNA damage and coordinating replication with cell cycle progression, including telomere maintenance. Embryo development-related terms appear less central but may reflect broader roles in genome integrity during development.","confidence":"High","size":25,"edges":275,"triangles":1826,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0071479","count":2},{"id":"GO:0001932","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0033314","count":2},{"id":"GO:0008156","count":2}]},{"hash":"2076168951804550565","title":"Glycosylation and glycan metabolism","description":"Top GO terms cluster around glycosylation and glycan remodeling (N-glycan processing, N-linked glycosylation via asparagine, protein sialylation, glycosylceramide metabolism, and ganglioside biosynthesis), plus related sugar metabolism (N-acetylneuraminate). This indicates a coherent theme in protein and lipid glycan synthesis/modification. Some terms like pollen tube growth or olfactory nerve formation may reflect broader contexts or annotation noise, but the dominant signal is glycan biology.","confidence":"Medium","size":25,"edges":242,"triangles":1334,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006054","count":3},{"id":"GO:0009860","count":3},{"id":"GO:0006677","count":3},{"id":"GO:1990743","count":3}]},{"hash":"295526419019541897","title":"Mitochondrial transporters and energy metabolism","description":"The top GO terms converge on transport of metabolites across the mitochondrial membrane (ADP, phosphate, CoA, ornithine, malate-aspartate shuttle) and regulation of mitochondrial permeability, with related energy\u2011related processes like adaptive thermogenesis and liver regeneration, suggesting a coherent theme of mitochondrial transport and metabolism.","confidence":"High","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0015866","count":25},{"id":"GO:0035435","count":25},{"id":"GO:0034198","count":25},{"id":"GO:0000066","count":25},{"id":"GO:0046902","count":25}]},{"hash":"1742140073763167311","title":"Nucleolar transcription and ribosome biogenesis","description":"The top GO terms cluster around nucleolar activities: rRNA transcription by RNA Pol I, tRNA transcription by RNA Pol III, nucleologenesis, ribosome biogenesis, and RNA-templated transcription, plus transcription by RNA Pol II and translation. This points to a cohesive functional module centered on nucleolar transcription and ribosome assembly. Some terms about viral replication and host autophagy appear, but the core signal remains nucleolus-associated transcription and ribosome production.","confidence":"High","size":25,"edges":83,"triangles":81,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0042790","count":3},{"id":"GO:0031048","count":3},{"id":"GO:0001172","count":3},{"id":"GO:0042797","count":3}]},{"hash":"1867404513429643838","title":"Peripheral nervous system development and myelination","description":"The top GO terms cluster around neural development and PNS formation: peripheral nervous system development, trigeminal nerve organization, neural crest cell migration, myelination, Hedgehog signaling (Smoothened), and regulation of synapse assembly. These together suggest a cohesive theme of PNS development, nerve structure, and maturation of neural connections, with a few terms (like symbiont entry) likely annotation noise. ","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045663","count":11},{"id":"GO:0050910","count":11},{"id":"GO:0007422","count":11},{"id":"GO:0007224","count":11},{"id":"GO:0007157","count":11}]},{"hash":"1064961301058607228","title":"Cell Growth and Immune Signaling","description":"The cluster features terms tied to cell cycle and growth, along with innate immune signaling (NOD2 pathway and IL-12 regulation) and regulatory processes like mRNA stability, plus some metabolic activities (lipid catabolism). This mix points to a broader theme of growth regulation linked with immune signaling, rather than a single precise function, supporting a label around cell growth and immune pathways.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000312","count":2},{"id":"GO:0046475","count":2},{"id":"GO:1901594","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0043488","count":2}]},{"hash":"1673707402213271504","title":"Heart and neural development","description":"The top GO terms highlight heart development, angiogenesis, retinal ganglion cell axon guidance, and visual perception, along with neural synaptic plasticity regulation and behavior. This points to a cluster enriched for cardiovascular and neural/eye development, particularly vascular and retinal/neural maturation, with supporting neural signaling components. Confidence in this thematic connection is moderate, as some terms are broader (e.g., hydrogen peroxide biosynthesis, behavior) but the dominant signals align with cardiovascular and neural development.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0045163","count":6},{"id":"GO:0008284","count":6},{"id":"GO:0001525","count":5},{"id":"GO:0031290","count":4}]},{"hash":"2169438672144428143","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":19},{"id":"GO:0097053","count":19},{"id":"GO:0007219","count":19},{"id":"GO:0019700","count":14},{"id":"GO:0051591","count":14}]},{"hash":"2110533175999971226","title":"Mitochondrial lipid remodeling and ATP synthesis","description":"The cluster is dominated by GO terms for lipid remodeling (cardiolipin and phosphatidylcholine) and triglyceride biosynthesis, together with mitochondrial ATP synthesis, pointing to proteins involved in mitochondrial membrane lipid metabolism and energy production. Some immune or developmental terms present may reflect broader tissue contexts but do not define the core function. ","confidence":"High","size":25,"edges":248,"triangles":1393,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0019432","count":19},{"id":"GO:0035965","count":16},{"id":"GO:0002071","count":16},{"id":"GO:0070970","count":16},{"id":"GO:0036151","count":16}]},{"hash":"1056099069422550473","title":"Phototransduction and Visual Perception Proteins","description":"Most top GO terms point to vision-related processes: phototransduction, visual perception, and regulation of opsin-mediated signaling. This suggests the cluster comprises proteins involved in light signaling in the visual system. While other terms appear (cardiac development, cardiac muscle contraction, insulin secretion regulation, calcium import regulation, ascospore membrane formation), they may reflect broader signaling roles or annotation noise. Overall, the dominant theme is visual signaling.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007602","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0022400","count":3},{"id":"GO:0035774","count":3},{"id":"GO:0007601","count":3}]},{"hash":"789422957884593926","title":"HRGP and AGP glycoprotein biosynthesis","description":"The top GO terms cluster around hydroxyproline-rich glycoprotein (HRGP) O-linked glycosylation and arabinogalactan protein (AGP) metabolism, plus mucilage and seed coat development, all pointing to plant cell wall\u2013associated glycoproteins (HRGPs/AGPs) that influence root hair growth, cell adhesion, and tissue polarity. While some terms are from other species, the dominant signal is plant glycoprotein biosynthesis and modification.","confidence":"High","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0080147","count":10},{"id":"GO:0075015","count":9},{"id":"GO:0048354","count":8},{"id":"GO:0018258","count":8},{"id":"GO:0007299","count":8}]},{"hash":"618780454712443204","title":"SA Node Electrical Conduction","description":"Top GO terms cluster around SA node action potential regulation and electrical coupling (positive regulation of membrane depolarization, SA node cell to atrial muscle communication), pointing to proteins involved in cardiac electrical signaling and pacemaker activity. Some terms relate to membrane protein localization and unrelated pathways, but the core signal is SA node\u2013driven conduction.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010650","count":5},{"id":"GO:1900827","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0086070","count":5},{"id":"GO:0072660","count":5}]},{"hash":"855005257523714944","title":"Unknown","description":"The terms cover glycerophospholipid catabolism, NOD2 signaling, IL-12 regulation, mRNA stability, cell cycle and growth, and protein ADP-ribosylation, indicating diverse roles rather than a single cohesive pathway. Without a unifying function, no intuitive label emerges beyond Unknown.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0046475","count":22},{"id":"GO:1901594","count":22},{"id":"GO:0070431","count":22},{"id":"GO:0043488","count":22},{"id":"GO:0007049","count":22}]},{"hash":"194669110100303080","title":"Glycosylation-linked immune and neural migration","description":"Top terms point to glycan modification (fucosylation, Lewis antigens) coupled with immune processes (leukocyte migration, regulatory T cell differentiation) and neural development/migration (cerebral cortex neuron migration, neuronal stem cell maintenance). This suggests a shared theme where glycosylation modulates cell migration and interactions in both immune and neural contexts.","confidence":"Medium","size":25,"edges":55,"triangles":34,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0021799","count":19},{"id":"GO:0042355","count":19},{"id":"GO:0006486","count":19},{"id":"GO:0010493","count":19},{"id":"GO:0002361","count":19}]},{"hash":"1607604118094482311","title":"Embryonic Development and Organogenesis","description":"The GO terms cluster around developmental processes such as placental and trophoblast differentiation, EMT in heart development, cartilage morphogenesis, endocrine system development, left-right patterning, palate formation, and pancreatic endocrine development. These collectively point to embryogenesis and organ morphogenesis across tissues; a single splicing term is more general and does not diminish this core theme.","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0035270","count":7},{"id":"GO:0060806","count":7}]},{"hash":"1464540316876415520","title":"Secreted signaling peptides and hormone processing","description":"Predominantly secreted signaling peptides and hormone processing; includes nerve growth factor production, insulin processing, renin secretion, and pheromone maturation, plus LDL receptor trafficking/regulation. A couple of outliers (sporulation and embryonic axis terms) exist, but the core theme is peptide hormone processing and signaling.","confidence":"Medium","size":25,"edges":113,"triangles":245,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0032902","count":12},{"id":"GO:0032802","count":12},{"id":"GO:0030435","count":12},{"id":"GO:0030070","count":12},{"id":"GO:0002001","count":12}]},{"hash":"802704919079072473","title":"Developmental and neuronal signaling cluster","description":"This cluster gathers proteins associated with broad developmental processes (heart development, angiogenesis, multicellular organism development, metanephric kidney development) and neuronal signaling/plasticity (clustering of voltage-gated potassium channels, regulation of synaptic plasticity, short-term memory). The presence of both organogenesis-related terms and neural function terms suggests a multisystem developmental and neural signaling theme rather than a single, cohesive pathway. Confidence: Medium.","confidence":"","size":25,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":11},{"id":"GO:0045163","count":11},{"id":"GO:0001525","count":10},{"id":"GO:0032516","count":10},{"id":"GO:0007275","count":10}]},{"hash":"1365881054744858355","title":"ER stress and secretory trafficking in cartilage","description":"The cluster is dominated by GO terms tied to endoplasmic reticulum functions (UPR, ER localization, COPII vesicle budding) and ER calcium homeostasis, pointing to ER protein folding and trafficking as the core theme, with cartilage development as a contextual hint from the chondrocyte term.","confidence":"High","size":25,"edges":10,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030968","count":2},{"id":"GO:0002063","count":2},{"id":"GO:0006874","count":1},{"id":"GO:0006987","count":1},{"id":"GO:0044791","count":1}]},{"hash":"1208807872248854763","title":"Organogenesis and tissue morphogenesis","description":"The GO terms point to embryonic development and organ formation across multiple tissues: endodermal differentiation, kidney tubule development, lymph vessel morphogenesis, corpus callosum development, neuron axon fasciculation, and collagen fibril organization. The inclusion of Notch signaling regulation also fits developmental patterning and tissue differentiation, suggesting a general morphogenesis program rather than a single pathway.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0045746","count":3},{"id":"GO:0072237","count":2},{"id":"GO:0072287","count":2}]},{"hash":"889834837318561877","title":"Neuromuscular and Schwann Cell Dynamics","description":"The terms center on neurofilament cytoskeleton organization, neuromuscular movement, and Schwann cell migration/proliferation, implying a focus on nerve\u2013muscle structure and peripheral glial support. Extracellular matrix and lipid biosynthesis terms (collagen, ceramide) reflect connective tissue and membrane remodeling accompanying nerve and muscle function. A fungal-origin response term appears incidental. Overall, the cluster captures neuromuscular architecture and Schwann cell regulation in the peripheral nervous system.","confidence":"Medium","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0060052","count":5},{"id":"GO:0050884","count":5},{"id":"GO:1900148","count":4},{"id":"GO:0002238","count":4},{"id":"GO:0050881","count":4}]},{"hash":"1711298644146176653","title":"Microglial innate immunity and lipid handling","description":"The top GO terms cluster around innate immune activity (innate immune response, inflammatory cytokine production, apoptotic cell clearance, receptor-mediated endocytosis) and lipid metabolism (lipoprotein transport, cholesterol storage, foam cell differentiation). This suggests the proteins function together in CNS-associated macrophage/microglial immune defense and lipid trafficking, with CNS development terms possibly reflecting tissue context. Overall, a cohesive theme of immune sensing combined with lipid processing.","confidence":"Medium","size":25,"edges":103,"triangles":173,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":24},{"id":"GO:0021510","count":24},{"id":"GO:0070207","count":24},{"id":"GO:0042953","count":24},{"id":"GO:0006898","count":24}]},{"hash":"1461064622475201289","title":"Neural development and axon guidance","description":"The cluster is dominated by GO terms related to neural development, axon guidance, and nerve organization, including positive regulation of synapse assembly, semaphorin-plexin signaling for axon guidance, sympathetic neuron projection guidance, trigeminal nerve organization, and neural crest migration. A few immune-related terms appear (innate immune response, classical complement activation), which may reflect ancillary roles or co-expression, but the core theme centers on neural development and neural wiring. Confidence: High","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0001501","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0032091","count":3},{"id":"GO:0036486","count":2}]},{"hash":"1784885317525832916","title":"Schwann cell regulation and neuromuscular function","description":"This cluster is dominated by GO terms tied to Schwann cell behavior (negative regulation of Schwann cell migration; Schwann cell proliferation in axon regeneration) and neuromuscular activity (musculoskeletal movement; neuromuscular process controlling posture), supported by related neurofilament organization and extracellular matrix/lipid biosynthesis (collagen, ceramide). Together, these suggest a theme of peripheral nerve support and neuromuscular maintenance.","confidence":"Medium","size":25,"edges":279,"triangles":1866,"max_degree":24,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:1900148","count":3},{"id":"GO:0002238","count":3},{"id":"GO:0050881","count":3},{"id":"GO:0060052","count":3},{"id":"GO:0044257","count":3}]},{"hash":"1376585330212866776","title":"Cardiovascular Regulation and Platelet Activation","description":"These proteins cluster around signaling controlling vascular tone and heart-related functions: positive regulation of vasoconstriction, platelet activation, regulation of cardiac muscle contraction, and ERK cascade modulation. Additional terms touch on related physiological processes (histamine-induced gastric acid secretion, heat generation) and immune/stress responses (IL-1\u03b2 production, p53-mediated apoptotic regulation), indicating a cardiovascular\u2013inflammation signaling theme with some functional noise. Overall, \u201cCardiovascular Regulation and Platelet Activation\u201d best captures the dominant pattern.","confidence":"Medium","size":25,"edges":31,"triangles":2,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045907","count":23},{"id":"GO:0030168","count":23},{"id":"GO:0070374","count":23},{"id":"GO:0001697","count":22},{"id":"GO:0035106","count":22}]},{"hash":"503028872167732301","title":"GPCR signaling in neural and vascular systems","description":"The top GO terms strongly point to G-protein coupled receptor signaling, including dopamine receptor signaling, endocannabinoid signaling, and histamine receptor signaling, all GPCR-mediated. These pathways relate to neural activity, regulation of vascular tone (vasoconstriction) and cardiac contraction, and intersect with inflammatory and metabolic responses (IL-1 beta production, heat generation, p53-mediated stress). While there are outliers, the common thread is GPCR-driven signaling affecting neural, vascular, and immune/metabolic functions, suggesting a cohesive functional theme for the cluster.","confidence":"High","size":25,"edges":95,"triangles":115,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":25},{"id":"GO:0035106","count":25},{"id":"GO:0055117","count":25},{"id":"GO:0031649","count":25},{"id":"GO:1902239","count":25}]},{"hash":"1183489858308049117","title":"Neural adhesion and synapse development","description":"GO terms emphasize cell adhesion (homophilic/heterophilic), synapse assembly, nervous system development, dendrite self-avoidance, and neuronal migration/guidance, with BMP signaling involvement. This cohesive set points to proteins involved in neural adhesion, synaptogenesis, and guidance rather than other tissues, making the label appropriate. ","confidence":"High","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0045663","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0001822","count":4}]},{"hash":"1067269499946594217","title":"Neural signaling and circadian sensory regulation","description":"This cluster centers on neuronal and sensory functions: regulation of nerve impulse transmission, norepinephrine secretion, sensory processing, and cochlea development, with a strong theme of circadian/sleep regulation. Ethanol response and amyloid-related terms further link to neural systems and neurodegenerative processes, while some terms (muscle growth, ovulation rhythm) may reflect broader neuroendocrine interactions. Overall, the dominant pattern is neural signaling coupled with circadian and sensory regulation.","confidence":"Medium","size":25,"edges":295,"triangles":2191,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0071361","count":25},{"id":"GO:1902004","count":25},{"id":"GO:0045188","count":25},{"id":"GO:0060112","count":25},{"id":"GO:0048630","count":25}]},{"hash":"544156374847235258","title":"Platelet Activation and Coagulation in Inflammation","description":"This cluster is dominated by GO terms for blood coagulation, inflammatory response, LPS response, and platelet activation, plus vasoconstriction and GPCR/GTPase signaling. Together these suggest a cohesive theme of hemostasis and vascular inflammatory signaling, centered around platelet function and coagulation pathways during inflammatory/stimulus responses.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":18},{"id":"GO:0006954","count":16},{"id":"GO:0032496","count":16},{"id":"GO:0045907","count":16},{"id":"GO:0045986","count":16}]},{"hash":"494704903368693335","title":"Cardiac GPCR Signaling and Heart Function","description":"This cluster is dominated by GO terms tied to heart biology and GPCR-mediated signaling. The most represented terms include adenylate cyclase-activating GPCR signaling, positive regulation of heart development, regulation of cardiac muscle contraction, and positive regulation of ERK1/ERK2 cascades, which together point to signaling pathways that control heart rate, contractile strength, and cardiac growth. Additional terms like regulation of blood pressure and histamine-induced gastric acid secretion appear but are less central; electron transport chain and xenobiotic response reflect broader cellular energy and stress responses that accompany cardiac tissue function. Overall, the functional theme is cardiac signaling and heart function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":24},{"id":"GO:0045777","count":24},{"id":"GO:0022900","count":24},{"id":"GO:0042493","count":23},{"id":"GO:0007507","count":23}]},{"hash":"1327069363064182456","title":"Embryonic organ development and morphogenesis","description":"The top GO terms span diverse developmental processes across multiple tissues\u2014cartilage differentiation, palate formation, kidney ureteric bud branching, gonad and mesonephric duct development, labyrinthine layer vascular development, and tail morphogenesis\u2014paired with cytoskeletal remodeling (stress fiber assembly). This points to a common theme of embryonic morphogenesis and organogenesis rather than a single tissue-specific function, justifying a label centered on developmental morphogenesis.","confidence":"High","size":25,"edges":278,"triangles":1887,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0051496","count":11},{"id":"GO:0002062","count":11},{"id":"GO:0060021","count":10},{"id":"GO:0051091","count":10},{"id":"GO:0060716","count":10}]},{"hash":"858762484665580000","title":"Neuromodulatory Signaling and Cardiovascular Regulation","description":"The top GO terms cluster around signaling and physiological regulation, including dopamine receptor signaling (adenylate cyclase-inhibiting pathway), endocannabinoid trans-synaptic signaling, histamine-induced gastric acid secretion, regulation of vasoconstriction, and regulation of cardiac muscle contraction. This points to a core theme of neuromodulatory and cardiovascular signaling, with some related stress/inflammatory signals (IL-1beta production, osmotic-stress response) that often intersect signaling networks. While there is an outlier term and an academically odd \u201coperant conditioning\u201d term, the dominant theme supports a label focused on neuromodulatory and cardiovascular regulation.","confidence":"Medium","size":25,"edges":127,"triangles":230,"max_degree":17,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":24},{"id":"GO:0035106","count":24},{"id":"GO:0055117","count":24},{"id":"GO:0031649","count":24},{"id":"GO:1902239","count":24}]},{"hash":"1539030919785272004","title":"Cardiovascular Signaling and Blood Pressure Regulation","description":"This cluster is dominated by GO terms related to GPCR signaling activating adenylate cyclase, regulation of blood pressure and vasoconstriction, and regulation of cardiac muscle contraction, pointing to a core function in cardiovascular signaling and control of vascular tone. Additional terms touch energy metabolism (electron transport chain, heat generation) which complements the metabolic support for heart function. Some outliers (e.g., operant conditioning, histamine-induced gastric acid secretion, cell wall catabolic process) are broader annotations but do not override the central cardiovascular theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":25},{"id":"GO:0045777","count":25},{"id":"GO:0022900","count":25},{"id":"GO:0001697","count":23},{"id":"GO:0035106","count":23}]},{"hash":"189238396260333180","title":"GPCR-Mediated Neural and Vascular Signaling","description":"The GO terms point to GPCR pathways across brain, heart, and vascular systems: histamine-induced acid secretion, dopamine receptor signaling, endocannabinoid signaling, vasoconstriction, cardiac contraction, thermogenesis, and learning-related signaling. Inflammation-related IL-1\u03b2 production can be downstream of GPCR cascades. Despite one outlier term about cell wall catabolism, the dominant theme is GPCR-driven signaling in neural and visceral contexts, so this name captures the cluster\u2019s core function.","confidence":"High","size":25,"edges":8,"triangles":1,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":25},{"id":"GO:0035106","count":25},{"id":"GO:0055117","count":25},{"id":"GO:0031649","count":25},{"id":"GO:1902239","count":25}]},{"hash":"2036543205043716556","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":261,"triangles":1714,"max_degree":23,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0075713","count":6},{"id":"GO:0046718","count":6},{"id":"GO:0015074","count":6},{"id":"GO:0006310","count":5},{"id":"GO:0006313","count":5}]},{"hash":"395034886519360370","title":"RNA processing and transcription regulation","description":"The cluster shows enrichment for RNA processing (splicing, rRNA maturation) and transcription-related processes (DNA-templated transcription, translation initiation complex formation) along with chromatin modification (histone H3 methylation/acetylation). Some terms like skin development and TGF-beta response hint at broader regulatory roles or tissue contexts, but the core signal points to nuclear RNA metabolism coupled with transcriptional regulation and chromatin state.","confidence":"Medium","size":24,"edges":47,"triangles":18,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0061087","count":3}]},{"hash":"1160858142162860018","title":"Mitotic Chromosome Dynamics and Vesicle Trafficking","description":"Top GO terms show strong mitosis signals (cell division; mitotic chromosome condensation; mitotic metaphase chromosome alignment; mitotic cell cycle) plus nuclear transport and Golgi/vesicle processes (mRNA export; nuclear pore complex assembly; protein retention in Golgi; intralumenal vesicle formation; exosomal secretion). This pattern suggests a cluster of proteins involved in chromosome segregation during cell division with linked membrane trafficking and secretion pathways.","confidence":"Medium","size":24,"edges":256,"triangles":1641,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":6},{"id":"GO:0045053","count":5},{"id":"GO:1902902","count":5},{"id":"GO:0007076","count":5},{"id":"GO:0007080","count":5}]},{"hash":"76018839310215436","title":"Amino Acid and Lipid Metabolism with Transcription","description":"The cluster shows strong representation of amino acid metabolic processes (L-alanine and L-kynurenine catabolic, L-aspartate biosynthesis) alongside lipid-related biosynthesis/transport (sphinganine biosynthesis, fatty acid transport, biotin biosynthesis). There are also regulatory processes present (DNA-templated transcription, Notch signaling) and a plant-specific term (fruit ripening), suggesting a core theme of metabolism intertwined with gene regulation and development. Overall, a coherent label capturing metabolism plus transcriptional/regulatory aspects fits best, though the mix includes some outliers; hence the label is cautiously rated as Medium confidence.","confidence":"Medium","size":24,"edges":271,"triangles":1924,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":18},{"id":"GO:0097053","count":18},{"id":"GO:0007219","count":18},{"id":"GO:0019550","count":16},{"id":"GO:0006532","count":16}]},{"hash":"188042261191240085","title":"NF-\u03baB signaling modulators and inflammatory signaling","description":"This cluster centers on both negative and positive regulation of NF-kappaB activity (GO:0032088, GO:0051092) alongside related inflammatory processes such as cytokine production (GO:2000341, GO:0045083) and chemokine regulation (GO:2000341). The presence of a TRAIL-activated apoptotic pathway term (GO:0042489) further suggests a link between NF-\u03baB\u2013mediated survival and apoptosis signaling. Although some terms are obsolete, the core theme appears to be NF-\u03baB\u2013driven immune/inflammatory signaling and associated cell fate decisions.","confidence":"High","size":24,"edges":37,"triangles":23,"max_degree":13,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0032088","count":8},{"id":"GO:0072661","count":6},{"id":"GO:0051092","count":5},{"id":"GO:0042489","count":5},{"id":"GO:0051798","count":5}]},{"hash":"463413650814828366","title":"Developmental and Immune Signaling","description":"The top GO terms point to immune signaling (NF-kappaB regulation, B cell receptor signaling, DISC assembly) and developmental processes (thymus, thyroid gland, and face development) as well as angiogenesis, suggesting this cluster gathers proteins involved in coordinating immune responses with developmental and vascular pathways.","confidence":"Medium","size":24,"edges":80,"triangles":117,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":23},{"id":"GO:0020021","count":23},{"id":"GO:0030878","count":23},{"id":"GO:0031914","count":23},{"id":"GO:0050853","count":23}]},{"hash":"1120779214928537269","title":"Gene Expression Regulation and Antiviral Defense","description":"This cluster centers on nuclear processes that regulate gene expression (DNA-templated transcription, transcription elongation, splicing) coupled with post-translational control (ubiquitination, kinase activity) and innate antiviral responses (innate immune response, defense against virus). The convergence of transcription/RNA-processing terms with immune-defense GO terms suggests a regulatory module that modulates transcriptional programs in response to viral or stress signals, potentially via ubiquitin-mediated signaling. Some terms like cell cycle/metabolic stimuli appear as peripheral functions but do not define the core theme.","confidence":"Medium","size":24,"edges":68,"triangles":40,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0045087","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0045842","count":3},{"id":"GO:0000398","count":3}]},{"hash":"108038867512601109","title":"Cardiac mechanotransduction and immune signaling","description":"The top GO terms point to cardiac mechanical signaling and electrical activity (cellular response to mechanical stimulus, response to muscle stretch, SA node cell action potential regulation, and SA node to atrial cardiac muscle cell communication), while also highlighting immune-related processes (negative regulation of IL-12 production, follicular dendritic cell differentiation, and NF-kappaB-related regulation). This suggests a cluster of proteins involved in signaling that links mechanotransduction and cardiac function with immune pathways, with additional general localization signaling. Confidence: Medium","confidence":"","size":24,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":3},{"id":"GO:0002268","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0086070","count":3}]},{"hash":"259071965910414038","title":"Rho/Rac-Driven Cytoskeletal Remodeling","description":"This cluster centers on Rho, Rac, and Ras signaling with lamellipodium and filopodium assembly, pointing to actin cytoskeleton remodeling and cell motility. While heart development and immune signaling terms appear, the dominant pattern is cytoskeletal dynamics governed by Rho family GTPases, with possible broader roles in development and sensory cells.","confidence":"High","size":24,"edges":182,"triangles":689,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":9},{"id":"GO:0030032","count":9},{"id":"GO:0046580","count":8},{"id":"GO:0046847","count":7},{"id":"GO:0007507","count":7}]},{"hash":"343254564381940403","title":"Apoptosis and Cardiac Muscle Regulation","description":"The proteins show clear signals of apoptosis-related processes (DNA damage response, apoptotic signaling) alongside cardiac muscle electrophysiology terms (atrial/ventricular action potentials) and muscle/structural localization (M-band, nephrocyte diaphragm) as well as TOR pathway regulation. This suggests a cohesive theme around stress-induced cell death in cardiac/muscle contexts and linked cellular organization. ","confidence":"Medium","size":24,"edges":8,"triangles":0,"max_degree":3,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0006977","count":4},{"id":"GO:0006915","count":4},{"id":"GO:1902043","count":3},{"id":"GO:0036059","count":3},{"id":"GO:0098910","count":3}]},{"hash":"1551088607658845856","title":"Vesicle Trafficking and Protein Ubiquitination","description":"The cluster's top GO terms center on intracellular transport along the secretory pathway (ER to Golgi and retrograde Golgi-ER, SNARE disassembly, transmembrane transport) and regulation via ubiquitination; these together point to vesicle trafficking and protein sorting processes. Additional terms like cell division and hepatocyte apoptotic process suggest broader involvement in cellular stress and cycle regulation, but the core signal remains membrane trafficking.","confidence":"Medium","size":24,"edges":112,"triangles":323,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":17},{"id":"GO:0016567","count":16},{"id":"GO:0051301","count":16},{"id":"GO:0035494","count":16},{"id":"GO:0097284","count":15}]},{"hash":"1691614119873781148","title":"Membrane Transport and Signaling","description":"The dominant signals are membrane-associated transport (xenobiotic and vitamin transmembrane transport; potassium ion transport) and MAPK signaling (positive regulation of ERK1/ERK2 cascade), with links to apoptosis and innate immunity, implying a cluster of membrane transport and signaling proteins; a few terms (DNA replication, visual perception) are less directly connected.","confidence":"Medium","size":24,"edges":24,"triangles":8,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0032092","count":7},{"id":"GO:0033138","count":7},{"id":"GO:0006260","count":6},{"id":"GO:0006855","count":6},{"id":"GO:0035461","count":6}]},{"hash":"733351780930592107","title":"Inflammatory lipid mediator biosynthesis and mucus secretion regulation","description":"Top GO terms cluster around lipid mediators (leukotrienes, oxylipins, lipoxins) and inflammatory signaling, including leukotriene biosynthesis, oxylipin biosynthetic process, lipoxin B4 biosynthesis, inflammatory response, and chemokine production. The presence of cellular response to interleukin-13 and positive regulation of mucus secretion ties this to mucosal inflammatory contexts (e.g., airway inflammation). Together these suggest a cohesive theme of lipid mediator-driven inflammation and mucus production, thus a label focused on inflammatory lipid mediator biosynthesis with mucus regulation.","confidence":"High","size":24,"edges":6,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0006954","count":5},{"id":"GO:0019370","count":4},{"id":"GO:0035963","count":4},{"id":"GO:0031408","count":4}]},{"hash":"1242599324940798794","title":"Developmental Differentiation and Neurodevelopment","description":"The proteins in this cluster are associated with diverse developmental processes across multiple tissues (heart development, angiogenesis, fat cell and keratinocyte differentiation, vagina development) and neural-related events (axonogenesis, CNS projection neuron development, synapse assembly), plus a general cell-cycle term (spindle organization). The common theme is broad developmental differentiation, with a notable emphasis on neural development, suggesting these proteins contribute to developmental processes with neural involvement.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0042220","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0045444","count":3}]},{"hash":"2110086415492551663","title":"Plant defense signaling and jasmonic acid response","description":"These proteins are linked to jasmonate-driven defense: jasmonic acid metabolism, camalexin biosynthesis, and responses to wounding and mycotoxins, plus plant-type hypersensitive response and induced systemic resistance. The common thread is jasmonate signaling coordinating defense metabolite production and immune responses in plants.","confidence":"High","size":24,"edges":50,"triangles":55,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0018874","count":15},{"id":"GO:0009611","count":15},{"id":"GO:0010252","count":15},{"id":"GO:0010120","count":15},{"id":"GO:0009694","count":15}]},{"hash":"703537043103472892","title":"TLR\u2013NF-\u03baB\u2013driven inflammatory signaling cluster","description":"This cluster is characterized by strong links to innate immune sensing and inflammation, with notable terms for MyD88-dependent TLR signaling, inflammatory response, NF-\u03baB transcription factor activity, and regulation of chemokine production, as well as TRAIL-mediated apoptotic signaling. While some terms are developmental or obsolete, the dominant pattern reflects a coherent innate immune/inflammatory signaling program centered on TLR/NF-\u03baB\u2013mediated activation.","confidence":"High","size":24,"edges":263,"triangles":1784,"max_degree":23,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002467","count":9},{"id":"GO:0002755","count":7},{"id":"GO:0006954","count":7},{"id":"GO:0051092","count":6},{"id":"GO:0042489","count":6}]},{"hash":"494302019222598106","title":"Peroxisomal lipid metabolism and energy homeostasis","description":"This cluster is enriched for fatty acid beta-oxidation, ketone body biosynthesis, lipid transport, and cholesterol metabolism, with supporting signals of glyoxysome organization (peroxisome-related). Development terms for liver, adipose, and brain suggest tissue-level impacts of lipid metabolism, and the response to starvation aligns with energy balance. Together, these terms point to a coherent theme of peroxisome-associated lipid metabolism driving energy homeostasis across metabolic tissues.","confidence":"High","size":24,"edges":158,"triangles":556,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0001889","count":6},{"id":"GO:0006635","count":5},{"id":"GO:0042594","count":5},{"id":"GO:0046951","count":5}]},{"hash":"1203950499865190850","title":"Embryonic neural and organ morphogenesis","description":"These GO terms are dominated by developmental processes, especially nervous system development (peripheral nervous system neuron development, trigeminal ganglion development, visceral motor neuron differentiation, regulation of oligodendrocyte differentiation). Several terms also point to organ morphogenesis across tissues (ureteric bud morphogenesis, bronchiole development, roof of mouth development, metencephalon development). Together, they suggest a cluster of proteins involved in orchestrating embryonic tissue formation, with a neural emphasis.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0090190","count":23},{"id":"GO:0022037","count":23},{"id":"GO:0008584","count":23},{"id":"GO:0048935","count":23},{"id":"GO:0060021","count":23}]},{"hash":"278612575861168582","title":"Unknown","description":"The GO terms are highly diverse, spanning mRNA processing, immune signaling (NF-kappaB, IL-12), VEGF signaling, apoptosis, dendritic cell differentiation, and cardiac SA node signaling. Several terms are labeled obsolete and there is only a single edge, indicating weak or incidental connections with no clear shared pathway. There is no cohesive function uniting the proteins, so a specific, high-level label cannot be confidently assigned.","confidence":"","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0070926","count":2},{"id":"GO:0048010","count":2},{"id":"GO:0071550","count":2}]},{"hash":"1939222204144286156","title":"Developmental Signaling and Cell Adhesion in Heart and CNS","description":"This cluster is dominated by GO terms for BMP signaling regulation, heart development, and CNS development, as well as cell\u2013cell adhesion (homophilic/heterophilic) and axon guidance/synapse assembly (ROBO signaling). These together point to a coordinated theme of developmental signaling and adhesive interactions shaping heart and nervous system patterning, with additional immune-related terms likely reflecting development-associated remodeling and clearance.","confidence":"High","size":24,"edges":221,"triangles":1108,"max_degree":23,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030513","count":9},{"id":"GO:0007157","count":9},{"id":"GO:0007507","count":9},{"id":"GO:0007156","count":9},{"id":"GO:0051965","count":9}]},{"hash":"1066209165280695423","title":"Angiogenesis and skeletal morphogenesis","description":"The top GO terms point to endothelial sprouting and migration (angiogenesis) alongside regulation of BMP signaling and ERK cascades, plus differentiation of osteoblasts and chondrocytes and craniofacial structures (notochord, roof of mouth). This indicates a cohesive developmental program coordinating vascular growth with skeletal and craniofacial morphogenesis. ","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"wound healing","top_go_terms":[{"id":"GO:0002043","count":19},{"id":"GO:0030513","count":19},{"id":"GO:0043536","count":18},{"id":"GO:0070374","count":18},{"id":"GO:0001649","count":18}]},{"hash":"1868287690552012389","title":"Innate immune signaling and cytokine regulation","description":"The cluster shows enrichment for intracellular signal transduction, NOD2 signaling, and regulation of IL-12 production, pointing to innate immune signaling and cytokine modulation as a common theme. While other terms touch on general cell growth and lipid metabolism, the strongest coherent pattern revolves around immune signaling pathways and cytokine regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0035556","count":4},{"id":"GO:0046475","count":3},{"id":"GO:1901594","count":3},{"id":"GO:0070431","count":3}]},{"hash":"2016699186443775434","title":"Insulin signaling-driven growth and differentiation","description":"This cluster centers on insulin receptor signaling and its broad regulatory effects on growth, proliferation, and differentiation. The presence of terms for cell cycle progression (G1/S transition and CDK activity), adipogenesis/fat cell differentiation, and telomere maintenance alongside neuronal/synaptic assembly and cell migration suggests a common theme where insulin signaling coordinates growth and lineage-specific maturation across contexts. Confidence: Medium","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0000082","count":2},{"id":"GO:0008286","count":2},{"id":"GO:2001275","count":2}]},{"hash":"454997978187415108","title":"Embryonic development and tissue morphogenesis","description":"The GO terms point to broad developmental and morphogenetic processes across tissues (placental trophoblast differentiation, heart EMT in endocardial cushion formation, cartilage morphogenesis, left-right patterning, pancreatic beta cell development, and endocrine system development). This suggests a cohesive theme of embryonic development and organ formation. Additional terms about mRNA splicing and ribosomal export reflect general gene-expression needs during development, reinforcing the idea of a developmental program rather than a single pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0060707","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060536","count":4}]},{"hash":"2084028101442869795","title":"Unknown","description":"The top GO terms are highly diverse, spanning plant pollen recognition, hepatocyte growth factor signaling, mammary gland development, apical constriction, fibrinolysis, immune cell migration, and phosphorylation regulation, with little overlap or a shared pathway. Zero edges/triangles further suggest the proteins in this cluster are not functionally connected, making it inappropriate to assign a cohesive, high-level label.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048544","count":2},{"id":"GO:0035729","count":2},{"id":"GO:0060763","count":1},{"id":"GO:0003383","count":1},{"id":"GO:0048012","count":1}]},{"hash":"1379506418378589759","title":"Unknown","description":"The top GO terms describe a highly diverse set of, seemingly unrelated processes (transcription regulation, mitochondrial energy production, DNA repair, polysaccharide transport, immune activation, cell migration, digestion, fibrinolysis), and there are no observed network connections (Edges 0, Triangles 0). This lack of a coherent shared function or pathway across the cluster supports labeling it Unknown.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0042775","count":1},{"id":"GO:0006281","count":1},{"id":"GO:0015774","count":1},{"id":"GO:0001867","count":1}]},{"hash":"331261876364771717","title":"Unknown","description":"This cluster includes terms from developmental morphogenesis (kidney and mammary gland development, apical constriction), signaling (HGF receptor pathway), cell adhesion, and even immune/fibrinolytic processes, with no single dominant shared function. There isn\u2019t a cohesive theme tying the GO terms together, so Unknown with no confidence.","confidence":"","size":24,"edges":6,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0033137","count":4},{"id":"GO:1902042","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0001867","count":3},{"id":"GO:0072218","count":3}]},{"hash":"1741159010068800591","title":"ECM adhesion and neural regeneration","description":"The cluster centers on extracellular matrix organization and cell\u2013matrix interactions (collagen fibril organization, hemidesmosome assembly, calcium-independent adhesion) and on neural development/regeneration processes (peripheral nervous system axon regeneration, regulation of axon extension, neurogenesis, Roundabout signaling). This suggests proteins functioning in ECM-mediated adhesion that shape axon growth and neural development, with some links to muscle differentiation, indicating a broader developmental signaling role.","confidence":"High","size":24,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":18},{"id":"GO:0014012","count":17},{"id":"GO:0048692","count":17},{"id":"GO:0034446","count":17},{"id":"GO:0031581","count":17}]},{"hash":"283957028661716863","title":"Neural signaling and sensory perception","description":"The top GO terms cluster around neuronal communication and sensory processing: visual perception, dopamine uptake in synaptic transmission, GPCR signaling, ERK/Rho signaling, and PI biosynthesis linked to signaling. While a couple terms relate to blood-related processes, the dominant theme is neuronal signaling and sensory pathways, justifying this label.","confidence":"High","size":24,"edges":80,"triangles":52,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":15},{"id":"GO:0070374","count":14},{"id":"GO:0008283","count":14},{"id":"GO:0051586","count":14},{"id":"GO:0010513","count":14}]},{"hash":"2260559691291716898","title":"BMP/WNT-Driven Development with Gonadal/Bone Formation","description":"This cluster shows strong signals for BMP signaling and its regulation, alongside activation of canonical WNT signaling and axis specification, plus bone trabecula formation and male gonad development. The presence of apoptosis regulation and prostaglandin response suggests broader developmental control, but the dominant theme ties BMP/WNT signaling to skeletogenesis and reproductive organ development.","confidence":"High","size":24,"edges":246,"triangles":1457,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071773","count":9},{"id":"GO:1902043","count":9},{"id":"GO:0008584","count":8},{"id":"GO:0046676","count":8},{"id":"GO:0030514","count":7}]},{"hash":"169612580833167748","title":"Muscle\u2013nerve\u2013vascular remodeling and signaling","description":"This cluster brings together GO terms for collagen fibril organization and regulation of angiogenesis (ECM remodeling and blood vessel formation), skeletal muscle tissue growth, and neuronal signaling (positive regulation of nerve impulse transmission and ion transport). There are also hints of immune involvement (innate immune response and receptor-mediated endocytosis) that commonly participate in tissue remodeling. Taken together, the proteins appear to function in coordinated tissue remodeling and signaling across muscle, nerve, and vascular contexts, with some immune activity.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0006898","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0048630","count":2}]},{"hash":"136389697509907419","title":"Innate immune activation: phagocytosis and complement","description":"The cluster is enriched with innate immune functions: phagocytosis recognition, complement activation (lectin pathway), and leukocyte tethering/rolling, suggesting a coordinated immune defense/inflammatory role. Additional signals like arachidonate secretion regulation support inflammatory pathways. Occasional kidney-development terms likely reflect broader regulatory associations or annotation noise, but the dominant theme centers on innate immunity.","confidence":"High","size":24,"edges":48,"triangles":26,"max_degree":20,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090238","count":21},{"id":"GO:0006910","count":21},{"id":"GO:0001867","count":20},{"id":"GO:0072218","count":20},{"id":"GO:0072237","count":20}]},{"hash":"1254970911024018027","title":"Oligodendrocyte differentiation and cell migration","description":"Top GO terms show enrichment for oligodendrocyte differentiation (positive regulation and differentiation) and cell migration processes (chemotaxis, epithelial cell migration), with related activities like receptor-mediated endocytosis and angiogenesis regulation. This points to a cluster potentially centered on glial development and migratory/vascular interactions. However, several terms (phosphate transport/homeostasis, response to polycyclic arene, female pregnancy) are less clearly connected, indicating some functional heterogeneity or annotation noise. Overall, the strongest and most coherent signal supports the oligodendrocyte/migration theme.","confidence":"Low","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048714","count":6},{"id":"GO:0006935","count":6},{"id":"GO:0006898","count":6},{"id":"GO:0045765","count":6},{"id":"GO:0030505","count":6}]},{"hash":"708867915369788728","title":"Zinc Ion Homeostasis and Transport","description":"The majority of top GO terms center on zinc handling\u2014intracellular zinc ion homeostasis, cadmium/zinc transport across membranes, detoxification of zinc, and zinc ion import\u2014indicating the cluster groups zinc acquisition and regulation processes. A peripheral term for limb development may reflect multifunctional proteins, but the core theme is zinc homeostasis and transport.","confidence":"High","size":24,"edges":221,"triangles":1153,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0006882","count":18},{"id":"GO:0070574","count":18},{"id":"GO:0010312","count":18},{"id":"GO:0034224","count":16},{"id":"GO:0006830","count":16}]},{"hash":"329533112816663423","title":"Glycosylation and glycosphingolipid biosynthesis","description":"Top GO terms cluster around N-glycosylation and glycosphingolipid pathways (N-glycan processing, protein N-linked glycosylation, protein sialylation, glycosylceramide metabolism, ganglioside biosynthesis, N-acetylneuraminate metabolism), suggesting a shared theme of glycosylation and glyco-lipid metabolism. Some terms related to pollen development appear incidental or reflect plant-specific roles, but the dominant signal is glycosylation/glycosphingolipid biosynthesis.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006054","count":2},{"id":"GO:0009860","count":2},{"id":"GO:0006677","count":2},{"id":"GO:1990743","count":2}]},{"hash":"1131774208523136580","title":"Lipoprotein remodeling and cholesterol transport","description":"Based on enriched GO terms such as triglyceride homeostasis, reverse cholesterol transport, HDL particle remodeling, and triglyceride transport, this cluster groups proteins involved in lipid handling and lipoprotein remodeling. Additional terms like LDL particle signaling, cholesterol storage, and foam cell differentiation reinforce a cholesterol-transport/theme linked to macrophage lipid processing. Overall, the cluster reflects lipid metabolism and lipoprotein remodeling functions rather than unrelated processes.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070328","count":4},{"id":"GO:0043691","count":4},{"id":"GO:0034375","count":4},{"id":"GO:0044130","count":3},{"id":"GO:0071223","count":3}]},{"hash":"146154021182031060","title":"Stress Hormone Signaling via cAMP-GPCR Pathways","description":"The cluster\u2019s top GO terms point to a core endocrine/cAMP signaling theme: general adaptation syndrome, corticotropin (ACTH) secretion, and cAMP biosynthesis/signaling linked to GPCR activity. This underscores stress hormone signaling through adenylate cyclase\u2013activating GPCR pathways. The presence of developmental terms (seminiferous tubule development, lung morphogenesis) and organ-identity/blood-brain barrier maintenance suggests additional roles in organ development and vascular/regulatory contexts, but the dominant signal is cAMP-mediated endocrine signaling in stress response.","confidence":"Medium","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0051867","count":22},{"id":"GO:0051458","count":22},{"id":"GO:0006171","count":22},{"id":"GO:0072520","count":22},{"id":"GO:0019933","count":22}]},{"hash":"1523968361970551407","title":"Cardiac GPCR signaling and energy metabolism","description":"The cluster is dominated by GO terms for adenylate cyclase-activating GPCR signaling and regulation of blood pressure, cardiac muscle contraction, and vasoconstriction, which point to heart-function regulation via GPCR pathways. Coupled with electron transport chain and heat generation terms, the proteins appear linked to mitochondrial energy production supporting cardiac activity. Some terms (e.g., operant conditioning, cell wall catabolic process) are less representative outliers, but do not outweigh the cardiovascular/metabolic theme. ","confidence":"High","size":24,"edges":7,"triangles":1,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":24},{"id":"GO:0045777","count":24},{"id":"GO:0022900","count":24},{"id":"GO:0001697","count":23},{"id":"GO:0035106","count":23}]},{"hash":"1295801189512822606","title":"Neural signaling and cardiovascular regulation","description":"This cluster is dominated by terms tied to neural communication and neuromodulation (endocannabinoid signaling modulating synaptic transmission, dopamine receptor signaling) as well as cardiovascular control (regulation of cardiac muscle contraction, vasoconstriction). While there are some outliers related to inflammatory response and metabolism, the central theme appears to be neuromodulatory signaling with downstream effects on heart vessels. Confidence: Medium","confidence":"","size":24,"edges":132,"triangles":298,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":23},{"id":"GO:0035106","count":23},{"id":"GO:0055117","count":23},{"id":"GO:0031649","count":23},{"id":"GO:1902239","count":23}]},{"hash":"1578076104430514901","title":"Rho-Dependent Actin Remodeling and Membrane Dynamics","description":"The dominant GO terms cluster around Rho GTPase\u2013regulated actin filament organization, actin cortical patches, and membrane tubulation, indicating a cohesive theme of cytoskeletal remodeling coupled with membrane dynamics. Additional terms touching synaptic plasticity and organelle fission fit within this core framework, suggesting the proteins act to reorganize the actin cytoskeleton and associated membrane structures under Rho signaling.","confidence":"Medium","size":23,"edges":246,"triangles":1632,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0007015","count":7},{"id":"GO:0097320","count":7},{"id":"GO:0060291","count":7}]},{"hash":"914780752028617470","title":"Plant stress responses and growth signaling","description":"These proteins map to plant-specific processes, spanning photosynthesis (chloroplast function), cell division and mitotic cycles (growth), and stress/defense signaling (dsRNA response, innate immunity, unfolded protein response, and hormone signaling like gibberellin and glucocorticoid-related pathways). The mixture suggests a cluster of plant proteins involved in coordinating growth with environmental and cellular stress responses, rather than a single narrow function. Confidence: Medium","confidence":"","size":23,"edges":16,"triangles":9,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":9},{"id":"GO:0015979","count":8},{"id":"GO:0071360","count":8},{"id":"GO:0045087","count":7},{"id":"GO:0006986","count":7}]},{"hash":"1839581758924977528","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030260","count":4},{"id":"GO:0039702","count":4},{"id":"GO:0010587","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0019068","count":4}]},{"hash":"90144278688635481","title":"Inflammatory signaling and chemokine regulation","description":"Based on the top terms, the proteins are enriched for inflammatory response and immune signaling, including regulation of chemokine production, NF-kappaB-related activity, and cytokine pathways (e.g., IL-12 regulation and TRAIL signaling). Some developmental terms appear incidental, but the dominant theme isflammation and cytokine/chemokine control.","confidence":"Medium","size":23,"edges":127,"triangles":292,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0042489","count":2},{"id":"GO:0051798","count":2},{"id":"GO:2000341","count":2}]},{"hash":"84200744736797920","title":"Ribosome biogenesis and translation","description":"The cluster is dominated by GO terms related to translation and ribosome biogenesis/assembly (translation, ribosomal subunit biogenesis, maturation of rRNA), indicating a core function in ribosome production and protein synthesis. Some outliers (antibiotic response, axon guidance) appear less representative, but the predominant signal clearly supports ribosome-related processes.","confidence":"High","size":23,"edges":224,"triangles":1274,"max_degree":22,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":16},{"id":"GO:0042273","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0000027","count":4},{"id":"GO:0046677","count":3}]},{"hash":"1545307085913538224","title":"Central Metabolism and Cofactor Biosynthesis","description":"The top GO terms cluster around core metabolic and cofactor-related processes: 2-oxoglutarate metabolism, beta-alanine biosynthesis, lipoate and thiamine biosynthesis, and cell redox homeostasis, suggesting a group of proteins focused on energy metabolism and vitamin/cofactor production. Some terms such as camphor catabolic process imply xenobiotic degradation typical in microbes and may reflect annotation breadth; a few developmental terms are likely distant or cross-species annotations and do not define the cluster\u2019s main function. Overall, the theme is metabolism and redox balance.","confidence":"Medium","size":23,"edges":136,"triangles":418,"max_degree":21,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0019383","count":19},{"id":"GO:0007369","count":18},{"id":"GO:0006103","count":18},{"id":"GO:0043046","count":18},{"id":"GO:0045454","count":18}]},{"hash":"573057598118666433","title":"Mitotic Cell Division","description":"The cluster is dominated by mitosis- and cell division-related GO terms (mitotic cell cycle, cell division, mitotic sister chromatid segregation), suggesting a core function in mitotic machinery. Other terms such as spinal cord development and ER-stress\u2013related apoptotic signaling appear less central, likely reflecting broader roles or annotation noise. Overall, the strongest shared theme is mitosis.","confidence":"High","size":23,"edges":122,"triangles":425,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021510","count":6},{"id":"GO:0055114","count":4},{"id":"GO:0019433","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1171532746907330110","title":"Neural development and myelination","description":"This cluster is dominated by terms tied to brain development and myelin formation\u2014synapse assembly, corpus callosum development, and myelination are prominent\u2014supported by RTK signaling and cholesterol-responsive processes. While a few terms touch on ECM and immune responses, the strongest signals point to neural development and myelin-related functions.","confidence":"High","size":23,"edges":81,"triangles":61,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0042552","count":4},{"id":"GO:0071372","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0050830","count":4}]},{"hash":"833689436184605230","title":"Ubiquitination and NF-kappaB/TNF Signaling","description":"This cluster is dominated by ubiquitination-related GO terms (autoubiquitination, ubiquitin-dependent proteolysis, polyubiquitination, ERAD-related) and by signaling pathways including TNF-mediated signaling and canonical NF-kappaB activation, with regulation of I-kappaB phosphorylation. Together, these terms suggest a cohesive role in ubiquitin-mediated protein turnover and inflammatory signaling through NF-kappaB.","confidence":"High","size":23,"edges":89,"triangles":171,"max_degree":20,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":16},{"id":"GO:0042787","count":16},{"id":"GO:0085020","count":15},{"id":"GO:0036205","count":15},{"id":"GO:1903265","count":15}]},{"hash":"1040028612350941915","title":"NF-\u03baB Signaling and Epigenetic Regulation in Immunity","description":"Top GO terms indicate strong NF-\u03baB pathway involvement (I\u03baB phosphorylation, TNF signaling) with ubiquitination and histone modification features, plus V(D)J recombination signals in lymphocytes. This suggests a cluster centered on TNF/NF-\u03baB\u2013driven immune signaling accompanied by chromatin regulation. ","confidence":"High","size":23,"edges":40,"triangles":19,"max_degree":11,"top_function":"autophagy","top_go_terms":[{"id":"GO:1903721","count":21},{"id":"GO:0033209","count":21},{"id":"GO:0009048","count":21},{"id":"GO:1901253","count":21},{"id":"GO:0033151","count":21}]},{"hash":"2147122945539130286","title":"Golgi trafficking and microtubule dynamics","description":"The dominant terms point to Golgi ribbon formation and endosome-to-Golgi transport, plus-end-directed vesicle movement along microtubules, and lysosome targeting, indicating a coherent module of intracellular trafficking coordinated by the cytoskeleton; other terms suggest broader cytoskeletal remodeling and cell movement that support this theme.","confidence":"Medium","size":23,"edges":197,"triangles":939,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0090161","count":3},{"id":"GO:0031115","count":2},{"id":"GO:0000743","count":2},{"id":"GO:0072383","count":2},{"id":"GO:0001966","count":2}]},{"hash":"338815777758771361","title":"Antibiotic and Cofactor Biosynthesis","description":"These proteins are enriched for biosynthetic processes spanning antibiotics (clavulanic acid), biotin, protoporphyrinogen IX/heme pathways, and related cofactors, with additional metabolism and energy-related terms (ATP synthesis, redox). The common thread is diverse biosynthesis of small molecules and cofactors rather than a single unified function, so this label best represents the cluster. ","confidence":"Medium","size":23,"edges":19,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0042773","count":3},{"id":"GO:0033050","count":3},{"id":"GO:0046300","count":3},{"id":"GO:0017000","count":3}]},{"hash":"1047904979268135533","title":"Cell adhesion and immune cell differentiation","description":"The cluster is enriched for GO terms on cell adhesion, regulation of integrin-mediated adhesion, and differentiation of T and B cells, with additional development-related terms (lung alveolus, trophectoderm) that may reflect shared morphogenetic programs. The common theme across proteins appears to be links between adhesion and immune/lineage development, supporting this label.","confidence":"Medium","size":23,"edges":164,"triangles":585,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006146","count":6},{"id":"GO:0007155","count":5},{"id":"GO:0060169","count":4},{"id":"GO:0048286","count":4},{"id":"GO:0060407","count":4}]},{"hash":"257589080300292623","title":"Protein homeostasis and sphingolipid metabolism","description":"The cluster emphasizes protein turnover and quality control, with GO terms for translation initiation regulation, preinitiation complex formation, COP9 signalosome assembly, deneddylation, and proteasome-mediated degradation, suggesting coordinated control of protein synthesis and degradation. It also includes ceramide transport and glycosphingolipid metabolism, indicating sphingolipid trafficking/metabolism, and a salicylic acid response hinting at stress signaling. Together these themes point to a combined role in maintaining proteome and membrane lipid homeostasis under stress.","confidence":"Medium","size":23,"edges":127,"triangles":303,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0010387","count":2},{"id":"GO:0043161","count":2},{"id":"GO:0000338","count":2}]},{"hash":"2268841274785625250","title":"Cell cycle regulation and cytokinesis","description":"The top GO terms are dominated by regulation of the cell cycle and cytokinesis (including mitotic cytokinesis and positive regulation of cytokinesis) alongside actin-related pseudopodium assembly, which together point to cell division machinery. Although there are adjacent development-related terms (neural and cardiac development), the strongest and most frequent signals relate to cell cycle control and cytokinesis, making this the most representative theme for the cluster.","confidence":"Medium","size":23,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":3},{"id":"GO:0030720","count":2},{"id":"GO:0031274","count":2},{"id":"GO:0032467","count":2},{"id":"GO:0051561","count":2}]},{"hash":"1918025911251932920","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0051092","count":2},{"id":"GO:0051436","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0070671","count":2}]},{"hash":"331967718084592668","title":"Neuronal development and dendritic spine formation","description":"This cluster is dominated by GO terms related to nervous system development and dendritic spine development, along with adherens junction organization, small GTPase\u2013mediated signaling, and protein-containing complex localization, suggesting a cohesive role in neuronal development and synaptic architecture and trafficking processes.","confidence":"Medium","size":23,"edges":173,"triangles":657,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":22},{"id":"GO:0007264","count":22},{"id":"GO:0046909","count":22},{"id":"GO:0060999","count":22},{"id":"GO:0007399","count":22}]},{"hash":"1369529588789900828","title":"Neural development and Wnt signaling cluster","description":"The cluster centers on neural plate development, glial cell fate determination, and endodermal fate commitment, with Wnt signaling playing a role in regulating apoptosis, pointing to a neural developmental program. Additional terms on transcriptional regulation and cell\u2013cell junctions suggest coordinated transcriptional control and epithelial interactions during development. Taken together, this supports naming the group for neural development with Wnt pathway regulation.","confidence":"High","size":23,"edges":10,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0048096","count":6},{"id":"GO:0001840","count":6},{"id":"GO:0048364","count":6}]},{"hash":"2156370471218345223","title":"Innate Immune Signaling and Ubiquitination","description":"This cluster centers on innate immune response and ubiquitin-related regulation, including K63-linked ubiquitination and autoubiquitination, with links to NF-kappaB signaling, and host antiviral defenses such as regulation of LPS signaling and suppression of viral processes. The shared theme is ubiquitin-mediated modulation of innate immune signaling and antiviral responses.","confidence":"High","size":23,"edges":11,"triangles":0,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":22},{"id":"GO:0045087","count":22},{"id":"GO:0051865","count":22},{"id":"GO:0031664","count":22},{"id":"GO:1901253","count":22}]},{"hash":"1624228365234573658","title":"Embryonic Development & Tissue Differentiation","description":"The cluster\u2019s top GO terms cluster around broad developmental processes across multiple tissues\u2014placental trophoblast differentiation, EMT in heart formation, cartilage morphogenesis, endocrine system development, left/right patterning, and pancreatic cell development\u2014indicating a shared theme of embryonic differentiation and organogenesis rather than a single pathway. This supports labeling as embryonic development and tissue morphogenesis. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0060806","count":5}]},{"hash":"1303027929135700655","title":"Immune signaling and GTPase-driven cytoskeleton remodeling","description":"The cluster is enriched for immune-related processes (IL-4 production, B cell affinity maturation, hematopoiesis, IL-7 response) and cytoskeletal dynamics governed by small GTPases (Rho/Rac/Ras, filopodium assembly). This suggests a functional unit where immune signaling intersects with actin remodeling in immune cells.","confidence":"High","size":23,"edges":230,"triangles":1350,"max_degree":22,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0046847","count":6},{"id":"GO:0046580","count":6},{"id":"GO:2001275","count":5},{"id":"GO:0035020","count":5}]},{"hash":"398763318716916439","title":"Coronary vasculature development and inflammatory signaling","description":"The top GO terms cluster around coronary artery morphogenesis, vasculogenesis, pericardium morphogenesis, and inflammatory signaling (including JAK-STAT regulation and response to muramyl dipeptide), suggesting a shared theme of heart vascular development linked to cytokine/inflammatory pathways, despite a few outlier terms. ","confidence":"Medium","size":23,"edges":27,"triangles":18,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060982","count":12},{"id":"GO:0006954","count":12},{"id":"GO:0044332","count":12},{"id":"GO:0003344","count":11},{"id":"GO:0007262","count":11}]},{"hash":"1750614750437240826","title":"Microtubule nucleation and cytoskeletal dynamics","description":"The GO terms show strong enrichment for microtubule nucleation, microtubule polymerization regulation, and cytoplasmic microtubule organization, with cell migration also represented. While a couple terms touch mitochondria and sterol biosynthesis, the dominant signal points to cytoskeletal/microtubule dynamics as the cluster\u2019s core function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007020","count":4},{"id":"GO:2001275","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0007205","count":3}]},{"hash":"702866918042519398","title":"Cranial nerve axon guidance and neural crest migration","description":"These proteins show a coherent theme in neural development, especially cranial nerve formation and axon pathfinding (commissural axon guidance, trigeminal and facial nerve development, retinal ganglion cell axon guidance) and neural crest cell migration (ventral trunk neural crest migration). Additional terms for signaling pathways (VEGF/neuropilin, HGF receptor signaling) and eye vasculature morphogenesis align with developmental processes guiding nerve growth and tissue patterning. Thus the cluster likely represents cranial nerve axon guidance integrated with neural crest migration.","confidence":"High","size":23,"edges":81,"triangles":140,"max_degree":13,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0071679","count":16},{"id":"GO:0036486","count":15},{"id":"GO:0060666","count":15},{"id":"GO:0048012","count":15},{"id":"GO:1902946","count":15}]},{"hash":"1885739096518423782","title":"Membrane trafficking and microtubule dynamics","description":"The cluster shows enrichment for membrane-related processes (protein insertion into membrane; protein targeting to membrane) and cytoskeletal dynamics (microtubule polymerization; microtubule bundle formation), suggesting a shared role in membrane-associated trafficking and microtubule organization. A couple of mitochondrial membrane potential/permeability terms hint at broader organelle membrane regulation, and a single bitter taste receptor term reinforces a membrane-associated context rather than a single signaling pathway. Overall, a membrane- and cytoskeleton-focused function is most consistent. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010940","count":1},{"id":"GO:0010917","count":1},{"id":"GO:0035794","count":1},{"id":"GO:0046785","count":1},{"id":"GO:0001578","count":1}]},{"hash":"1672597918777044309","title":"Unknown","description":"The top GO terms span disparate biological areas, including infection structure formation, protein glycosylation, neural development (Purkinje cell layer), lactose biosynthesis, reproductive processes (sperm\u2013zona pellucida interactions, acrosome regulation), and wound-healing\u2013related angiogenesis and epithelial proliferation, with no single cohesive function linking them all.","confidence":"","size":23,"edges":134,"triangles":399,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":20},{"id":"GO:0006486","count":19},{"id":"GO:0021680","count":19},{"id":"GO:0005989","count":19},{"id":"GO:0045136","count":19}]},{"hash":"1751188441192510577","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030260","count":1},{"id":"GO:0039702","count":1},{"id":"GO:0010587","count":1},{"id":"GO:0000398","count":1},{"id":"GO:0019068","count":1}]},{"hash":"210573573981707104","title":"Membrane Transport and Oxidative Stress Regulation","description":"The cluster\u2019s top GO terms cluster around membrane transport activities (chloride transmembrane transport, protein transport, arsenite transport) and regulation of reactive oxygen species/metabolic processes, plus inflammatory response regulation and hydrogen peroxide metabolism. This suggests a cohesive theme centered on membrane transport coupled with ROS signaling and inflammatory regulation, with other terms reflecting broader cellular roles. Confidence in this label is Medium.","confidence":"","size":23,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1902476","count":2},{"id":"GO:0015031","count":2},{"id":"GO:2000379","count":2},{"id":"GO:0050727","count":2},{"id":"GO:0042743","count":2}]},{"hash":"1462016712993442095","title":"Neurodevelopment and synaptic morphogenesis","description":"The cluster\u2019s top GO terms center on synapse assembly, trans-synaptic signaling, and dendritic spine development, pointing to neuronal connectivity and synaptic formation. While there are also limb/organ morphogenesis terms (eye, nephric duct, roof of mouth), these likely reflect broader developmental processes that can accompany neurodevelopment. A few apoptosis-related terms may reflect regulatory processes during development rather than a primary function, but they don\u2019t override the strong neural synapse theme. Overall, the label captures the main tendency toward neural development and synaptic structuring.","confidence":"Medium","size":23,"edges":209,"triangles":1177,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":11},{"id":"GO:0048593","count":11},{"id":"GO:2001241","count":10},{"id":"GO:0006924","count":9},{"id":"GO:0002042","count":8}]},{"hash":"613871209513065476","title":"Embryonic development and organogenesis","description":"The top GO terms point to diverse embryonic and organ-forming processes (endocardial cushion formation/EMT, cartilage morphogenesis, left-right patterning, endocrine system development, pancreatic islet development, placental differentiation, roof of mouth development), suggesting the cluster centers on vertebrate developmental biology rather than a single pathway. A few terms are housekeeping (ribosomal export), but the dominant signal is embryogenesis and morphogenesis across tissues.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":8},{"id":"GO:0060536","count":8},{"id":"GO:0060972","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0003323","count":8}]},{"hash":"1381184820429058717","title":"Vascular development and coagulation","description":"These terms cluster around blood vessel formation and remodeling, including angiogenesis and vessel morphogenesis (dorsal aorta, endocardial cushion formation), plus cell adhesion and migration. They also cover coagulation and fibrinolysis processes (plasminogen activation, fibrinolysis regulation, blood coagulation). Together, they point to a program governing vascular development and hemostatic regulation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0090050","count":4},{"id":"GO:0031639","count":4},{"id":"GO:0051919","count":4},{"id":"GO:0007596","count":4}]},{"hash":"2168287293304319002","title":"Complement Activation in Development and Synapse Maturation","description":"The GO terms show strong enrichment for all three complement activation pathways (classical, alternative, lectin) and MAC activation, alongside development-related terms such as embryonic development, single fertilization, Purkinje cell layer development, and synapse maturation. This suggests a theme where complement components participate in developmental processes and neural synapse maturation, with regulatory signals like PKC signaling providing supporting context.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001970","count":20},{"id":"GO:0006958","count":17},{"id":"GO:0006957","count":16},{"id":"GO:0001701","count":16},{"id":"GO:0007338","count":16}]},{"hash":"1983847698659887790","title":"Embryonic development and organ morphogenesis","description":"The top GO terms point to diverse developmental processes across multiple tissues (placental development, heart EMT, cartilage morphogenesis, endocrine organ development, left-right patterning, pancreatic cell development, melanocyte migration, cochlear morphogenesis, and sensory development). This suggests a broad theme of embryogenesis and organ formation rather than a single specific function, so the label reflects a general developmental/morphogenetic cluster.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060806","count":4}]},{"hash":"1750804585342893207","title":"Angiogenesis and vascular remodeling","description":"This cluster is enriched for terms linked to cardiovascular development and vascular dynamics, including positive regulation of sprouting angiogenesis, PDGF production, smooth muscle cell proliferation, and blood pressure regulation, all pointing to vascular formation and regulation. While a few terms (e.g., obsolete apoptosis regulation and keratinocyte differentiation) seem broader or unrelated, the strongest common thread is angiogenesis and vascular remodeling. Confidence: Medium","confidence":"","size":23,"edges":143,"triangles":481,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043154","count":23},{"id":"GO:0003344","count":23},{"id":"GO:0048661","count":23},{"id":"GO:0061476","count":23},{"id":"GO:0090050","count":23}]},{"hash":"2268423090721603536","title":"Cell-ECM adhesion and axon guidance","description":"The cluster is enriched for adhesion and extracellular matrix terms (substrate adhesion-dependent spreading, hemidesmosome assembly, cell-matrix adhesion, collagen fibril organization, homophilic cell-cell adhesion) along with neural development/regeneration terms (PNS axon regeneration, axon fasciculation, regulation of axon extension). This suggests a cohesive module focused on cell-ECM interactions and their roles in neuronal development and axon guidance.","confidence":"High","size":23,"edges":39,"triangles":24,"max_degree":12,"top_function":"wound healing","top_go_terms":[{"id":"GO:0034446","count":16},{"id":"GO:0031581","count":16},{"id":"GO:0014012","count":15},{"id":"GO:0048692","count":15},{"id":"GO:0007161","count":15}]},{"hash":"1391143375289540383","title":"Kidney development and innate immune signaling","description":"This cluster combines clear signals of renal development (metanephric and mesonephric duct development, proximal tubule development) with immune-related pathways (complement activation via lectin pathway, Fc-gamma receptor signaling, leukocyte tethering/rolling, NK cell chemotaxis regulation, and inflammatory mediators). The shared theme appears to be a link between developing kidney tissue and immune cell interactions or innate immune signaling, with additional cues from adhesion and stress responses that can modulate tissue formation. ","confidence":"Medium","size":23,"edges":218,"triangles":1152,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":4},{"id":"GO:0072218","count":3},{"id":"GO:0072237","count":3},{"id":"GO:0060355","count":3},{"id":"GO:0090238","count":3}]},{"hash":"1172171552330103724","title":"Unknown","description":"The top terms span immune signaling (response to vitamin D, NOD2 pathway, macrophage chemotaxis), neural differentiation (oligodendrocyte differentiation), cell movement, lipid catabolism, gene regulation, and cell cycle, with no single process dominating; therefore there is no clear, cohesive function tying the cluster together.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":5},{"id":"GO:0048709","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0007205","count":4},{"id":"GO:0010760","count":3}]},{"hash":"335923664176837524","title":"Angiogenesis and Organ Development with Inflammation","description":"Top GO terms cluster around vascular development and tissue morphogenesis, including positive regulation of VEGF production and sprouting angiogenesis, alongside inflammatory response and diverse organ development terms (skeletal system, palate, gonads). This suggests a coherent theme of angiogenesis-linked developmental remodeling accompanied by inflammation.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010575","count":5},{"id":"GO:0006954","count":5},{"id":"GO:0001501","count":5},{"id":"GO:0071504","count":5},{"id":"GO:0010951","count":4}]},{"hash":"101284584777083860","title":"Multisystem Signaling and Development","description":"The listed GO terms cover signaling and stimulus responses across neural, hormonal, immune, and developmental contexts (cell surface receptor signaling, synapse assembly, estradiol response, cocaine response, complement activation, and metanephric development). This breadth suggests no single cohesive function but rather diverse signaling/development roles across organs.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":2},{"id":"GO:0007166","count":2},{"id":"GO:0051965","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0010951","count":2}]},{"hash":"1878397323526818708","title":"Innate Immunity and Phagocytosis Module","description":"This cluster is enriched for complement activation (classical pathway), innate immune response, receptor-mediated endocytosis, apoptotic cell clearance, and inflammatory cytokine regulation, indicating phagocyte-like functions (macrophages/dendritic cells) in recognizing, internalizing, clearing apoptotic cells, and signaling during inflammation. Some other terms (lipoprotein transport, spinal cord development) may reflect broader cellular roles, but the dominant theme is innate immunity and phagocytosis.","confidence":"High","size":23,"edges":38,"triangles":13,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":18},{"id":"GO:0045087","count":17},{"id":"GO:0021510","count":17},{"id":"GO:0070207","count":17},{"id":"GO:0042953","count":17}]},{"hash":"1945709938657295058","title":"GPCR-cAMP Signaling and Energy Metabolism","description":"The top GO terms are dominated by electron transport chain (energy production) and adenylate cyclase-activating GPCR signaling (cAMP production), with additional ties to blood pressure regulation and Rho signaling, plus stress and developmental processes. This suggests a cluster where GPCR-cAMP signaling interfaces with mitochondrial energy metabolism, rather than a single linear pathway, justifying a combined label that captures both signaling and metabolic roles. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":22},{"id":"GO:0010579","count":21},{"id":"GO:0045777","count":21},{"id":"GO:0035025","count":20},{"id":"GO:0051867","count":13}]},{"hash":"507232704915987373","title":"Amino acid transport across the plasma membrane","description":"This cluster centers on import of amino acids (methionine, arginine, ornithine, lysine, D-alanine) and related substrates (GABA) across the plasma membrane, plus arginine-related metabolism and nitric oxide production, indicating transporter-mediated amino acid uptake.","confidence":"High","size":23,"edges":24,"triangles":2,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0044690","count":16},{"id":"GO:0097638","count":16},{"id":"GO:0097640","count":16},{"id":"GO:0015812","count":16},{"id":"GO:0097639","count":16}]},{"hash":"1646900953898057787","title":"Neural development and myelination","description":"This cluster is dominated by GO terms related to nervous system development, synapse assembly, axon paranode localization, peripheral nervous system development, chemotaxis of interneurons, and myelination, with supporting terms on cell adhesion. The convergence on synapse formation, axon\u2013glia interactions, and myelination suggests a cohesive theme around neural development and the establishment and maturation of neural circuits. Hedgehog signaling (Smoothened) and interneuron migration further reinforce the neural development focus, making \"Neural development and myelination\" a precise, representative label.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":8},{"id":"GO:0007156","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0045663","count":6},{"id":"GO:0002175","count":6}]},{"hash":"773756692036669564","title":"Coagulation and tissue remodeling in development","description":"The terms center on plasminogen activation, fibrinolysis, and blood coagulation, with supporting terms for tissue remodeling, cell adhesion, and morphogenesis (face morphogenesis, mesonephric duct development) and HGF receptor signaling. This points to a cohesive theme of extracellular matrix remodeling and morphogenesis during development, balancing coagulation with remodeling processes.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051919","count":5},{"id":"GO:0031639","count":5},{"id":"GO:0007596","count":5},{"id":"GO:1902042","count":4},{"id":"GO:0060325","count":4}]},{"hash":"366147051922388640","title":"Transmembrane nutrient and ion transporters","description":"The top GO terms are all transmembrane transport activities for a variety of substrates (nitrate/nitrite, galactose, vitamins, phosphate, potassium, sialic acid, fucose, 4-hydroxyphenylacetate, etc.), with no apparent enzymatic processes. This pattern strongly suggests a cluster of membrane transporter proteins involved in substrate uptake and ion transport.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":8},{"id":"GO:0015757","count":7},{"id":"GO:0035461","count":7},{"id":"GO:1900754","count":7},{"id":"GO:0035435","count":7}]},{"hash":"218803025553898262","title":"Developmental signaling and organ homeostasis","description":"The top GO terms point to broad signaling and homeostatic processes across development and organ function, including GPCR-PLC signaling, cAMP biosynthesis, VEGF signaling and production, growth hormone secretion, planar polarity, synapse maintenance, and surfactant-related and organ-identity maintenance. Together these suggest a cluster of proteins involved in coordinating developmental signaling with tissue and vascular homeostasis.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051867","count":23},{"id":"GO:0043129","count":23},{"id":"GO:0099558","count":23},{"id":"GO:1900747","count":23},{"id":"GO:0030252","count":23}]},{"hash":"1137542881733618628","title":"DNA replication and telomere maintenance","description":"This cluster is dominated by GO terms tied to DNA replication and telomere biology, including DNA replication, DNA integration, and positive regulation of telomere maintenance via telomerase and telomere capping. While a few terms point to broader processes like ubiquitination, cell migration, or mechanotransduction, the recurring theme centers on genome maintenance and regulation of telomeres, suggesting a functionally cohesive group related to genome stability and cell cycle regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0006260","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0033280","count":3},{"id":"GO:0016567","count":3}]},{"hash":"217380860568004548","title":"Neural development and axonogenesis","description":"The cluster\u2019s terms point to brain development (midbrain, lateral ventricle) and axonogenesis, implying roles in neural differentiation and nerve formation. Supporting terms on transcriptional regulation and signaling (RNA Pol II repression, NFAT signaling, GTPase activity) reflect regulatory processes that orchestrate neuronal development.","confidence":"Medium","size":22,"edges":54,"triangles":32,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0021670","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051531","count":2}]},{"hash":"368251539048671999","title":"Unknown","description":"The top GO terms are a mix of immune-related processes (GM-CSF response, NK T cell differentiation, B cell affinity maturation, NFAT signaling) with developmental terms (heart development, sensory perception of sound) and general regulatory processes (miRNA catabolic process, CDK activity regulation). There is no single cohesive function uniting these terms, so a specific label isn\u2019t feasible.","confidence":"","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097011","count":3},{"id":"GO:0010587","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0010763","count":2}]},{"hash":"2024366251384864185","title":"Transposable elements and proviral integration","description":"These terms cluster around DNA transposition, DNA integration, and retrotransposition, plus DNA recombination, pointing to mobility of genetic elements. The presence of GO terms for viral penetration into the host nucleus and establishment of integrated proviral latency, along with symbiont entry and apoptosis activation, suggests proteins involved in host-cell invasion and endosymbiotic or viral genome integration. Taken together, the proteins likely function in transposable element activity and proviral integration processes.","confidence":"Medium","size":22,"edges":17,"triangles":1,"max_degree":5,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006313","count":9},{"id":"GO:0015074","count":9},{"id":"GO:0075732","count":8},{"id":"GO:0075713","count":8},{"id":"GO:0046718","count":8}]},{"hash":"725484551138919939","title":"ABA-responsive chromatin maintenance in plants","description":"This cluster centers on plant-specific processes interfacing chromatin organization and genome maintenance (nucleosome assembly, telomere loop formation, G-quadruplex DNA) with ABA signaling and seed/chlorophyll-related regulation, suggesting a cohesive theme of ABA-regulated chromatin/genome integrity in plants. Some outlier terms like viral process may reflect broad GO annotations, but the core pattern points to nuclear chromatin maintenance modulated by ABA in plants.","confidence":"Medium","size":22,"edges":17,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009737","count":3},{"id":"GO:0016032","count":3},{"id":"GO:0009301","count":2},{"id":"GO:0010380","count":2},{"id":"GO:0031848","count":2}]},{"hash":"997802070115922822","title":"Embryogenesis and placental organogenesis","description":"This cluster centers on developmental processes, especially placenta formation (trophoblast giant cell differentiation, placental development), heart-associated EMT for endocardial cushion formation, left-right patterning, cartilage morphogenesis, and endocrine system development. The presence of transcription regulation terms (negative regulation of transcription by RNA polymerase II, regulation of DNA-templated transcription) alongside these embryonic processes suggests a cohesive role in controlling gene expression during early development and organogenesis, with a notable emphasis on placental lineage.","confidence":"High","size":22,"edges":31,"triangles":11,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060536","count":3}]},{"hash":"1938054945796015081","title":"Cell cycle, development, and stress response","description":"This cluster includes mitotic processes (mitotic sister chromatid cohesion, mitotic cell cycle), developmental terms (forebrain and skeletal system development), transcription regulation (DNA-templated transcription), and various stress/defense responses (ER-stress\u2013triggered apoptosis, cadmium response, defense against Gram-positive bacteria). The shared theme is broad cellular growth and regulation with stress adaptation, spanning cell division, gene expression, and developmental context.","confidence":"Medium","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007064","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0070059","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0030900","count":4}]},{"hash":"969333934559722180","title":"Embryonic Development and Organogenesis","description":"The cluster is enriched for terms spanning placental lineages, EMT in heart development, cartilage formation, endocrine organ development, left-right patterning, and pancreatic cell development, plus general transcription/splicing processes\u2014together pointing to broad embryonic development and organogenesis rather than a single pathway.","confidence":"High","size":22,"edges":31,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0060806","count":5}]},{"hash":"1896778424613506460","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Regulation","description":"The cluster is dominated by GO terms for ubiquitin-dependent proteolysis and SCF-dependent degradation, plus positive regulation of polyubiquitination, and several cell-cycle/DNA replication\u2013related terms (mitotic G1 checkpoint, replication initiation). This points to a cohesive function around proteostasis via the ubiquitin-proteasome system with tight control of cell-cycle progression and DNA damage response, with some additional links to circadian and metal-stress responses.","confidence":"High","size":22,"edges":35,"triangles":20,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0042752","count":7},{"id":"GO:0031146","count":6},{"id":"GO:0071276","count":6},{"id":"GO:0001556","count":5}]},{"hash":"429688682010678089","title":"Lymphocyte signaling and migration","description":"The cluster is dominated by immune-related processes: T cell receptor signaling, B cell affinity maturation, NK T cell differentiation, and IL-7/IL-4\u2013related responses, coupled with cell migration and lamellipodium assembly, suggesting coordination of lymphocyte activation and movement. While a couple terms like heart development and insulin signaling are broader, the strongest signals point to immune cell signaling and trafficking.","confidence":"High","size":22,"edges":217,"triangles":1289,"max_degree":21,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":14},{"id":"GO:0035023","count":14},{"id":"GO:0008286","count":14},{"id":"GO:0030032","count":14},{"id":"GO:0050852","count":13}]},{"hash":"1200435279200250283","title":"Unknown","description":"The GO terms are dispersed across lipid metabolism, innate immune signaling, mRNA stability, cell cycle/growth, and post-translational modification, with only a few terms each and a sparsely connected network (one edge, no triangles). This suggests there is no single cohesive function tying the cluster together.","confidence":"","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046475","count":2},{"id":"GO:1901594","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0043488","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1840608781243896203","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0002188","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0000466","count":5},{"id":"GO:0006351","count":4}]},{"hash":"651658643299402892","title":"Unknown","description":"The proteins map to a broad mix of functions including heat response, tRNA modification, xenobiotic response, redox processes, neural differentiation, hormonal regulation, fibrinolysis, insulin processing, and liver regeneration, with no single dominant shared theme. This lack of a coherent common function makes a specific, representative label inappropriate.","confidence":"","size":22,"edges":21,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":4},{"id":"GO:0002098","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0021702","count":3}]},{"hash":"259477107771398730","title":"Nuclear chromatin regulation and stress responses","description":"Top terms point to nuclear/chromatin regulation (protein localization to chromatin, regulation of rRNA processing, poly-ADP-ribosylation) together with stress and development signals (apoptotic process, cadmium ion response, innate immune response, neuron differentiation). This pattern suggests a cluster of chromatin-regulatory proteins engaged in transcriptional control and cellular stress responses, rather than a single cytoplasmic pathway.","confidence":"Medium","size":22,"edges":26,"triangles":17,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000902","count":5},{"id":"GO:0006915","count":4},{"id":"GO:2000232","count":4},{"id":"GO:0045666","count":4},{"id":"GO:0071169","count":4}]},{"hash":"156830877387358054","title":"Redox homeostasis and transcription regulation","description":"These proteins show strong enrichment for oxidation-reduction and redox homeostasis terms, plus cellular oxidant detoxification and protein repair, suggesting a core role in maintaining redox balance and repairing oxidative damage. The presence of DNA-templated transcription and transcription regulation terms indicates nuclear regulatory functions that may be modulated by redox state. Together, the cluster appears to couple redox maintenance with transcriptional control and protein maintenance activities.","confidence":"Medium","size":22,"edges":154,"triangles":609,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":19},{"id":"GO:0045454","count":18},{"id":"GO:0098869","count":15},{"id":"GO:0030091","count":15},{"id":"GO:0006351","count":14}]},{"hash":"139918528122818648","title":"Retroviral Integration and Latency","description":"The GO terms include DNA replication, RNA-templated DNA biosynthetic process (reverse transcription), DNA integration, and proviral latency, all hallmarks of the retrovirus life cycle. Additional terms like viral penetration into the host nucleus and establishment of integrated proviral latency reinforce a theme of viral genome integration and dormancy within the host. A few host-response terms (e.g., regulation of RNA silencing) reflect host\u2013pathogen interactions. Together these point to a functional cluster centered on retroviral genome integration and latency.","confidence":"High","size":22,"edges":12,"triangles":1,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0006278","count":3},{"id":"GO:0075732","count":3},{"id":"GO:1903704","count":3}]},{"hash":"1754592446642509934","title":"Telomere regulation and cell-cycle remodeling","description":"The cluster includes telomere maintenance and capping regulators, mitotic spindle and CDK activity control, plus broader growth-differentiation signals such as cell migration, muscle stretch response, fat-cell differentiation, and RNA processing. The common thread appears to be regulation of genome stability and cell-division programs with links to differentiation, supported by post-translational modification such as ADP-ribosylation.","confidence":"Medium","size":22,"edges":10,"triangles":2,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032212","count":10},{"id":"GO:1904355","count":9},{"id":"GO:0016477","count":9},{"id":"GO:0035994","count":9},{"id":"GO:0006397","count":8}]},{"hash":"176501309225414098","title":"Transmembrane transport of small nutrients","description":"The proteins are enriched for transmembrane transport of small nutrients (glucose, inositol, biotin, pantothenate), suggesting a cohesive role as nutrient transporters across membranes, while acetylcholine biosynthesis appears as a secondary function in a subset.","confidence":"High","size":22,"edges":100,"triangles":171,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":13},{"id":"GO:0071436","count":13},{"id":"GO:0015798","count":13},{"id":"GO:0015878","count":13},{"id":"GO:0015887","count":13}]},{"hash":"1223117746097132492","title":"Cell Cycle and Division","description":"The cluster shows strong enrichment for cell cycle and cell division terms (GO:0007049, GO:0051301), suggesting a cohesive set of proteins involved in proliferative processes. While other terms (DNA catabolic process, RNA hydrolysis, mitochondrial tRNA aminoacylation) appear, they may reflect ancillary or context-dependent roles, with the core signal pointing to cell cycle\u2013related functions.","confidence":"High","size":22,"edges":23,"triangles":11,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0006308","count":2},{"id":"GO:0090503","count":2},{"id":"GO:0051260","count":2},{"id":"GO:2001275","count":2}]},{"hash":"245412308201513957","title":"Immune signaling and phagocytosis","description":"This cluster is enriched for GO terms related to immune function and cell signaling, including phagocytosis, response to lipopolysaccharide, T and B cell signaling, and NF-kappaB regulation, with additional hints from PI3K/PTEN signaling and proteasome assembly. Although a term like metamorphosis is present, the dominant pattern points to immune activation and pathogen response pathways, suggesting these proteins work together in immune signaling and phagocytic processes.","confidence":"Medium","size":22,"edges":175,"triangles":807,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0006909","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0030889","count":3},{"id":"GO:0043248","count":2}]},{"hash":"818924499406075313","title":"Neural and tissue morphogenesis","description":"The top GO terms cluster around development of neural, muscular, and epithelial tissues (CNS development, innervation, glial signaling, smooth muscle contraction, epithelial migration, basement membrane development). A couple of terms (lipoteichoic acid biosynthesis, choline biosynthesis) seem unrelated and may reflect annotation noise, but the overall pattern supports tissue morphogenesis and neural innervation.","confidence":"Medium","size":22,"edges":50,"triangles":74,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":13},{"id":"GO:0060686","count":13},{"id":"GO:0040037","count":13},{"id":"GO:0014846","count":13},{"id":"GO:0042425","count":13}]},{"hash":"2137601441274745544","title":"Cardiac calcium signaling and metabolic regulation","description":"This cluster centers on heart-specific processes, including ventricular cardiac muscle tissue morphogenesis and regulation of cardiac conduction, and calcium handling via Ryanodine receptor activity. It is complemented by metabolic signals (glucose response, insulin secretion, fatty acid regulation) and stress/ remodeling pathways (oxidative stress response, TGF-beta signaling), suggesting a theme of integrated cardiac signaling and metabolism with calcium dynamics.","confidence":"Medium","size":22,"edges":48,"triangles":40,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0042542","count":4},{"id":"GO:0060315","count":4},{"id":"GO:0061179","count":4},{"id":"GO:0055010","count":4},{"id":"GO:0045717","count":4}]},{"hash":"809501017165879615","title":"Innate Immune Signaling and Cytoskeletal Regulation","description":"The cluster shows enrichment for innate immune response and NF-kappaB-related signaling, plus links to cytoskeletal dynamics (microtubule localization, microtubule depolymerization, actin ubiquitination) and proteostasis (aggresome assembly). Terms about viral entry and viral transcription regulation suggest antiviral defense involving cytoskeletal remodeling during infection. Overall, these proteins likely coordinate innate immune signaling with cytoskeletal regulation in viral contexts.","confidence":"High","size":22,"edges":17,"triangles":2,"max_degree":8,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0035372","count":9},{"id":"GO:0046598","count":8},{"id":"GO:0045869","count":8}]},{"hash":"1721251596662386343","title":"Apoptosis and Heart/Muscle Development","description":"The cluster is enriched for apoptotic process, heart development, and skeletal muscle tissue development, with consistent signals for angiogenesis and wound response. This points to a theme where programmed cell death interfaces with cardiovascular and muscle tissue formation, plus vascular remodeling, making the label \u201cApoptosis and Heart/Muscle Development\u201d representative of the dominant functions.","confidence":"High","size":22,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0001525","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007519","count":3},{"id":"GO:0006355","count":2}]},{"hash":"540345112335874000","title":"TLR-MyD88 NF-kB\u2013driven chemokine and cytokine production","description":"The cluster\u2019s top GO terms point to innate immune signaling via MyD88-dependent TLR pathways, NF-kB activation, and regulation/production of chemokines (like CXCL2) and cytokines (IL-23, IL-17). There are also responses to peptidoglycan and fungal molecules, and a term related to endothelial barrier processes, all of which together indicate coordinated inflammatory signaling and chemokine/cytokine output typical of innate immune responses at mucosal interfaces. High confidence in this thematic label. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:2000341","count":2},{"id":"GO:0045080","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0032747","count":2}]},{"hash":"1256143037504021787","title":"Mobile genetic elements and proviral integration","description":"This cluster shows enrichment for DNA transposition, RNA-templated DNA biosynthesis, DNA recombination, and establishment of integrated proviral latency, all pointing to movement of genetic elements within genomes (transposons, retroelements) and their interactions with host DNA, plus related viral entry and host response terms. The combination suggests a coherent theme around mobile genetic elements and proviral/viral integration within host contexts, with some annotations reflecting host-microbe interactions.","confidence":"Medium","size":22,"edges":73,"triangles":60,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0090305","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0006278","count":2},{"id":"GO:0075732","count":2}]},{"hash":"1020962778112356265","title":"Chromatin modification and neurodevelopment regulation","description":"The cluster centers on histone modification and chromatin interactions (deacetylation, methylation, chromatin binding) and genes involved in neuron projection development and maturation, suggesting a core role in regulating gene expression programs during neural differentiation, with some additional links to splicing and stem cell processes. Some terms appear less directly connected (fungicide response, thiamine biosynthesis), but the dominant theme remains chromatin regulation tied to neural development.","confidence":"Medium","size":22,"edges":156,"triangles":652,"max_degree":19,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0051573","count":20},{"id":"GO:0046886","count":20},{"id":"GO:0035563","count":20},{"id":"GO:0010976","count":20},{"id":"GO:0042551","count":20}]},{"hash":"2291743298394029612","title":"Axon guidance in facial, trigeminal, and autonomic nerves","description":"These proteins cluster around neural development and axon pathfinding, with strong representation of facial/trigeminal nerve structure, trigeminal ganglion development, sympathetic neuron projection, neural crest migration in autonomic nervous system, and semaphorin-plexin signaling in axon guidance. Some VEGF signaling and vascular morphogenesis terms may relate to neural crest\u2013derived tissues or neurovascular interactions, but the dominant theme is axon guidance and peripheral nerve morphogenesis in cranial and autonomic contexts.","confidence":"High","size":22,"edges":63,"triangles":75,"max_degree":12,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0021612","count":15},{"id":"GO:1902287","count":15},{"id":"GO:0097490","count":15},{"id":"GO:0061551","count":15},{"id":"GO:0048843","count":15}]},{"hash":"2182091829826624270","title":"Embryonic morphogenesis and organ development","description":"This cluster centers on embryogenesis and organ morphogenesis, with GO terms for placenta morphogenesis, trophoblast differentiation, heart EMT in endocardial cushion formation, cartilage morphogenesis, left-right patterning, endocrine system development, and pancreatic cell development, suggesting a developmental program rather than a single tissue function; a few terms (NF-kappaB regulation, viral entry) may reflect noise.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0060669","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0060536","count":7},{"id":"GO:0035270","count":7}]},{"hash":"102440010232211891","title":"Bacterial cell wall remodeling and amino acid transport","description":"The cluster is dominated by GO terms tied to cell wall dynamics (cell wall macromolecule catabolic process; peptidoglycan metabolic process; cell wall organization) and nutrient handling (amino acid transport; L-phenylalanine biosynthetic process; methanol catabolic process; ectoine transmembrane transport), suggesting a bacterial module focused on envelope remodeling and amino acid metabolism/transport. Some outliers (ER-Golgi transport, visual perception, liver regeneration) likely reflect annotation noise or cross-domain assignments rather than a shared function. Overall, the strongest signal points to bacterial cell wall processes and amino acid transport.","confidence":"Medium","size":22,"edges":148,"triangles":435,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0016998","count":3},{"id":"GO:0050908","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0097421","count":2},{"id":"GO:0006865","count":2}]},{"hash":"885553335462416702","title":"Neural apoptosis and immune signaling","description":"The cluster shows a mix of neural-related processes (short-term memory, behavioral fear response, neuron apoptotic process) with immune-related activities (immune response to tumor cell, complement activation, membrane attack complex regulation). It also includes intrinsic apoptotic signaling and protein homooligomerization, suggesting a stress-related neural module that interfaces with immune signaling rather than a single straightforward pathway.","confidence":"Medium","size":22,"edges":61,"triangles":56,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007614","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0008631","count":2},{"id":"GO:0008635","count":2},{"id":"GO:0051402","count":2}]},{"hash":"1649704307676463787","title":"Gonadal hormone and prostaglandin/oxylipin metabolism","description":"Rooted in lipid-derived hormone signaling with gonadal development, as shown by enriched prostaglandin and oxylipin biosynthesis (GO:0001516, GO:0031408) and androgen metabolism (GO:0008209), alongside sex-development terms (GO:0060065, GO:0008585). Also presents vitamin D response (GO:0033280) and epoxygenase P450 pathways (GO:0019373), suggesting a broader lipid hormone/metabolism theme that relates to reproductive development. Some terms (insecticide metabolism, macrophage chemotaxis) are more peripheral but may reflect broader detox or immune-related metabolic activities. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":6},{"id":"GO:0060065","count":5},{"id":"GO:0008585","count":5},{"id":"GO:0001516","count":5},{"id":"GO:0008209","count":4}]},{"hash":"950989745717383881","title":"Neural crest migration and axon guidance","description":"This cluster is dominated by terms related to neural crest\u2013driven development (ventral trunk neural crest migration, trigeminal ganglion development, facial nerve structure) and axon guidance in the retina and peripheral nervous system (retina ganglion cell axon guidance, sympathetic neuron projection), with supporting signaling (HGF receptor signaling) and related trafficking (endosome localization). The overarching theme is neural development and precise axon pathfinding.","confidence":"High","size":22,"edges":227,"triangles":1464,"max_degree":21,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0036486","count":17},{"id":"GO:0060666","count":17},{"id":"GO:0048012","count":17},{"id":"GO:1902946","count":17},{"id":"GO:0061299","count":17}]},{"hash":"1525204122789197013","title":"Embryonic development and tissue morphogenesis","description":"This cluster is dominated by GO terms tied to development and morphogenesis across tissues (placenta/trophoblast differentiation, endocrine system development, left\u2013right pattern formation, cartilage morphogenesis, pancreatic cell development, and endocardial EMT), suggesting a theme of embryonic differentiation and organogenesis. Some terms (splicing, ribosomal export) reflect general gene-expression machinery active during development but do not override the central developmental signal.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0032298","count":15},{"id":"GO:0000398","count":15},{"id":"GO:0060707","count":15},{"id":"GO:0003198","count":15},{"id":"GO:0060536","count":15}]},{"hash":"1073876493833501927","title":"Innate immune signaling and ubiquitination regulation","description":"This cluster centers on innate immune response and NF-kappaB regulation, with strong representation of ubiquitination pathways (K63-linked ubiquitination, autoubiquitination, actin ubiquitination) and host\u2013pathogen interaction terms (regulation of LPS signaling, suppression of viral material/viral release). Together, they indicate a role in ubiquitin-mediated innate immune signaling and antiviral defense.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":17},{"id":"GO:0045087","count":17},{"id":"GO:0051865","count":17},{"id":"GO:0031664","count":17},{"id":"GO:1901253","count":17}]},{"hash":"2102208155492684871","title":"Signaling, Polarity, and Immunity Regulators","description":"The cluster features regulators across diverse pathways: neuronal signaling (postsynaptic potential, neuron maturation), CAMKK-AMPK metabolic signaling, Wnt signalosome assembly, polarity in development, endosome-to-Golgi trafficking, TLR signaling and bacterial detection, and cell-cycle control. This suggests a broad regulatory module rather than a single pathway, capturing proteins that modulate multiple signaling and cellular processes.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905289","count":2},{"id":"GO:0090394","count":2},{"id":"GO:1905279","count":2},{"id":"GO:1904887","count":2},{"id":"GO:0016336","count":2}]},{"hash":"1110768124288854645","title":"Mitochondrial NAD biosynthesis and Complex II assembly","description":"Based on the top GO terms, several entries point to mitochondrial energy metabolism: quinolinate biosynthesis (NAD biosynthesis), NADH to ubiquinone electron transport, and mitochondrial respiratory chain complex II assembly. These strongly suggest a theme around mitochondrial NAD production and respiratory complex assembly, despite a few unrelated or obsolete terms present. Therefore this label captures the central function of the cluster.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006727","count":1},{"id":"GO:0019442","count":1},{"id":"GO:0019441","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0051289","count":1}]},{"hash":"461777476752398794","title":"Cell cycle, DNA repair, and gene expression control","description":"The cluster highlights several processes tied to genome maintenance and gene regulation: positive regulation of G1/S transition (cell cycle), base-excision repair and DNA recombination (genome maintenance), and regulation of mRNA stability and transcription-related activities (gene expression control). It also includes responses to xenobiotic and peptide hormone stimuli, suggesting broader signaling and stress-response roles that connect signaling with transcriptional regulation.","confidence":"Medium","size":22,"edges":153,"triangles":527,"max_degree":21,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1900087","count":11},{"id":"GO:0043488","count":11},{"id":"GO:0071375","count":11},{"id":"GO:0006284","count":11},{"id":"GO:0046856","count":11}]},{"hash":"1492421705905188462","title":"Complement Activation and Regulation Cluster","description":"The top GO terms are dominated by complement activation across classical, alternative, and lectin pathways, plus regulation of membrane attack complex activity. This suggests a coherent module centered on innate immune defense via the complement system and its control, with some unrelated developmental terms likely representing broader annotations. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001970","count":6},{"id":"GO:0001701","count":6},{"id":"GO:0006957","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0030199","count":5}]},{"hash":"405070385564525249","title":"Proteostasis and ER Stress Response","description":"Based on the top GO terms, the cluster is enriched for unfolded protein response, ER stress signaling, translation control during stress, and redox/Fe-S maturation aspects of proteome maintenance. Terms like response to unfolded protein, positive regulation of translation initiation in response to ER stress, and negative regulation of protein kinase activity point to mechanisms that maintain proteostasis under stress. Although some terms like DNA replication and tRNA import are broader, the dominant theme ties to protein quality control and stress adaptation.","confidence":"High","size":22,"edges":189,"triangles":921,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":15},{"id":"GO:0045454","count":15},{"id":"GO:0006986","count":14},{"id":"GO:0031204","count":14},{"id":"GO:0006452","count":14}]},{"hash":"1124404464257350206","title":"Secreted Peptide Hormone Production and Processing","description":"This cluster is dominated by GO terms related to the production, maturation, and secretion of signaling peptides and peptide hormones (nerve growth factor production, insulin processing, renin secretion, and peptide pheromone maturation). The inclusion of LDL receptor\u2013related catabolic processes suggests active secretory/endocytic trafficking tied to peptide handling. Some terms (sporulation, axis determination) hint at broader signaling roles across species, but the common thread is secreted peptide signaling and hormone processing.","confidence":"High","size":22,"edges":75,"triangles":134,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0032902","count":15},{"id":"GO:0032802","count":15},{"id":"GO:0030435","count":15},{"id":"GO:0030070","count":15},{"id":"GO:0002001","count":15}]},{"hash":"776569997566958087","title":"Glycosylation and sialic acid metabolism","description":"The top GO terms cluster around glycan synthesis and modification, including N-acetylneuraminate metabolism, protein sialylation, N-glycan processing, glycosylceramide/ganglioside biosynthesis, and related glycan remodeling processes, suggesting a cohesive theme of glycosylation pathways. Some pollen-related terms appear, but the dominant signal is consistent with carbohydrate modification and glycan biosynthesis.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006054","count":6},{"id":"GO:0009860","count":6},{"id":"GO:0006677","count":6},{"id":"GO:1990743","count":6},{"id":"GO:0001574","count":6}]},{"hash":"629190165797785003","title":"Adhesion and signaling in angiogenesis and neural development","description":"The top GO terms cluster around cell adhesion (cell-matrix and heterophilic adhesion), migration in sprouting angiogenesis, neural development (synapse assembly, cerebellar granule cell precursor proliferation), and JAK-STAT signaling. Together these suggest a theme of adhesion, migration, and signaling in vascular and neural development. Some terms (thyroid hormone generation, lectin pathway complement) appear less connected and may be peripheral noise.","confidence":"Medium","size":22,"edges":38,"triangles":36,"max_degree":8,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0090050","count":14},{"id":"GO:0007160","count":12},{"id":"GO:0006590","count":11},{"id":"GO:0051965","count":11},{"id":"GO:0007157","count":11}]},{"hash":"478164054621968147","title":"Hormone Maturation and Receptor Trafficking","description":"Dominant GO terms describe processing and secretion of signaling molecules (nerve growth factor production, insulin processing, renin secretion, peptide pheromone maturation) and regulation/endocytosis of LDL receptors. A few terms are development-related, but the core theme points to secretory maturation and receptor trafficking, justifying this label.","confidence":"Medium","size":22,"edges":165,"triangles":621,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0032902","count":22},{"id":"GO:0032802","count":22},{"id":"GO:0030435","count":22},{"id":"GO:0030070","count":22},{"id":"GO:0002001","count":22}]},{"hash":"507854529833123860","title":"Neural and hair follicle development signaling","description":"The top GO terms point to developmental morphogenesis and signaling across neural and epidermal tissues, with terms for hair follicle development, forebrain morphogenesis, neural tube patterning, and epithelial\u2013mesenchymal signaling, plus general cell surface receptor signaling, suggesting a cohesive cluster of proteins involved in developmental signaling and tissue patterning.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001942","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0007166","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0051799","count":2}]},{"hash":"1560037607237544642","title":"Macrophage-driven innate immunity and lipid handling","description":"The cluster is dominated by GO terms describing macrophage functions: innate immune response, endocytosis, apoptotic cell clearance, and inflammatory cytokine production, together with lipoprotein transport and cholesterol storage promoting foam cell differentiation. These co-occurring terms suggest a coherent theme around macrophage-mediated defense and lipid processing, despite some peripheral terms like spinal cord development.","confidence":"High","size":22,"edges":51,"triangles":37,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":21},{"id":"GO:0021510","count":21},{"id":"GO:0070207","count":21},{"id":"GO:0042953","count":21},{"id":"GO:0006898","count":21}]},{"hash":"84615409271315348","title":"Brain development: axon guidance and myelination","description":"The cluster shows strong signals for neural development, including axon extension, axonal fasciculation, synapse assembly, and myelination, all within an ECM context suggested by collagen fibril organization. Corpus callosum development and RTK signaling further support brain wiring and neurite outgrowth. Some terms like complement activation and prostate development appear peripheral, but the dominant theme is neural circuit formation and maintenance via ECM and guidance cues.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0016525","count":4},{"id":"GO:0022038","count":4},{"id":"GO:0042552","count":4}]},{"hash":"60014249466206481","title":"Flavonoid biosynthesis and lignin metabolism","description":"This cluster is dominated by GO terms describing biosynthesis of flavonoids (anthocyanin, kaempferol, quercetin, cyanidin derivatives) and lignin metabolism, which are both branches of the phenylpropanoid pathway in plants. Although a neuronal localization term and a couple of obsolete annotations appear, the clear common thread is plant secondary metabolism focused on flavonoid production and lignin biosynthesis, suggesting the proteins function together in phenylpropanoid biosynthesis. ","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0002175","count":22},{"id":"GO:0009718","count":22},{"id":"GO:0033485","count":22},{"id":"GO:0006711","count":22},{"id":"GO:0009808","count":22}]},{"hash":"1110705444407759388","title":"Ventral spinal cord Wnt signaling","description":"Top GO terms indicate a strong emphasis on Wnt signaling and spinal cord development (ventral patterning, regulation of canonical Wnt signaling) with supporting neurodevelopmental signals such as reelin-mediated pathways. Although lipid metabolism terms are present, the cluster\u2019s core signature appears to be developmental signaling guiding spinal cord patterning, particularly via Wnt and reelin pathways.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021517","count":3},{"id":"GO:0038026","count":3},{"id":"GO:0044332","count":2},{"id":"GO:0060828","count":2},{"id":"GO:0010867","count":2}]},{"hash":"347850000997612464","title":"Cardiovascular GPCR Signaling and Stress Response","description":"The cluster centers on GPCR signaling that activates adenylate cyclase and regulates cardiovascular functions (blood pressure, cardiac contraction, vasoconstriction), with accompanying energy/metabolic stress signals (ETC, heat generation) and stress-response pathways, though one outlier term (cell wall catabolic process) slightly muddying the theme.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0022900","count":14},{"id":"GO:0001697","count":12},{"id":"GO:0035106","count":12}]},{"hash":"1770241866630889756","title":"ECM remodeling in development","description":"The cluster is dominated by GO terms for collagen fibril organization, extracellular matrix disassembly, and collagen catabolic process, pointing to ECM remodeling. Additional terms (sprouting angiogenesis, amelogenesis, endodermal differentiation, axon fasciculation, and smooth muscle cell migration) all tie into developmental processes that rely on ECM dynamics. Immune-related terms like complement activation and apoptotic cell clearance can accompany remodeling during development, but the core signal is ECM remodeling in development. ","confidence":"High","size":22,"edges":122,"triangles":238,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":6},{"id":"GO:0002040","count":4},{"id":"GO:0043277","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0014911","count":3}]},{"hash":"216918410039892306","title":"Sphingolipid and phospholipid metabolism","description":"The top GO terms are dominated by sphingolipid and glycerophospholipid metabolism, including sphingosine and sphinganine-1-phosphate pathways as well as phosphatidylglycerol biosynthesis, phospholipid catabolic processes, and phospholipid dephosphorylation. This points to a coherent theme of lipid remodeling and membrane lipid biosynthesis/remodeling, with some transport and miscellaneous terms as minor outliers. Therefore the cluster is best described as sphingolipid/phospholipid metabolism.","confidence":"Medium","size":22,"edges":43,"triangles":22,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0015760","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0006655","count":4},{"id":"GO:0044328","count":4},{"id":"GO:0006668","count":4}]},{"hash":"119975146253821253","title":"Neural development and axon guidance","description":"The enriched terms center on neural morphogenesis and connectivity, including optic nerve morphogenesis, retinal ganglion cell axon guidance, corpus callosum development, and interneuron migration; together with synapse assembly and adhesion terms, suggesting roles in neurite outgrowth, synaptogenesis, and neural network formation.","confidence":"High","size":22,"edges":9,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":9},{"id":"GO:0007156","count":7},{"id":"GO:0071372","count":7},{"id":"GO:0022038","count":6},{"id":"GO:0021836","count":6}]},{"hash":"1850414198093459810","title":"Innate Immunity, Complement Activation, and Adhesion","description":"The top GO terms strongly cluster around innate immune processes (innate immune response, classical complement activation, phagocytosis recognition) and cell adhesion (homophilic and heterophilic). This suggests a protein group focused on immune defense and cell\u2013cell interactions. Although terms about synapse assembly and myelination appear, they likely reflect shared adhesion/signaling components rather than a primary neural function. ","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":11},{"id":"GO:0007156","count":11},{"id":"GO:0007157","count":10},{"id":"GO:0006958","count":10},{"id":"GO:0006910","count":10}]},{"hash":"1424505983349693095","title":"Membrane trafficking and ER organization","description":"The top GO terms are dominated by receptor-mediated endocytosis and endoplasmic reticulum-related processes (ER localization and ER organization), pointing to a core function in membrane trafficking and ER maintenance. Reproduction-related terms and some developmental terms appear only sparsely, suggesting they are secondary associations in this cluster.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006898","count":2},{"id":"GO:0030730","count":2},{"id":"GO:0001555","count":1},{"id":"GO:0030223","count":1},{"id":"GO:0007296","count":1}]},{"hash":"1392100335908051546","title":"Neural glycosylation and ganglioside biosynthesis","description":"This cluster is enriched for glycosylation and glycan metabolism terms (N-linked glycosylation, N-glycan processing, protein sialylation, glycosylceramide metabolism, ganglioside biosynthesis) and neural development terms (neuronal stem cell maintenance, olfactory nerve formation), suggesting a theme of glycosylation pathways shaping neural membrane components and development. Some plant pollen terms appear, but the prevailing signal connects glycan processing to neural functions.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097150","count":4},{"id":"GO:0006054","count":3},{"id":"GO:0009860","count":3},{"id":"GO:0006677","count":3},{"id":"GO:1990743","count":3}]},{"hash":"1601471518603136438","title":"Lipid Metabolism and Foam Cell Formation","description":"The cluster is centered on lipoprotein and triglyceride metabolism, LDL remodeling, cholesterol transport/storage, and phospholipid homeostasis, with accompanying macrophage foam cell differentiation and chemokine signaling. This combination points to lipid handling in macrophages and inflammatory processes relevant to foam cell formation, a core of atherosclerosis-related pathways.","confidence":"High","size":22,"edges":42,"triangles":37,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":16},{"id":"GO:0050746","count":15},{"id":"GO:0034374","count":15},{"id":"GO:0055091","count":15},{"id":"GO:0090197","count":15}]},{"hash":"556876838864844453","title":"Diverse Substrate Transmembrane Transport","description":"This cluster is defined by a strong enrichment for transmembrane transport GO terms across a wide range of substrates (galactose, vitamins, various ions, nitrite/nitrate, xenobiotics, etc.), indicating a cohesive group of membrane transport proteins with broad substrate specificity rather than a single substrate. The repeated top terms point to a common function as transporters moving diverse molecules across membranes.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":20},{"id":"GO:0035461","count":20},{"id":"GO:1900754","count":20},{"id":"GO:0035435","count":20},{"id":"GO:0071805","count":20}]},{"hash":"1857430721617083439","title":"Diverse Transmembrane Transporters","description":"The top GO terms show extensive transmembrane transport across a broad set of substrates (arsenite, antimonite, nitrite, organic anions, phosphate, sialic acid, potassium, xenobiotics), with a few metabolic notes. This pattern strongly suggests these proteins function as membrane transporters with diverse substrate specificities, rather than enzymes or other functions.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015700","count":11},{"id":"GO:0043251","count":10},{"id":"GO:0015699","count":10},{"id":"GO:0006849","count":10},{"id":"GO:0035435","count":3}]},{"hash":"688692052924127152","title":"mRNA Splicing and Translation Initiation Regulation","description":"The cluster is enriched for GO terms related to spliceosome-mediated splicing, regulation of translational initiation, and assembly of translation initiation complexes, plus mRNA modification and ncRNA-mediated silencing, indicating proteins involved in mRNA processing and control of translation.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000380","count":12},{"id":"GO:0006446","count":11},{"id":"GO:0016556","count":11},{"id":"GO:0097010","count":11},{"id":"GO:0006376","count":11}]},{"hash":"1720633478212762407","title":"Retroelement Activity and Apoptosis","description":"The cluster is dominated by terms related to proviral latency, DNA integration and transposition, which point to retroelement activity, and concurrent apoptosis-related terms (extrinsic signaling and symbiont-triggered host apoptosis), suggesting a link between genome mobility elements and programmed cell death in these proteins.","confidence":"Medium","size":21,"edges":49,"triangles":19,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0075713","count":2},{"id":"GO:0097192","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0006313","count":2}]},{"hash":"1109323158345329593","title":"Translation initiation and ribosome assembly","description":"The cluster is enriched for GO terms tied to translation initiation (formation of translation preinitiation complex, regulation of translational initiation, translation reinitiation) and SSU rRNA maturation, pointing to a cohesive module of proteins involved in ribosome biogenesis and initiating translation. Additional terms like microtubule severing and ER\u2013Golgi transport suggest broader cellular coordination but do not override the primary theme of ribosome assembly and translation start. ","confidence":"High","size":21,"edges":172,"triangles":779,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0006446","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0051013","count":3},{"id":"GO:0030433","count":3}]},{"hash":"33030896909268995","title":"Excitability regulation in neurons and heart","description":"This cluster is heavily enriched for terms tied to electrical activity and signaling in excitable cells: neuronal action potential, atrial membrane repolarization, and negative regulation of potassium channel activity point to control of excitability. Additional terms for circadian sleep/wake regulation and long-term synaptic depression suggest modulation of neural signaling and plasticity, while pain detection and cytoskeletal signaling (stress fibers, Rho) indicate broader cellular signaling context. Taken together, the proteins likely participate in coordinating electrical signaling and synaptic dynamics in neurons, with cardiac implications as well.","confidence":"Medium","size":21,"edges":17,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902260","count":2},{"id":"GO:0045188","count":2},{"id":"GO:0044335","count":2},{"id":"GO:1900454","count":2},{"id":"GO:0098914","count":2}]},{"hash":"2116661161752892082","title":"Far-Red Light Signaling and Microtubule Dynamics","description":"The top GO terms cluster around far-red light signaling and phototransduction, circadian rhythm regulation, and microtubule depolymerization/dynamics, suggesting a module where light-perception pathways influence circadian timing and cytoskeletal remodeling. A few neuronal-related terms appear but are secondary to the light-circadian-cytoskeletal theme. This supports labeling the cluster as a light-regulated cytoskeletal/circadian module, likely plant or general photoreceptor\u2013cytoskeleton interplay.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007026","count":2},{"id":"GO:0042753","count":2},{"id":"GO:0009585","count":2},{"id":"GO:0010018","count":2},{"id":"GO:0090305","count":2}]},{"hash":"985074989476922868","title":"Developmental Transcription and Stress Response","description":"Top GO terms show strong signals for DNA-templated transcription and the mitotic cell cycle alongside developmental processes (forebrain development, neural tube closure, skeletal system development). Additional terms indicate cellular stress and defense responses (ER stress\u2013induced apoptosis, cadmium response, defense against Gram-positive bacteria). Together, this suggests a cluster of proteins involved in developmental gene regulation with supporting cellular stress responses.","confidence":"Medium","size":21,"edges":99,"triangles":206,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:0000278","count":6},{"id":"GO:0050830","count":5},{"id":"GO:0070059","count":5},{"id":"GO:0030900","count":5}]},{"hash":"2285709237297703456","title":"Innate Immunity and Pyroptosis","description":"The cluster is strongly enriched for innate immune response and pyroptotic inflammatory response, with significant representation of apoptosis and ubiquitination, suggesting a cohesive module around innate immune signaling and inflammatory cell death. The presence of mitotic spindle assembly and cell division terms may reflect shared ubiquitin-regulated processes rather than a core cell-cycle function, but the dominant signal points to immune-sensing and pyroptosis pathways. Some terms are obsolete, but the core theme remains intact.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":20},{"id":"GO:0016567","count":18},{"id":"GO:1990001","count":18},{"id":"GO:0070269","count":18},{"id":"GO:0090307","count":18}]},{"hash":"102584289945053176","title":"Glycosylation and Ganglioside Biosynthesis","description":"This cluster is dominated by glycan-related processes: N-glycan processing, protein N-linked glycosylation, protein sialylation, N-acetylneuraminate metabolism, glycosylceramide metabolism, and ganglioside biosynthesis. These terms point to a cohesive theme of glycosylation and glycosphingolipid biosynthesis, with potential supportive links to neural development pathways (olfactory nerve formation, placode morphogenesis). Some plant-related terms (pollen tube growth/germination) may reflect annotation noise or broader membrane biology contexts, but the primary signal centers on glycosylation and ganglioside metabolism. ","confidence":"Medium","size":21,"edges":27,"triangles":7,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006054","count":5},{"id":"GO:0009860","count":5},{"id":"GO:0006677","count":5},{"id":"GO:1990743","count":5},{"id":"GO:0001574","count":5}]},{"hash":"48819244116024123","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms related to translation and ribosome biogenesis. Terms such as translation, cytoplasmic translation, ribosome biogenesis, ribosomal subunit biogenesis, and mitochondrial translation point to a core function in assembling ribosomes and conducting protein synthesis; additional terms on rRNA maturation and translational fidelity reinforce this cohesive theme.","confidence":"High","size":21,"edges":163,"triangles":712,"max_degree":20,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":18},{"id":"GO:0000462","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0002181","count":3}]},{"hash":"1622866647193128880","title":"TLR/MyD88-driven inflammatory signaling","description":"Based on the top GO terms, the proteins are enriched for MyD88-dependent Toll-like receptor signaling, lipopolysaccharide response, and positive regulation of TNF production, which together point to an innate immune/inflammatory signaling module. The presence of extrinsic apoptotic signaling terms via death domain receptors further supports a TNF/TLR\u2013NF-\u03baB\u2013inflammation axis. Some terms (e.g., DNA replication or viral entry) may reflect annotation noise or broader regulatory connections, but the dominant theme is TLR- and TNF-mediated inflammatory signaling.","confidence":"High","size":21,"edges":16,"triangles":4,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1902043","count":3},{"id":"GO:2001241","count":3},{"id":"GO:0002755","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0006954","count":3}]},{"hash":"2248313655385022782","title":"Splicing and RNA metabolism","description":"This cluster centers on spliceosomal assembly and splicing (snRNP, first transesterification step), plus broad RNA processing and decay processes (miRNA catabolism, snoRNA processing, histone mRNA decay, deadenylation-independent decapping, rRNA catabolism) and transcription regulation by RNA Pol II (transcription, termination, elongation control). The common theme is RNA metabolism spanning splicing, processing, decay, and transcription control, justifying a label focused on RNA processing and transcription regulation.","confidence":"High","size":21,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":3},{"id":"GO:0010587","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0000349","count":2},{"id":"GO:0030846","count":1}]},{"hash":"962355940367264532","title":"Inflammation and Tissue Morphogenesis","description":"The GO terms cluster around innate immune responses and inflammatory signaling (innate immune response, apoptotic cell clearance, positive regulation of cytokine production), complemented by developmental and extracellular matrix processes (somite and spinal cord development, sprouting angiogenesis, collagen fibril organization). This suggests a module where immune activation is coupled with tissue remodeling and morphogenesis, common in developmental and repair contexts. Some terms like protein autoprocessing and viral entry regulation may reflect broader proteolytic and host-interaction activities but do not override the core theme of inflammation linked to tissue development. Overall, the proteins appear to participate in immune-mediated tissue remodeling and developmental processes. ","confidence":"Medium","size":21,"edges":121,"triangles":271,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0043277","count":7},{"id":"GO:1900017","count":6},{"id":"GO:0016540","count":6},{"id":"GO:0061053","count":6},{"id":"GO:0002040","count":6}]},{"hash":"1437517496918210729","title":"Innate Immune Activation and MAPK Signaling","description":"The terms point to innate immune response, regulation of macrophage activation, and positive regulation of MAP kinase activity, indicating a cohesive theme of immune signaling and inflammatory pathways. Some terms like melanin biosynthesis or DNA damage response regulation appear peripheral, but the core cluster seems anchored in immune signal transduction.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:0045087","count":1},{"id":"GO:0070207","count":1},{"id":"GO:0010629","count":1},{"id":"GO:0043030","count":1}]},{"hash":"106395116648931063","title":"NF-kB\u2013driven innate immunity and ubiquitination","description":"This cluster centers on innate immune signaling and NF-kB pathway regulation, as shown by terms for innate immune response, positive regulation of NF-kappaB transcription factor activity, and I-kappaB phosphorylation, along with multiple ubiquitination processes (protein polyubiquitination, actin ubiquitination, ubiquitin-dependent ERAD). The presence of T follicular helper differentiation and antiviral transcription regulation suggests a broader immune signaling module where NF-kB activity is modulated by ubiquitination and proteasomal turnover, with supporting links to vesicle transport and cytoskeletal dynamics.","confidence":"High","size":21,"edges":93,"triangles":198,"max_degree":16,"top_function":"autophagy","top_go_terms":[{"id":"GO:0045087","count":14},{"id":"GO:0051092","count":13},{"id":"GO:1903721","count":13},{"id":"GO:0097039","count":13},{"id":"GO:0061470","count":13}]},{"hash":"445585513275820570","title":"Developmental transcriptional regulation","description":"Most terms converge on gene expression during development across brain, heart, and bone, plus signaling that modulates transcription (JNK cascade, phosphorylation). This suggests a cluster of developmental transcriptional regulators.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0021695","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0021766","count":2}]},{"hash":"1818319610361715386","title":"Ubiquitin-Driven TNF/NF-\u03baB Signaling and Endocytosis","description":"The cluster centers on ubiquitination processes (protein ubiquitination, autoubiquitination, K48-linked ubiquitination) and TNF-mediated signaling with I-kappaB phosphorylation, pointing to NF-\u03baB\u2013related regulation. It also includes receptor-mediated endocytosis, suggesting roles in trafficking; some terms touch cell cycle/checkpoint components, which can be linked to ubiquitin regulation. Overall, the group seems defined by ubiquitin-dependent signaling and endocytic regulation rather than a single, narrow function.","confidence":"Medium","size":21,"edges":99,"triangles":196,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":4},{"id":"GO:2000620","count":3},{"id":"GO:0016567","count":3},{"id":"GO:1903721","count":3},{"id":"GO:0051865","count":3}]},{"hash":"2067208094205420646","title":"Endosomal trafficking and signaling regulation","description":"This cluster centers on membrane traffic and receptor signaling, with terms for ER-Golgi vesicle transport and plasma membrane to endosome transport, plus regulation of GTPase activity and signaling pathways such as TNF/NF-kappaB and hypoxia signaling. The combination suggests proteins that coordinate vesicle trafficking with modulation of signaling and protein localization at the cell surface, rather than a single enzymatic function.","confidence":"High","size":21,"edges":85,"triangles":155,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":4},{"id":"GO:0030845","count":2},{"id":"GO:0043547","count":2},{"id":"GO:1902306","count":2},{"id":"GO:0048227","count":2}]},{"hash":"2145929420441057797","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":9},{"id":"GO:0030206","count":9},{"id":"GO:0042403","count":7},{"id":"GO:0048702","count":6},{"id":"GO:0006068","count":6}]},{"hash":"294076096404495427","title":"Innate immunity and pyroptosis regulation","description":"This cluster centers on innate immune response and inflammatory cell death, with strong signals for pyroptosis, apoptosis, and ubiquitination, suggesting proteins involved in immune signaling and regulation of inflammatory cell death. A few terms like mitotic spindle assembly appear less connected, but the dominant themes are coherent enough to name this as innate immunity linked to pyroptotic and apoptotic processes.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":20},{"id":"GO:0016567","count":20},{"id":"GO:1990001","count":20},{"id":"GO:0070269","count":20},{"id":"GO:0090307","count":20}]},{"hash":"2062584798365616039","title":"Optic nerve development and retinal axon guidance","description":"This cluster shows GO terms centered on axon pathfinding and optic nerve formation: retinal ganglion cell axon guidance, optic nerve morphogenesis, fasciculation of motor neuron axons, ephrin signaling, and integrin-mediated adhesion regulation. While a couple of terms relate to immune responses, the dominant pattern points to neuronal development and axon guidance, especially in the retina and visual system.","confidence":"High","size":21,"edges":56,"triangles":64,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001806","count":3},{"id":"GO:0050798","count":3},{"id":"GO:1904322","count":3},{"id":"GO:0097156","count":3},{"id":"GO:0021631","count":3}]},{"hash":"316420179421879795","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":9,"triangles":3,"max_degree":6,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":20},{"id":"GO:1903721","count":20},{"id":"GO:0007026","count":20},{"id":"GO:0007014","count":20},{"id":"GO:0032897","count":20}]},{"hash":"940929238428095320","title":"Unknown","description":"The top terms are a mix of apoptosis-related processes (mitochondrial membrane permeability regulation and apoptotic process) and various protein trafficking/localization processes (ER localization, ER-to-cytosol transport, endosome localization), plus some development-related terms (oskar mRNA translation, posterior head segmentation) and cell migration. There is no single clear, cohesive function that unites these 21 proteins, so a specific, representative label isn\u2019t supported. ","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902108","count":1},{"id":"GO:0046011","count":1},{"id":"GO:0007427","count":1},{"id":"GO:0035289","count":1},{"id":"GO:0006915","count":1}]},{"hash":"2241027823226669121","title":"Amino Acid Metabolism and Redox Balance","description":"The top GO terms cluster around biosynthesis and catabolism of several amino acids (valine, isoleucine, alanine, tyrosine) and NADPH regeneration, suggesting a shared function in amino acid metabolism with linked redox cofactor maintenance. Some terms (like potassium transport) are less central but do not overturn the main theme of amino acid metabolic processes and redox balance.","confidence":"High","size":21,"edges":164,"triangles":710,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":16},{"id":"GO:0006740","count":16},{"id":"GO:0009097","count":15},{"id":"GO:0046392","count":15},{"id":"GO:0009099","count":15}]},{"hash":"777798909539658104","title":"Mitochondrial Translation and Metabolic Regulation","description":"The cluster centers on translation-related processes and mitochondrial protein synthesis. Terms like translation, mitochondrial ribosome assembly, peptidyl-hypusine biosynthetic process, and spermidine catabolic process point to a link between protein synthesis and metabolism, including glucose homeostasis and amino acid transport. A couple of regulatory terms (positive regulation of T cell proliferation, positive regulation of shade avoidance) may reflect broader signaling roles or annotation spillover, but the dominant signal is mitochondrial translation coupled to metabolic regulation.","confidence":"High","size":21,"edges":24,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0008152","count":3},{"id":"GO:1902475","count":3},{"id":"GO:0042102","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0046203","count":2}]},{"hash":"1980738857331703200","title":"Interferon-responsive immune signaling with bone and neural development","description":"The cluster shows strong enrichment for interferon-alpha/beta response terms and bone-related processes (bone morphogenesis and mineralization), as well as neural/synaptic functions (neuromuscular process and synaptic vesicle clustering). It also includes endosomal transport and responses to biotic stimuli, suggesting proteins that participate in immune signaling and also in skeletal and neural development.","confidence":"Medium","size":21,"edges":63,"triangles":79,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0035455","count":12},{"id":"GO:0044381","count":12},{"id":"GO:0099638","count":12},{"id":"GO:0009607","count":12},{"id":"GO:0050884","count":12}]},{"hash":"1696517459819588371","title":"Histone and Protein Acetylation Cluster","description":"The cluster is dominated by GO terms related to acetylation of various substrates\u2014peptidyl-lysine, N-terminal peptidyl-glutamic acid, spermidine/spermine acetylation, and histone H4 acetylation\u2014plus chromatin-associated processes like subtelomeric heterochromatin formation and mitotic sister chromatid cohesion. This points to a unifying theme of acetylation-driven regulation of chromatin structure and gene expression. Some terms such as melatonin biosynthesis, angiogenesis, and arginine biosynthesis may reflect broader metabolic and signaling contexts tied to acetylation status. ","confidence":"High","size":21,"edges":104,"triangles":326,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":14},{"id":"GO:0001525","count":14},{"id":"GO:0006526","count":13},{"id":"GO:0046208","count":13},{"id":"GO:0006348","count":13}]},{"hash":"1806290713042829237","title":"Ubiquitin-Dependent Proteolysis via MVB Sorting","description":"The top GO terms emphasize ubiquitin-dependent protein catabolic processes and the multivesicular body sorting pathway, pointing to proteins involved in targeted degradation and ESCRT-mediated trafficking. Additional terms about GTPase activity regulation and cell proliferation regulation suggest broader regulatory roles linked to trafficking and growth control, though some terms are obsolete. Overall, the cluster appears centered on ubiquitin-mediated proteolysis via MVB/ESCRT pathways.","confidence":"Medium","size":21,"edges":11,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0051770","count":3},{"id":"GO:0010796","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0043162","count":2},{"id":"GO:0034260","count":2}]},{"hash":"883747657885579791","title":"Endomembrane Vesicle Trafficking","description":"These proteins collectively show strong enrichment for GO terms related to vesicle transport within the endomembrane system: ER-to-Golgi and Golgi-to-ER trafficking, Golgi-to-plasma membrane transport, endosome transport, and vacuolar targeting, plus endocytosis and related sorting processes. This suggests a unifying function in intracellular trafficking and protein localization within the secretory pathway. ","confidence":"High","size":21,"edges":113,"triangles":356,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":14},{"id":"GO:0006890","count":12},{"id":"GO:0006623","count":11},{"id":"GO:0006897","count":11},{"id":"GO:0043652","count":8}]},{"hash":"311946489935969406","title":"Immune signaling and apoptosis regulation","description":"This cluster shows enrichment for immune-related processes\u2014cellular response to lipopolysaccharide, regulation of Fc receptor\u2013mediated signaling, and isotype switching\u2014suggesting a role in immune cell signaling, particularly B cell\u2013related pathways. The presence of phosphatidylserine exposure on apoptotic cell surfaces points to apoptosis-related regulation, while transcriptional regulation and lipid/homeostasis terms imply broader regulatory context. Overall, a cohesive theme around immune signaling with apoptosis and transcriptional regulation components. ","confidence":"Medium","size":21,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:2000373","count":1},{"id":"GO:0070782","count":1},{"id":"GO:0060368","count":1},{"id":"GO:0071222","count":1}]},{"hash":"1323196745632168571","title":"Chromatin acetylation and polyamine regulation","description":"This cluster is dominated by GO terms tied to chromatin biology and acetylation\u2014histone and N-terminal acetylation, spermidine/spermine acetylation, subtelomeric heterochromatin formation, and centromeric cohesion\u2014suggesting an epigenetic/modification-focused theme. A few terms about arginine and acetoin metabolism are less central but do not override the acetylation/chromatin signal, which strongly ties the majority of terms together.","confidence":"Medium","size":21,"edges":207,"triangles":1275,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":21},{"id":"GO:0006526","count":20},{"id":"GO:0046208","count":20},{"id":"GO:0018003","count":20},{"id":"GO:0071962","count":20}]},{"hash":"1985882676977189357","title":"Prenylation-driven wound-healing signaling","description":"The top terms converge on lipid modification (protein geranylgeranylation) and signaling related to wound healing, fibroblast proliferation, and cytokine responses, implying a cohesive role in tissue repair and immune signaling. Some biosynthetic terms (hopanoids, tuberculosinol) may reflect annotation noise rather than core function, but the dominant pattern supports prenylation-linked signaling in repair.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048146","count":1},{"id":"GO:0008285","count":1},{"id":"GO:0035440","count":1},{"id":"GO:0010035","count":1},{"id":"GO:0042060","count":1}]},{"hash":"1031661265263845352","title":"Unknown","description":"The top GO terms are highly diverse (meiosis II cytokinesis, axonogenesis, phospholipid transport, extrinsic apoptotic signaling, nephrocyte diaphragm assembly, p53-mediated DNA damage response, cardiac action potential regulation, M-band localization, TOR signaling, and lysosome localization), with no apparent shared function or pathway. The absence of edges and a unifying theme suggests this cluster does not reflect a cohesive biological process.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007111","count":1},{"id":"GO:0007409","count":1},{"id":"GO:0015914","count":1},{"id":"GO:1902043","count":1},{"id":"GO:0036059","count":1}]},{"hash":"823291666048884754","title":"Neuro-Muscular Development and Synapse Assembly","description":"This cluster is dominated by terms related to neural development (neurogenesis, neuron\u2013cell adhesion, synapse assembly) and muscle formation (myoblast differentiation, myosin thick filament assembly), with supporting signals in ROBO pathways and heart/angiogenesis terms suggesting coordinated tissue development and connectivity. The combination points to a coherent theme of neural and muscular tissue development and their synaptic connections, rather than a single isolated process.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":12},{"id":"GO:0007507","count":10},{"id":"GO:0001525","count":10},{"id":"GO:0055072","count":9},{"id":"GO:0045663","count":9}]},{"hash":"319700315793725354","title":"Paranodal axon organization and neural development","description":"The top GO terms emphasize paranodal junction assembly and juxtaparanode localization, along with receptor internalization, synapse assembly, and regulatory processes in Notch signaling. Additional terms point to neuronal tangential migration and axis specification, all pointing to neural development, axon domain organization, and synapse formation. While a few terms (e.g., B cell differentiation, VEGF signaling) are peripheral, the dominant themes strongly support a neural development/axon organization cluster.","confidence":"High","size":21,"edges":41,"triangles":44,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030913","count":10},{"id":"GO:0031623","count":7},{"id":"GO:0071205","count":7},{"id":"GO:0045747","count":6},{"id":"GO:0022028","count":5}]},{"hash":"1944604913657209757","title":"Cardiac muscle contraction and sarcomere organization","description":"The terms are dominated by sarcomere organization, its positive regulation, and cardiac muscle contraction, plus heart-rate regulation by epinephrine, with additional signals related to mitochondria-mediated and extrinsic apoptosis pathways, suggesting a cohesive group of proteins involved in cardiac muscle function and its apoptosis signaling. Spicule insertion appears to be an outlier annotation but does not alter the primary cardiac/sarcomeric theme.","confidence":"High","size":21,"edges":26,"triangles":15,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0034609","count":4},{"id":"GO:0045214","count":4},{"id":"GO:0060298","count":4},{"id":"GO:0003065","count":4},{"id":"GO:0060048","count":4}]},{"hash":"718812610533131251","title":"Muscle differentiation and cell adhesion signaling","description":"This cluster centers on cell adhesion (cell-cell adhesion, homophilic adhesion) and muscle-related processes (sarcomere organization, myoblast differentiation). Rho signaling regulation links to cytoskeletal remodeling essential for adhesion and muscle fiber formation. While some neural development terms appear, the strongest signals are adhesion and muscle differentiation, making this label representative.","confidence":"High","size":21,"edges":146,"triangles":515,"max_degree":20,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":7},{"id":"GO:0007422","count":7},{"id":"GO:0043031","count":7},{"id":"GO:0007156","count":7},{"id":"GO:0035023","count":6}]},{"hash":"260881676163669526","title":"Mitochondrial Energy Metabolism","description":"The top GO terms are dominated by mitochondrial electron transport (NADH to ubiquinone), ATP synthesis coupled to electron transport, and related processes like lipoate metabolic activity and general transport, pointing to proteins involved in oxidative phosphorylation and energy production in mitochondria. Some outlier terms (photosynthesis, gastrulation, histone methylation) likely reflect annotation noise, but the core signal supports mitochondrial energy metabolism.","confidence":"High","size":21,"edges":196,"triangles":1100,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":6},{"id":"GO:0030004","count":3},{"id":"GO:0042773","count":3},{"id":"GO:0006810","count":3},{"id":"GO:0019684","count":3}]},{"hash":"1908040970391004181","title":"Skin Immune and Angiogenic Response","description":"The top GO terms emphasize defense against Gram-positive bacteria, skin development, inflammatory signaling (IL-6 production and glucocorticoid response), phagolysosome assembly, and sprouting angiogenesis, pointing to an innate immune/inflammatory state in skin with vascular remodeling. Some terms are broader (protein tetramerization, synapse assembly), but the dominant theme is skin-associated immune defense and angiogenesis.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0032755","count":2},{"id":"GO:0044130","count":2},{"id":"GO:2000334","count":2}]},{"hash":"1012845643044255808","title":"Membrane Transporters and Development","description":"The cluster shows strong enrichment for membrane transport terms (arsenite transport, antimonite transport, sodium-dependent organic anion transport, plasma membrane pyruvate transport) alongside developmental and tissue remodeling terms (endodermal differentiation, collagen fibril organization, wound healing, embryo implantation, neuron development). This pattern suggests proteins that function primarily as transporters but whose roles extend into developmental and extracellular matrix-related processes, indicating a transport-centric yet developmentally engaged protein group.","confidence":"Medium","size":21,"edges":72,"triangles":94,"max_degree":15,"top_function":"wound healing","top_go_terms":[{"id":"GO:0035987","count":7},{"id":"GO:0015700","count":7},{"id":"GO:0043251","count":7},{"id":"GO:0015699","count":7},{"id":"GO:0006849","count":7}]},{"hash":"1607147850792056059","title":"Neural development and myelination","description":"The cluster is dominated by GO terms related to nervous system development, including Schwann cell development, CNS morphogenesis, cerebral cortex cell migration, and nerve myelination, suggesting a set of proteins involved in neural development and peripheral nerve myelination. Some terms like DNA replication and signaling pathway regulation appear, but the overall theme centers on neural development and myelination.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070886","count":2},{"id":"GO:0014044","count":2},{"id":"GO:0006260","count":2},{"id":"GO:2000324","count":2},{"id":"GO:0021551","count":1}]},{"hash":"914134376989882201","title":"Proprotein processing and LDL receptor turnover","description":"The GO terms cluster around proteolytic processing of proproteins (insulin processing, dibasic protein processing) and regulation of LDL receptor pathways (LDL receptor catabolic process, negative regulation of receptor recycling/LDL receptor activity). This suggests a module focused on proteolytic maturation of secreted proteins and the turnover/regulation of LDL receptors in the endocytic pathway. ","confidence":"High","size":21,"edges":165,"triangles":635,"max_degree":19,"top_function":"wound healing","top_go_terms":[{"id":"GO:0030070","count":8},{"id":"GO:0006508","count":8},{"id":"GO:0032805","count":6},{"id":"GO:1905598","count":6},{"id":"GO:0010989","count":6}]},{"hash":"1836229437612494747","title":"Unknown","description":"The GO terms span plant development (floral organ morphogenesis), carbohydrate biosynthesis, and neuronal/synaptic processes, with no clear single theme uniting all proteins and no interactions observed. Because there\u2019s no coherent functional motif tying the cluster together, a specific label isn\u2019t supported.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048444","count":1},{"id":"GO:0010325","count":1},{"id":"GO:0042136","count":1},{"id":"GO:0050808","count":1},{"id":"GO:0032223","count":1}]},{"hash":"2148708918461493456","title":"Embryonic Development and Morphogenesis","description":"This cluster's terms center on developmental and morphogenetic processes across tissues\u2014trophoblast giant cell differentiation, placental and heart-related morphogenesis, palate formation, cartilage development, and endocrine/pancreatic organ development\u2014indicating a theme of embryonic development and organogenesis. The few broader terms (DNA replication initiation regulation and vitamin D biosynthesis regulation) do not override the predominant developmental signal.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060806","count":4}]},{"hash":"991503163814451695","title":"Neuroimmune signaling and synapse regulation","description":"The top GO terms point to innate immune and cytokine signaling (cytokine production, IL-1 signaling, NF-kB activity, neutrophil extravasation) alongside neural development/connectivity processes (positive regulation of synapse assembly, axonal fasciculation, myelination). This combination suggests a cluster of proteins involved in neuroimmune communication that influences synapse formation and myelin dynamics. Some terms are labeled obsolete, but still reflect NK-kB/innate immune pathways relevant to neural contexts.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0051092","count":4},{"id":"GO:0090197","count":4},{"id":"GO:2000661","count":4},{"id":"GO:0002374","count":4}]},{"hash":"1965270124739921959","title":"Neural-Immune-ECM Interaction","description":"This cluster links neural processes (positive regulation of synapse assembly; sound detection; vocalization) with immune activities (innate immune response; complement activation) and extracellular matrix organization (collagen fibril organization), suggesting proteins mediating signaling cross-talk among nervous system, immune responses, and the ECM.","confidence":"Medium","size":21,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0050910","count":3}]},{"hash":"766783642791328278","title":"Unknown","description":"The top GO terms cover a broad mix of processes\u2014cell adhesion and synapse-related assembly, innate immune activities (phagocytosis recognition, innate response), tissue remodeling (angiogenesis, bone ossification, smooth muscle proliferation), and host\u2013symbiont interactions with ROBO signaling\u2014showing no single dominant function tying the cluster together. Confidence: None","confidence":"","size":21,"edges":2,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0006910","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0001525","count":4}]},{"hash":"531223796642049912","title":"Organogenesis and Connective Tissue Morphogenesis","description":"These proteins appear enriched for developmental processes across organs and tissues, notably metanephric tubule development (kidney), lymph vessel morphogenesis, and lung connective tissue development, along with collagen fibril organization. This points to a shared theme of organogenesis and extracellular matrix remodeling, with some supporting signals in axon guidance and immune-related pathways that may reflect broader developmental signaling. Confidence: Medium","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0072237","count":14},{"id":"GO:0072287","count":14},{"id":"GO:0036303","count":14},{"id":"GO:0001867","count":10},{"id":"GO:0070374","count":9}]},{"hash":"2186762252895155863","title":"Flavonoid and lignin biosynthesis","description":"Proteins in this cluster are strongly enriched for biosynthetic processes of flavonoids and related phenylpropanoids, including anthocyanin-containing compounds, cyanidin 3-O-glucoside, kaempferol glucoside, and lignin. While a few terms (e.g., antibiotic biosynthesis, PHB biosynthesis, obscure oxidation-reduction) are less typical for plants, the dominant GO terms point to a cohesive function in flavonoid/anthocyanin and lignin biosynthesis, suggesting a role in secondary metabolism. ","confidence":"High","size":21,"edges":189,"triangles":1122,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009718","count":12},{"id":"GO:0017000","count":11},{"id":"GO:0055114","count":9},{"id":"GO:0042619","count":7},{"id":"GO:0002175","count":7}]},{"hash":"1075816244556403554","title":"Embryonic organogenesis and neural-muscle development","description":"Top terms show organ development (heart, kidney), muscle differentiation, neurogenesis, angiogenesis, and axon guidance, indicating a broad role in embryonic tissue formation and neural-muscle signaling. The cluster appears to reflect multiple, coordinated developmental processes rather than a single pathway, supporting a label centered on embryonic organogenesis and neural-muscle differentiation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001525","count":8},{"id":"GO:0001822","count":7},{"id":"GO:0045663","count":6},{"id":"GO:0071688","count":6},{"id":"GO:0035385","count":6}]},{"hash":"963004621703846202","title":"Embryonic and Placental Development","description":"The GO terms show strong signals for trophoblast/placental differentiation, placental development, left-right patterning, heart morphogenesis, and endocrine organ formation, indicating an embryogenesis/organogenesis-focused cluster.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":12},{"id":"GO:0003198","count":12},{"id":"GO:0060536","count":12},{"id":"GO:0035270","count":12},{"id":"GO:0060806","count":12}]},{"hash":"1693593861734452002","title":"Metanephric development and lymphatic morphogenesis","description":"The top GO terms cluster around organ morphogenesis, with strong emphasis on metanephric/nephron development (ascending limb, proximal/distal tubule morphogenesis, mesonephric duct development) and lymphatic vessel morphogenesis, suggesting a kidney and lymphatic development theme; other terms point to broader developmental processes like cartilage condensation and cell adhesion regulation, which fit within a general organogenesis context.","confidence":"High","size":21,"edges":14,"triangles":9,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":9},{"id":"GO:0072218","count":8},{"id":"GO:0072237","count":8},{"id":"GO:0072177","count":8},{"id":"GO:0072287","count":8}]},{"hash":"970356320962485373","title":"Cardiac and hematopoietic regulation","description":"This cluster centers on cardiovascular function (heart contraction, regulation of cardiac conduction, angiotensin maturation) and hematopoietic processes (regulation of hematopoietic stem cell proliferation, bone marrow cell proliferation). The presence of gap junction assembly regulation further ties to cardiac electrical coupling, while ancillary terms like tryptophan transport and nitrosylation regulation fit into metabolic/signaling contexts within these systems. Overall, the common theme is coordinated heart function and blood cell development, supporting the label Cardiac and hematopoietic regulation.","confidence":"High","size":21,"edges":22,"triangles":15,"max_degree":8,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0002003","count":10},{"id":"GO:1902033","count":8},{"id":"GO:0071838","count":8},{"id":"GO:1903779","count":8},{"id":"GO:0060047","count":8}]},{"hash":"2176992781165882903","title":"Renal Tubule Development","description":"The cluster is dominated by kidney-focused developmental terms: metanephric proximal/distal tubule development and morphogenesis, metanephric ascending limb development, and mesonephric duct development, suggesting a coherent set of proteins involved in nephrogenesis. While there are a few additional morphogenesis terms (lymph vessel morphogenesis, cartilage condensation) they are less representative than the renal tubule terms, making renal tubule development the most parsimonious overarching theme.","confidence":"Medium","size":21,"edges":51,"triangles":25,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":4},{"id":"GO:0072218","count":4},{"id":"GO:0072237","count":4},{"id":"GO:0072177","count":4},{"id":"GO:0072287","count":4}]},{"hash":"170527992377238238","title":"Transmembrane Nutrient Transporters","description":"This cluster\u2019s top GO terms are dominated by transmembrane transport for various substrates (nitrate/nitrite, galactose, phosphate, potassium, sialic acid, vitamin, fucose) and related metabolic processes (nitrate assimilation, fucose metabolic process), indicating a cohesive group of membrane transporter proteins involved in nutrient and ion uptake and metabolism.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":10},{"id":"GO:0071805","count":9},{"id":"GO:0015757","count":7},{"id":"GO:0035461","count":7},{"id":"GO:1900754","count":7}]},{"hash":"1043067353068068690","title":"Receptor trafficking and lysosomal localization","description":"The top GO terms point to receptor signaling at the cell surface (cell surface receptor signaling, integrin-related signaling, regulation of cell motility) together with intracellular trafficking that routes receptors via endosomes to lysosomes (receptor internalization, endosome-to-melanosome transport, protein localization to lysosome, lysosomal degradation). This suggests a coherent theme of receptors coordinating signaling with endocytic trafficking and lysosomal targeting, with migration-related processes linked to adhesion signaling. High","confidence":"","size":21,"edges":183,"triangles":940,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":17},{"id":"GO:2000145","count":16},{"id":"GO:0030886","count":16},{"id":"GO:0030913","count":16},{"id":"GO:0035646","count":16}]},{"hash":"77949855198340963","title":"Glycoprotein glycosylation in development","description":"The top GO terms are dominated by glycosylation and glycan biosynthesis (poly-N-acetyllactosamine, Lewis A, hydroxyproline O-glycosylation, arabinogalactan protein metabolism) and by developmental processes related to cell surface structures and adhesion (root hair development, follicle cell adhesion, seed mucilage). This indicates a coherent theme around glycoprotein-mediated cell-surface properties shaping development across species, hence the label. ","confidence":"Medium","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":13},{"id":"GO:0042248","count":10},{"id":"GO:0080147","count":10},{"id":"GO:0007299","count":10},{"id":"GO:0001744","count":10}]},{"hash":"94285109423519171","title":"Complement Activation and Immune Defense","description":"The top GO terms cluster around complement pathways (classical and alternative) and activation of the membrane attack complex, along with immune defenses such as tumor cell response and callose-based defense, plus salicylic acid regulation, all pointing to immune signaling and defense. A few terms reference neural processes, which may be incidental. Overall, the dominant theme is immune defense and complement activation.","confidence":"Medium","size":21,"edges":80,"triangles":130,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":8},{"id":"GO:0045766","count":8},{"id":"GO:0007614","count":7},{"id":"GO:0001662","count":7},{"id":"GO:0002418","count":7}]},{"hash":"532514028089812193","title":"P450-driven steroid and xenobiotic metabolism","description":"The top GO terms cluster around cytochrome P450\u2013mediated metabolic pathways, including epoxygenase activity, oxylipin biosynthesis, androgen and aldosterone-related processes, and various xenobiotic_metabolism terms (insecticide, alkaloid, vancomycin biosynthesis) as well as retinoic acid biosynthesis. This pattern strongly suggests a group of P450 enzymes involved in steroid and xenobiotic metabolism. Some cell-cycle and chemotaxis terms may be ancillary or downstream, but the core signal points to P450-driven metabolism. ","confidence":"High","size":21,"edges":16,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":21},{"id":"GO:0019373","count":21},{"id":"GO:0031408","count":21},{"id":"GO:1900087","count":21},{"id":"GO:0017143","count":21}]},{"hash":"564809024159288176","title":"Neuronal calcium signaling","description":"The top terms center on neural functions (visual perception, long-term memory, prepulse inhibition, response to amphetamine) and calcium-related signaling processes (calcium ion transport, PKC signaling, regulation of GTPase activity), suggesting a calcium-dependent neuronal signaling cluster. A couple terms relate to non-neuronal processes, but the neuronal-calcium theme is dominant.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019933","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0070528","count":2},{"id":"GO:0060134","count":2},{"id":"GO:0007601","count":2}]},{"hash":"1936220328255543752","title":"Stress-Related GPCR-cAMP Signaling","description":"This cluster is dominated by GO terms describing a neuroendocrine stress response and cAMP signaling: general adaptation syndrome, corticotropin secretion, and adenylate cyclase\u2013activating GPCR signaling, plus cAMP biosynthesis. These point to a coherent theme of GPCR-driven, cAMP-mediated signaling underlying stress/adaptation processes, with additional developmental and locomotion-related terms reflecting broader roles of these signaling components. Confidence in the label is Medium.","confidence":"Medium","size":21,"edges":11,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051867","count":21},{"id":"GO:0051458","count":21},{"id":"GO:0031987","count":21},{"id":"GO:0006171","count":21},{"id":"GO:0072520","count":21}]},{"hash":"831650363081019917","title":"Neural signaling and autonomic regulation","description":"This cluster is dominated by terms related to neuronal communication and neural control of body functions: dopamine receptor signaling, endocannabinoid-mediated trans-synaptic signaling, and operant conditioning all point to neural signaling. Supporting autonomic themes include regulation of cardiac contraction and vasoconstriction, as well as histamine-induced gastric acid secretion, indicating autonomic and gut-related outputs. The heat generation and stress-response term suggest metabolic and cellular stress links to neural control. While a couple of terms (cell wall catabolic process, IL-1beta production) are less aligned, the core theme appears to be neural signaling coordinating autonomic and metabolic processes.","confidence":"Medium","size":21,"edges":184,"triangles":882,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":21},{"id":"GO:0035106","count":21},{"id":"GO:0055117","count":21},{"id":"GO:0031649","count":21},{"id":"GO:1902239","count":21}]},{"hash":"886279079901057859","title":"Inflammation and Cell Fate Regulation","description":"This cluster combines terms tied to innate immune signaling and inflammatory cell death (innate immune response, pyroptosis, apoptosis) with protein regulation (ubiquitination) and core cell-cycle processes (DNA replication, spindle assembly, cell division) plus oocyte maturation. The co-occurrence of immune and cell-cycle related GO terms suggests these proteins participate in stress- or danger-signal responses that influence cell fate decisions across both somatic and germline contexts.","confidence":"Medium","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0051260","count":8},{"id":"GO:0016567","count":7},{"id":"GO:0090307","count":7},{"id":"GO:0070269","count":7}]},{"hash":"664898254997379165","title":"Viral life cycle and host interaction","description":"Based on the top GO terms, this cluster centers on processes tied to viral infection and propagation, including virion assembly, viral budding via the host ESCRT complex, and established proviral latency, along with entry into host by symbionts. It also contains host RNA-processing activities (DNA-templated transcription, spliceosome-mediated mRNA splicing, miRNA catabolism), which are commonly co-opted by viruses to control gene expression. Together, these terms suggest proteins involved in the viral life cycle and in subverting host cellular machinery.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0035176","count":3},{"id":"GO:0030260","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0039651","count":2}]},{"hash":"942281703847234537","title":"Nuclear transcription and ribosome biogenesis","description":"This cluster centers on nuclear gene expression and ribosome assembly, with GO terms pointing to RNA polymerase I and III\u2013mediated transcription (preinitiation, elongation, rRNA transcription), nucleolar/ribosomal biogenesis, and nuclear import (including snRNA). A few terms like spermatogenesis or histone exchange appear peripheral, but the core theme is coherent: proteins involved in nuclear transcription control and ribosome biogenesis.","confidence":"High","size":20,"edges":125,"triangles":361,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0007283","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0043486","count":2},{"id":"GO:0042254","count":1},{"id":"GO:0042790","count":1}]},{"hash":"31430582778667237","title":"Mitochondrial transport and energy metabolism","description":"Top terms cluster around mitochondrial transport (ADP, CoA, phosphate transmembrane), regulation of mitochondrial membrane permeability, and metabolic shuttles (malate-aspartate), with links to adaptive thermogenesis and cellular energy state that influence insulin secretion and amino acid starvation responses. This points to a cohesive theme of mitochondrial transport and energy metabolism governing cellular energy and nutrient signaling.","confidence":"High","size":20,"edges":115,"triangles":326,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0061179","count":10},{"id":"GO:0015866","count":9},{"id":"GO:0035435","count":9},{"id":"GO:0034198","count":9},{"id":"GO:0000066","count":9}]},{"hash":"489970968485634080","title":"NF-\u03baB signaling and ubiquitination cluster","description":"This cluster is anchored by ubiquitination-related terms (protein ubiquitination, autoubiquitination, K63-linked ubiquitination) and NF-\u03baB pathway regulation (I-kappaB phosphorylation, canonical NF-\u03baB signaling, TNF-mediated signaling), with an accompanying innate immune response term, suggesting a cohesive role in ubiquitin-dependent regulation of NF-\u03baB signaling in innate immunity. The vitamin D response term may reflect cross-talk with vitamin D\u2013modulated immune pathways.","confidence":"High","size":20,"edges":152,"triangles":642,"max_degree":19,"top_function":"autophagy","top_go_terms":[{"id":"GO:0016567","count":8},{"id":"GO:0033280","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0045087","count":6},{"id":"GO:1903721","count":6}]},{"hash":"507163998627051628","title":"Spliceosome Assembly and RNA Processing","description":"The cluster is strongly enriched for spliceosome-related terms (prespliceosome assembly, spliceosome disassembly, conformational changes, and U4/U1 release) along with RNA processing/export activities (poly(A)+ mRNA export, tRNA surveillance). While there are a few DNA replication terms present, the dominant signal points to RNA splicing, processing, and quality control/export as the shared function of these proteins.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":16},{"id":"GO:0006268","count":15},{"id":"GO:0035640","count":13},{"id":"GO:0019079","count":13},{"id":"GO:0000390","count":12}]},{"hash":"1492665989190662435","title":"Axon guidance and neural crest migration","description":"The cluster is dominated by terms related to neuronal development and cell migration: axon extension and guidance, paranode localization, and ventral trunk neural crest cell migration, with supporting receptor signaling (VEGF and HGF pathways) and endosomal trafficking. This combination points to a core theme of axon guidance and neural crest\u2013guided morphogenesis, with vascular signaling as a supplementary context. High","confidence":"","size":20,"edges":85,"triangles":163,"max_degree":16,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0048846","count":8},{"id":"GO:0048010","count":8},{"id":"GO:0014909","count":7},{"id":"GO:1904643","count":7},{"id":"GO:0002175","count":7}]},{"hash":"1149847887818958165","title":"Innate antiviral immune response and membrane repair","description":"Cluster enriched for innate immune response, defense against virus, and inflammatory response, with plasma membrane repair, and regulatory processes (PML body organization, kinase activity regulation). While there are ancillary signals related to calcium transport and collagen organization, the core pattern centers on antiviral defense and inflammatory signaling coupled with membrane repair.","confidence":"Medium","size":20,"edges":165,"triangles":769,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0060669","count":3},{"id":"GO:0070588","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1169427935365291303","title":"Isoprenoid biosynthesis and carbohydrate metabolism","description":"This cluster centers on core metabolic pathways, especially isoprenoid precursor production via both the mevalonate and MEP pathways (farnesyl diphosphate biosynthesis) and various carbohydrate-related processes (galacturonate metabolism, GDP-L-fucose salvage, and carbohydrate phosphorylation). The mixture of IPP pathway terms with sugar metabolism terms suggests a cohesive set of enzymes coordinating terpenoid precursor generation with glycan-related metabolism. ","confidence":"Medium","size":20,"edges":98,"triangles":182,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0010142","count":3},{"id":"GO:0009086","count":3},{"id":"GO:0019288","count":3}]},{"hash":"630184001096193410","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0000480","count":4},{"id":"GO:0000472","count":4},{"id":"GO:0000466","count":4}]},{"hash":"877138727133781900","title":"Nuclear and cytoskeletal dynamics","description":"The cluster\u2019s top terms center on nuclear processes (DNA-templated transcription, histone methylation) and cytoskeletal/microtubule-related functions (centriole cohesion, post-chaperonin tubulin folding, microtubule polymerization regulation, nuclear migration). Some terms also touch on stress or cell-death signaling (ripoptosome assembly, muscle atrophy), suggesting a broad link between nuclear/cytoskeletal regulation and cellular stress responses. Overall, a coherent theme is nuclear organization intertwined with cytoskeletal dynamics.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051567","count":2},{"id":"GO:0010457","count":1},{"id":"GO:0044861","count":1}]},{"hash":"1494422354871149249","title":"Developmental Growth and Translation Initiation","description":"The top GO terms point to organismal development and growth (spinal cord, skin, embryonic organ development, cell proliferation) together with translation-related processes (formation of translation preinitiation complex, translation reinitiation) and rRNA maturation. This suggests a cluster where developmental programs are linked with the build-up of the protein synthesis apparatus. Hence, a label emphasizing both development/growth and translation initiation is appropriate.","confidence":"Medium","size":20,"edges":95,"triangles":219,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0021510","count":4},{"id":"GO:0007064","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0000463","count":4}]},{"hash":"501356776402544951","title":"Innate Immune Signaling and Antibacterial Defense","description":"The cluster is strongly enriched for innate immune terms: Toll-like receptor 1 signaling, non-canonical NF-kappaB signaling, defense against Gram-positive bacteria, and positive regulation of IL-18 production, as well as positive regulation of antibacterial peptide biosynthesis. These point to coordinated inflammatory and antimicrobial responses. Some developmental terms (axogenesis, nipple morphogenesis, dorsal/ventral axis specification) appear in the top terms, likely due to pleiotropy or annotation overlap, but the dominant theme is innate immune signaling and antibacterial defense.","confidence":"High","size":20,"edges":143,"triangles":560,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032741","count":20},{"id":"GO:0006963","count":20},{"id":"GO:0051901","count":20},{"id":"GO:1905279","count":20},{"id":"GO:0007409","count":20}]},{"hash":"1751737127638782402","title":"Actin Remodeling in Immune Signaling","description":"This cluster combines strong actin cytoskeleton assembly signals (lamellipodium/microspike and actin bundle formation) with immune-related signaling and activation outputs (T cell proliferation, IL-2 production, B cell receptor regulation) and receptor pathways (Rho, ephrin, GH). Together, they suggest coordinated actin-driven remodeling during immune cell activation and signaling.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":11},{"id":"GO:0035023","count":10},{"id":"GO:0060396","count":10},{"id":"GO:0060997","count":8},{"id":"GO:0051017","count":8}]},{"hash":"116589350173756949","title":"Embryogenesis and organ morphogenesis","description":"GO terms point to broad developmental processes across multiple tissues (placenta/trophoblast, heart, cartilage, pancreas) and body plan patterning (left-right). A few RNA decay/silencing terms appear but are minor and do not define the cluster. Overall, the proteins appear to cluster around embryonic development and tissue morphogenesis.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060806","count":2}]},{"hash":"1573233228586048260","title":"Embryonic mitosis and Wnt signaling","description":"The top GO terms cluster around mitotic cell cycle control (G1/S and G2/M transitions, spindle pole separation) and canonical Wnt signaling, plus development-related terms like syncytial blastoderm mitotic cycle and multi-ciliated epithelial cell differentiation, indicating a theme of embryonic cell division coupled with developmental signaling. Peripheral terms such as response to leptin, magnesium ion, and early viral transcription are present but do not negate the central embryonic cell-cycle/differentiation pattern.","confidence":"High","size":20,"edges":169,"triangles":846,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":8},{"id":"GO:0000086","count":8},{"id":"GO:0035186","count":7},{"id":"GO:0044321","count":7},{"id":"GO:0019085","count":7}]},{"hash":"400376736335072365","title":"Rho/Rac-driven mechanotransduction and cytoskeletal remodeling","description":"The top GO terms cluster around sensing and responding to mechanical cues, with emphasis on Rho and Rac signaling, filopodium formation, and integrin activation\u2014core aspects of cytoskeletal remodeling in response to mechanical stimuli. Additional terms on ubiquitination and STAT signaling suggest supporting regulation of these pathways, but the central theme remains mechanotransduction and cytoskeletal dynamics.","confidence":"High","size":20,"edges":7,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0046847","count":6},{"id":"GO:0016567","count":5},{"id":"GO:0016601","count":5}]},{"hash":"1594352239943789816","title":"Unknown","description":"The top GO terms span mitotic processes (spindle assembly, cell cycle, cell growth) to metabolism and immune signaling (lipid catabolism; NOD2 pathway; IL-12 regulation) and RNA regulation, with no clear single functional theme linking all proteins. Confidence: None","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":3},{"id":"GO:0046475","count":2},{"id":"GO:1901594","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0043488","count":2}]},{"hash":"1102383088453740636","title":"Unknown","description":"These proteins are annotated with a diverse set of GO terms ranging from plant secondary metabolite biosynthesis (anthocyanin, kaempferol, lignin) and carbohydrate metabolism to cell wall organization and even estrogen catabolic metabolism and paranode axon localization, plus lipoteichoic acid biosynthesis. The lack of a single dominant biological theme or pathway shared across the cluster suggests no coherent common function; thus a unified label is not reliable.","confidence":"","size":20,"edges":53,"triangles":47,"max_degree":14,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006711","count":5},{"id":"GO:0071555","count":4},{"id":"GO:0002175","count":3},{"id":"GO:0070395","count":3},{"id":"GO:0007049","count":3}]},{"hash":"2265445664672801543","title":"Neurovascular ECM Remodeling and Axon Regeneration","description":"This cluster centers on collagen fibril organization (ECM), angiogenesis, and neural components such as axon regeneration, neuron adhesion, and paranode localization, suggesting a cohesive neurovascular remodeling theme involving tissue scaffolding, vessel-nerve interactions, and repair/regulation of nerve growth. The mixed signals (both promotion and repression of angiogenesis/axon extension) reflect balanced remodeling processes rather than a single-direction pathway.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":5},{"id":"GO:0060739","count":4},{"id":"GO:1905240","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0014012","count":4}]},{"hash":"1916830797497849421","title":"Neuronal development and axon guidance","description":"This cluster is dominated by GO terms related to neural development and connectivity, including cerebellar Purkinje cell layer development, synapse maturation, semaphorin-plexin signaling for axon guidance, and various nerve projection and neural crest migration processes. While a couple terms (complement activation, lectin pathway; single fertilization) are less related, the overall theme centers on neuronal differentiation and guidance of neural structures.","confidence":"High","size":20,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021680","count":9},{"id":"GO:0090036","count":9},{"id":"GO:0001867","count":9},{"id":"GO:0060074","count":9},{"id":"GO:0007338","count":9}]},{"hash":"1040394604157646315","title":"Aromatic amino acid biosynthesis (shikimate pathway)","description":"The GO terms show a clear emphasis on shikimate pathway activity and chorismate biosynthesis, along with aromatic amino acid biosynthesis, pointing to production of aromatic amino acids. Additional terms for threonine and related metabolites extend to broader amino acid biosynthesis, with a few lipid-related terms appearing as minor context. Overall, the cluster is best described as amino acid biosynthesis with a focus on aromatic amino acids via the shikimate pathway.","confidence":"Medium","size":20,"edges":31,"triangles":17,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006682","count":1},{"id":"GO:0042552","count":1},{"id":"GO:0046177","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0009073","count":1}]},{"hash":"523106639190401411","title":"Plant flavonoid and lignin biosynthesis","description":"This cluster's top GO terms cluster around plant phenylpropanoid metabolism: kaempferol and quercetin O-glucoside biosynthesis, anthocyanin biosynthesis, and lignin metabolism. Together these indicate flavonoid and lignin biosynthetic pathways common in plants, suggesting the proteins act in secondary metabolite production rather than general cellular processes. Some terms are obsolete or cross-species annotations, but the coherent theme remains flavonoid biosynthesis and lignin formation.","confidence":"High","size":20,"edges":36,"triangles":31,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006711","count":3},{"id":"GO:0033303","count":3},{"id":"GO:0052697","count":3},{"id":"GO:0002175","count":3}]},{"hash":"1832331494846162607","title":"Neuro-muscular signaling and transcription","description":"The cluster includes terms tying transcriptional regulation (DNA-templated transcription, transcription repression/activation), signaling cascades (cAMP/PKA regulation, adenylate cyclase activity), and muscle/nerve physiology (regulation of heart rate, sarcomere organization, potassium transport, sensory perception of smell). Biogenic amine metabolism and brain-related responses (e.g., to clozapine) further suggest neural signaling alongside muscular function. While not all terms are tightly connected, the dominant theme appears to center on neuro-muscular signaling intertwined with transcriptional regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006576","count":1},{"id":"GO:0097338","count":1},{"id":"GO:2000480","count":1},{"id":"GO:0045762","count":1}]},{"hash":"1902411378141357071","title":"Cardiac and neural development","description":"The top GO terms center on development and differentiation of heart and nervous system structures (ventricular cardiac muscle development, optic nerve morphogenesis, retinal ganglion axon guidance, corpus callosum development, Bergmann glial differentiation) with supporting signaling pathways (MAPK cascade, CDK activity regulation) and related processes, suggesting a cluster focused on developmental regulation across cardiac and neural tissues.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055015","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0060020","count":2},{"id":"GO:0021631","count":2},{"id":"GO:0031290","count":2}]},{"hash":"880821687909644675","title":"Immune Signaling and Cytoskeletal Regulation","description":"This cluster's GO terms cluster around immune-related signaling pathways (B cell receptor signaling, thymus development, growth hormone receptor signaling, ERK cascade) and cytoskeletal dynamics (actin cytoskeleton reorganization, regulation of Rho signaling) with protein ubiquitination, indicating proteins that coordinate signaling with cytoskeletal remodeling in immune contexts.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":7},{"id":"GO:0016567","count":6},{"id":"GO:0051092","count":5},{"id":"GO:0035023","count":5},{"id":"GO:2001275","count":5}]},{"hash":"1475275041266337514","title":"TLR Signaling and Neuronal Maturation","description":"Enriched terms point to Toll-like receptor signaling and innate immunity (MyD88-dependent TLR signaling, detection of bacterial lipopeptide) alongside neuronal development and synaptic regulation (neuron maturation, polarity), plus endosome transport, Wnt signalosome assembly and metabolic signaling (CAMKK-AMPK). This suggests a cluster of proteins involved in immune signaling with neuronal maturation/synaptic context.","confidence":"Medium","size":20,"edges":5,"triangles":1,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002755","count":6},{"id":"GO:1905289","count":5},{"id":"GO:0090394","count":5},{"id":"GO:1905279","count":5},{"id":"GO:1904887","count":5}]},{"hash":"1737539078336706858","title":"RNA processing and translation initiation regulation","description":"This cluster centers on RNA metabolism and translation control, with terms spanning transcription-related processes, mRNA processing (poly(A) tail shortening, splice site recognition, mRNA modification), regulatory ncRNA-mediated gene silencing, and multiple facets of translation initiation (IRES-dependent initiation, formation of the preinitiation complex, and eIF4F complex assembly), indicating coordinated regulation of RNA processing and protein synthesis.","confidence":"High","size":20,"edges":106,"triangles":255,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0000289","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0016556","count":2}]},{"hash":"1324211924713442125","title":"Embryonic Development and Organogenesis","description":"The top GO terms indicate broad involvement in embryonic development and tissue formation, including trophoblast differentiation, epithelial-to-mesenchymal transitions in heart development, cartilage morphogenesis, endocrine system development, placental processes, and left-right patterning. These collectively suggest a cluster focused on developmental differentiation and organogenesis, with minor representation from processes like mRNA splicing that are less central to the theme.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0060536","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0060806","count":8}]},{"hash":"1309589275826403329","title":"Complement-Driven Adhesion and Developmental Angiogenesis","description":"Top GO terms indicate a synergy between immune complement activation (lectin, classical, alternative pathways and MAP activation), cell adhesion (heterophilic and cell-matrix), and angiogenic development (sprouting angiogenesis, in utero development, fibrinolysis regulation), suggesting proteins that coordinate immune signaling with adhesion and vascular growth during embryogenesis.","confidence":"High","size":20,"edges":18,"triangles":6,"max_degree":6,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0007157","count":15},{"id":"GO:0006590","count":14},{"id":"GO:0007160","count":14},{"id":"GO:0001867","count":14},{"id":"GO:0090050","count":12}]},{"hash":"180953950586349134","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":29,"triangles":16,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0070131","count":2},{"id":"GO:0000453","count":1},{"id":"GO:0002938","count":1}]},{"hash":"2180190058148425260","title":"HGF/MET signaling and proliferation regulation","description":"Top GO terms indicate the hepatocyte growth factor receptor signaling pathway and multiple proliferation-related processes (stem cells, adipose tissue, chondrocyte proliferation), complemented by transcriptional regulation. This suggests a cohesive cluster of proteins involved in growth signaling coupled with transcriptional control during development and tissue growth.","confidence":"High","size":20,"edges":152,"triangles":700,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006471","count":6},{"id":"GO:0006351","count":6},{"id":"GO:1990679","count":6},{"id":"GO:0048012","count":6},{"id":"GO:2000480","count":6}]},{"hash":"198602313229865454","title":"Circadian Transcriptional Regulation","description":"The top GO terms cluster around transcriptional control (DNA-templated transcription, transcription factor activity regulation) and circadian biology (circadian rhythm regulation, circadian regulation of gene expression), with supporting RNA processing and ribosome export terms suggesting a broader link to gene expression control. This points to a cohesive theme of transcriptional regulation with circadian modulation, rather than a single developmental process.","confidence":"Medium","size":20,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043433","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0070858","count":4},{"id":"GO:0048752","count":4},{"id":"GO:0060849","count":4}]},{"hash":"1399448284358841627","title":"Ubiquitin-Driven Regulation of Apoptosis and Transcription","description":"The top GO terms cluster around ubiquitination processes (K63-linked ubiquitination, autoubiquitination, and negative regulation of ubiquitin-dependent protein catabolic process) and connect to apoptosis and transcriptional regulation, with a few terms hinting at chromatin modification and development. This suggests a cohesive theme where ubiquitin signaling modulates protein turnover and gene expression, with developmental context as supporting associations.","confidence":"Medium","size":20,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060669","count":4},{"id":"GO:2000059","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0006915","count":3}]},{"hash":"2043842669665202412","title":"Unknown","description":"The top GO terms are scattered across unrelated areas (DNA transposition, ubiquitination, ergosterol regulation, protein catabolic processes, and even an obsolete prostate growth term), with many terms labeled obsolete and no connected interaction graph. This mixture provides no clear, shared biological theme to name a specific function for the cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":2},{"id":"GO:0033160","count":2},{"id":"GO:0019089","count":2},{"id":"GO:0032443","count":2},{"id":"GO:0051865","count":2}]},{"hash":"223993455152591846","title":"Unknown","description":"The top GO terms cover a mix of proteolysis, reproductive/developmental processes (polyspermy prevention, maternal axis specification, molting, sperm-egg interactions), plus neural plasticity and immune activation, with no single dominant function linking all proteins. Therefore no clear unified function can be assigned to this cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0006508","count":17},{"id":"GO:0048632","count":16},{"id":"GO:0060468","count":16},{"id":"GO:0007313","count":16},{"id":"GO:0018996","count":16}]},{"hash":"1034989598064281186","title":"Neuroimmune development and synapse formation","description":"The top terms show neural development (axonogenesis, corpus callosum development, positive regulation of synapse assembly) alongside innate immune signaling and cytokine responses (innate immune response, LPS response, defense against Gram-positive bacteria, IL-10 production), suggesting a cluster of proteins involved in neural development with concurrent immune/modulatory signaling. The platelet activation term adds an inflammation/vasculature angle that complements the immune theme. ","confidence":"High","size":20,"edges":22,"triangles":7,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007409","count":8},{"id":"GO:0045087","count":8},{"id":"GO:0051965","count":8},{"id":"GO:0051092","count":7},{"id":"GO:0050830","count":7}]},{"hash":"689799868593051729","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":179,"triangles":981,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009242","count":19},{"id":"GO:0006012","count":19},{"id":"GO:0055114","count":19},{"id":"GO:0009718","count":19},{"id":"GO:0009699","count":19}]},{"hash":"1988454136394040699","title":"NF-kB-driven antiviral immune signaling","description":"The top GO terms cluster around NF-kB pathway regulation (positive regulation of NF-kappaB transcription factor activity, canonical NF-kappaB signaling, I-kappaB phosphorylation) and antiviral defense (defense response to virus). Ubiquitination is tied to NF-kB activation, and adaptive immunity is suggested by T follicular helper cell differentiation. Together these indicate NF-kB\u2013mediated immune signaling in antiviral responses.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0046597","count":2},{"id":"GO:0090073","count":2}]},{"hash":"413609962018336307","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0048702","count":20},{"id":"GO:0006068","count":20},{"id":"GO:0009812","count":20},{"id":"GO:0030205","count":20},{"id":"GO:0050427","count":20}]},{"hash":"2143550534936931878","title":"Sugar and lipid metabolism","description":"The top GO terms cluster around carbohydrate and lipid metabolic processes (galactose metabolism, sorbitol biosynthesis, inositol catabolism, triglyceride homeostasis) and related catabolic pathways, with a couple of non-metabolic terms (cell-matrix adhesion, kinase activity regulation) that appear less representative. This points to a metabolic-focused cluster, especially on sugar and lipid pathways.","confidence":"Medium","size":20,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0070328","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0042167","count":4},{"id":"GO:0019877","count":4}]},{"hash":"1604870423405295440","title":"Unknown","description":"No common functional terms are indicated for this cluster (Top Terms are empty), and there is no connectivity among proteins, so a shared function cannot be inferred.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"611380648638541457","title":"Angiogenesis Regulation and Vascular Remodeling","description":"The cluster is dominated by angiogenesis-related GO terms (angiogenesis, positive/negative regulation of angiogenesis) and ERK signaling regulation, plus supporting terms like extracellular matrix components (elastic fiber assembly) and coagulation, all pointing to vessel formation and remodeling processes; this cohesive theme makes the label appropriate.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":7},{"id":"GO:0070374","count":6},{"id":"GO:0045766","count":6},{"id":"GO:0016525","count":6},{"id":"GO:0034394","count":5}]},{"hash":"52356539354848621","title":"Complement Activation and Innate Immunity","description":"The top GO terms are dominated by complement activation (classical and alternative pathways), regulation of membrane attack complex activation, and innate immune response, all pointing to a cluster of proteins functioning in the complement system and immediate immune defense. While some developmental terms appear, they are likely incidental annotations; the core theme is complement-mediated innate immunity.","confidence":"High","size":20,"edges":182,"triangles":1011,"max_degree":19,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006958","count":8},{"id":"GO:0021510","count":6},{"id":"GO:0006957","count":5},{"id":"GO:0001970","count":5},{"id":"GO:0001701","count":5}]},{"hash":"288218878902091799","title":"Cardiovascular morphogenesis and mechanotransduction","description":"This cluster centers on heart and vessel development: coronary artery morphogenesis, cardiac right atrium morphogenesis, and venous endothelial cell differentiation, plus Notch signaling in heart-field regulation and a cellular response to mechanical stimulus. While some terms span broader biology (prostaglandin biosynthesis, vitamin D response, complement activation, axon guidance), the prevailing signals point to cardiac/vascular morphogenesis and mechanotransduction as the core theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":3},{"id":"GO:0001516","count":3},{"id":"GO:0060982","count":3},{"id":"GO:0048846","count":3},{"id":"GO:0070207","count":3}]},{"hash":"503130085353365387","title":"Unknown","description":"The GO terms are highly diverse, spanning behavioral response, immune activation, vascular processes, cell adhesion, host-symbiont interactions, and plant-specific chlorophyll metabolism. There is no single coherent function tying all terms together, making it difficult to assign a specific, representative label to this cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":2},{"id":"GO:0010716","count":2},{"id":"GO:0015996","count":2},{"id":"GO:0033632","count":2},{"id":"GO:0046718","count":2}]},{"hash":"1863609508767888856","title":"Cranial neural crest development and eye vasculature","description":"The top GO terms cluster around neural crest\u2013derived cranial development\u2014such as ventral trunk neural crest cell migration and trigeminal ganglion development\u2014paired with eye/retina vascular morphogenesis and related angiogenesis processes. While not every protein may participate in a single pathway, the shared themes point to cranial neural development and ocular vascularization as the core of this cluster.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":1},{"id":"GO:0048168","count":1},{"id":"GO:0036486","count":1},{"id":"GO:0002042","count":1},{"id":"GO:0060666","count":1}]},{"hash":"979498507171194317","title":"Craniofacial and mesodermal development","description":"The top GO terms converge on embryonic tissue formation and morphogenesis, especially craniofacial structures and mesoderm-derived tissues: roof of mouth development, cartilage morphogenesis, mesoderm development, EMT in endocardial cushion formation, and placental/trophoblast differentiation, with endocrine system development also present. While a couple terms are broader housekeeping processes, the overall signal points to organogenesis and tissue patterning in early development. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":8},{"id":"GO:0010957","count":7},{"id":"GO:0032298","count":7},{"id":"GO:0000398","count":7},{"id":"GO:0060707","count":7}]},{"hash":"796653045610473727","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":24,"triangles":10,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":19},{"id":"GO:0030206","count":19},{"id":"GO:0048702","count":12},{"id":"GO:0006068","count":12},{"id":"GO:0009812","count":12}]},{"hash":"122188553682861839","title":"Tissue morphogenesis and cell migration","description":"The cluster interoperates GO terms centered on developmental tissue morphogenesis across multiple organs\u2014skeletal muscle fiber development, neural crest cell migration, sprouting angiogenesis, and retina vasculature morphogenesis\u2014along with related signaling (HGF receptor pathway) and intracellular trafficking (endosome localization). While there are outliers such as complement activation and calcium detection, the dominant theme ties to morphogenesis and cell movement across tissues.","confidence":"Medium","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":3},{"id":"GO:0048741","count":2},{"id":"GO:0005513","count":2},{"id":"GO:0048168","count":2},{"id":"GO:0036486","count":2}]},{"hash":"581848237124497031","title":"Neural crest migration and nerve axon guidance","description":"The GO terms cluster around neural crest\u2013driven development and nerve pathfinding, including ventral trunk neural crest migration, trigeminal ganglion development, facial nerve organization, retinal ganglion cell axon guidance, and sympathetic neuron projection. HGF receptor signaling supports growth and guidance, while endosome localization suggests receptor trafficking in signaling during development; retina vasculature morphogenesis adds a tissue remodeling aspect. Together, they point to coordinated neural crest\u2013related nervous system development and axon guidance.","confidence":"High","size":20,"edges":7,"triangles":1,"max_degree":6,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0036486","count":14},{"id":"GO:0060666","count":14},{"id":"GO:0048012","count":14},{"id":"GO:1902946","count":14},{"id":"GO:0061299","count":14}]},{"hash":"1637035864046775161","title":"Neuroendocrine and vascular signaling network","description":"The cluster shows a strong emphasis on signaling and hormonal pathways, including GPCR signaling with cAMP production, VEGF signaling and VEGF production, growth hormone secretion, and general adaptation/stress responses. Additional terms related to synapse maintenance, planar polarity, and organ identity maintenance suggest a broader role in coordinating tissue homeostasis across neural and vascular systems. Together, these features point to a cohesive theme of neuroendocrine and vascular signal regulation and tissue maintenance.","confidence":"Medium","size":20,"edges":60,"triangles":81,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0051867","count":19},{"id":"GO:0043129","count":19},{"id":"GO:0099558","count":19},{"id":"GO:1900747","count":19},{"id":"GO:0030252","count":19}]},{"hash":"1630301626572225829","title":"P450-mediated steroid and lipid metabolism","description":"This cluster is dominated by GO terms pointing to cytochrome P450\u2013driven metabolism and lipid/hormone biosynthesis, including androgen metabolic process, epoxygenase P450 pathway, oxylipin biosynthetic process, and 9-cis-retinoic acid biosynthesis, as well as xenobiotic-related metabolism (insecticide and alkaloid/antibiotic contexts) and aldosterone-related regulation. These collectively suggest a theme centered on P450-related metabolic pathways and lipid hormone signaling, with one term related to cell-cycle regulation appearing as a less direct connection.","confidence":"Medium","size":20,"edges":122,"triangles":343,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":20},{"id":"GO:0019373","count":20},{"id":"GO:0031408","count":20},{"id":"GO:1900087","count":20},{"id":"GO:0017143","count":20}]},{"hash":"1845276792106141227","title":"Diverse membrane transporters","description":"The GO terms indicate transmembrane transport across a wide range of substrates (potassium, galactose, vitamins, nitrates/nitrites, sialic acid, phosphate, xenobiotics, etc.), plus related metabolism. This points to a cluster of proteins functioning broadly as membrane transporters rather than a single substrate or pathway, justifying a label of diverse membrane transporters.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":16},{"id":"GO:0015757","count":15},{"id":"GO:0035461","count":15},{"id":"GO:1900754","count":15},{"id":"GO:0035435","count":15}]},{"hash":"1023155928048001305","title":"Developmental Signaling and Cell Migration","description":"This cluster centers on signals and processes that drive tissue formation and movement, including heart development, neural crest migration, sprouting angiogenesis, and regulation of synapse assembly/plasticity, plus growth-factor receptor signaling (e.g., HGF/MET) and endosomal localization, suggesting cohesive developmental signaling rather than a single metabolic function. An outlier immune term (complement activation) is present but does not dominate the theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0001867","count":1},{"id":"GO:0048168","count":1}]},{"hash":"1885160472635994182","title":"Renal development with immune signaling","description":"Top terms cluster around metanephric kidney development (metanephric ascending thin limb development, metanephric proximal tubule development, mesonephric duct development) while also highlighting immune-related processes (complement activation via lectin pathway, Fc-gamma receptor signaling, leukocyte tethering/rolling, regulation of NK cell chemotaxis, arachidonate secretion, oxidative stress-induced senescence). The combination suggests proteins involved in renal development that also participate in immune signaling or inflammation, pointing to a renal-immune interaction theme rather than a single, narrow function. ","confidence":"Medium","size":20,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":20},{"id":"GO:0072218","count":20},{"id":"GO:0072237","count":20},{"id":"GO:0060355","count":20},{"id":"GO:0090238","count":20}]},{"hash":"1502140768924487611","title":"Cell-cycle Regulation and Signaling","description":"The top GO terms centrally point to meiotic and mitotic cell cycle processes (meiotic cell cycle, spindle\u2013kinetochore attachment, regulation of mitotic ubiquitin ligase activity, nuclear export), complemented by signaling pathways (NF-kappaB activity regulation, IL-2\u2013mediated signaling) that influence cell proliferation and transcription. While some terms like sterol import, chemotaxis, rhythmic processes, and Ap4A biosynthesis are more peripheral or broad, the core signal is regulatory coordination of cell division and immune-related signaling. Confidence reflects a plausible, cohesive theme rather than a single narrowly defined function.","confidence":"Medium","size":19,"edges":50,"triangles":59,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":19},{"id":"GO:0035376","count":19},{"id":"GO:0006935","count":19},{"id":"GO:0051436","count":19},{"id":"GO:0046826","count":19}]},{"hash":"1346877766210767656","title":"Ciliogenesis and intraciliary transport","description":"The prominent GO terms center on cilium-related processes: intraciliary transport, cilium assembly, and non-motile cilium formation, along with microtubule- and actin-guided organization and related development processes. While a vertebrate-specific immune term appears as a potential outlier, the strongest shared function among the cluster's proteins is ciliogenesis and associated intracellular transport.","confidence":"High","size":19,"edges":56,"triangles":63,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0030473","count":2},{"id":"GO:1904801","count":2},{"id":"GO:0006351","count":2},{"id":"GO:2000582","count":2},{"id":"GO:0048477","count":2}]},{"hash":"25659923197661683","title":"Neural development and synapse formation","description":"The top GO terms are strongly focused on neural development and synaptic processes (axonogenesis, excitatory postsynaptic potential, corpus callosum and Schwann cell development, and synapse assembly). While there are a few unrelated terms, the dominant theme across the cluster is neural development and synapse formation, making this label representative.","confidence":"High","size":19,"edges":20,"triangles":3,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060079","count":4},{"id":"GO:0007409","count":4},{"id":"GO:0014044","count":4},{"id":"GO:0051321","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1900608746028631512","title":"Innate immune signaling and NF-kappaB regulation","description":"The cluster features clear signals of innate immunity, including innate immune response and the NOD2 signaling pathway, along with regulation of NF-kappaB activity and cytokine production (e.g., IL-12). Vitamin D response can modulate immunity, further supporting a theme of immune signaling and transcriptional regulation. While some terms are broader (e.g., microtubule localization, lipid catabolism), the dominant pattern is innate immune signaling and inflammatory transcriptional control, making this a coherent label.","confidence":"High","size":19,"edges":157,"triangles":792,"max_degree":18,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":13},{"id":"GO:0051092","count":12},{"id":"GO:0045087","count":12},{"id":"GO:0035372","count":12},{"id":"GO:0046475","count":8}]},{"hash":"852341521372130315","title":"Embryonic neural and cranial skeletal development","description":"This cluster is dominated by GO terms for multicellular organism development, forebrain and neural tube closure, and embryonic cranial skeleton morphogenesis, indicating a shared role in early neural and craniofacial development. While some stress-response terms appear, the core signal is developmental.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0048701","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0031571","count":3}]},{"hash":"1540399805656022489","title":"RNA Processing and mRNA Decay","description":"These proteins cluster around RNA metabolism: tRNA processing, transcription termination, deadenylation-dependent decapping of nuclear-transcribed mRNA, and P-body assembly, with related nuclear import. This suggests a cohesive theme of RNA processing and mRNA turnover, with ancillary links to chromatin/transcription regulation and stress-responsive expression. Confidence: Medium","confidence":"","size":19,"edges":129,"triangles":505,"max_degree":18,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:1990141","count":15},{"id":"GO:0042633","count":15},{"id":"GO:0009737","count":15},{"id":"GO:0008033","count":15},{"id":"GO:0051170","count":15}]},{"hash":"739212827194539527","title":"AMPA receptor clustering and actin remodeling in synapses","description":"The cluster is enriched for neuronal synaptic terms, including excitatory synaptic transmission, synaptic plasticity, and AMPA receptor clustering, all pointing to activity-dependent synaptic remodeling. The presence of actin cytoskeleton organization and lamellipodium assembly further supports a shared role in cytoskeletal dynamics at synapses. While transcription- and DNA repair\u2013related terms appear, the dominant theme centers on synaptic function and structural remodeling of dendritic spines via AMPA receptor clustering and actin dynamics.","confidence":"High","size":19,"edges":68,"triangles":138,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0051096","count":2},{"id":"GO:0043085","count":2},{"id":"GO:1904719","count":2}]},{"hash":"1611619728882574529","title":"Unknown","description":"The top terms span neuronal plasticity (long-term potentiation, long-term memory) but also include cell cycle, cell migration, intracellular trafficking, apoptosis, and immune responses, with no single unifying function evident for the cluster. This diversity makes it hard to assign a specific, representative label. ","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":4},{"id":"GO:0048496","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0042144","count":4}]},{"hash":"1321039858563748071","title":"Unknown","description":"The listed GO terms span neurodevelopment, transcription/epigenetic regulation, DNA mobility, oxidative stress response, and immune signaling, with additional tissue-specific processes (gliogenesis, muscle satellite cell maintenance). There is no single dominant theme tying the proteins together, so no clear functional label can be assigned.","confidence":"","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021766","count":2},{"id":"GO:0090305","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0071447","count":2},{"id":"GO:0043966","count":2}]},{"hash":"1221228557893263105","title":"CNS development and neural morphogenesis","description":"The proteins cluster around neural development and CNS morphogenesis, with terms like corticospinal tract morphogenesis, corpus callosum morphogenesis, cochlea morphogenesis, CNS development, forebrain proliferation, and collateral sprouting, indicating roles in neural patterning and growth of neural connections. Peripheral terms such as DNA repair, ubiquitination, and interferon regulation may reflect general cellular maintenance in proliferating neural cells but are less central to this theme. Overall, the dominant function suggested is formation and maturation of neural structures and CNS connectivity.","confidence":"High","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021957","count":2},{"id":"GO:0048668","count":2},{"id":"GO:0051150","count":2},{"id":"GO:0032480","count":2},{"id":"GO:0010792","count":2}]},{"hash":"1390414787548463147","title":"Retroviral integration and latency","description":"This cluster is dominated by GO terms related to proviral DNA integration, establishment of integrated proviral latency, viral entry into the host nucleus, and downstream replication/transcription processes, consistent with the retroviral life cycle and host genome perturbation. The presence of DNA recombination and RNA-templated DNA biosynthesis supports integration and genome replication steps, with some host defense modulation hints (e.g., siRNA processing). High","confidence":"","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0006351","count":4}]},{"hash":"1068926934878976918","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":125,"triangles":434,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":15},{"id":"GO:0000398","count":14},{"id":"GO:0050830","count":14},{"id":"GO:0070059","count":14},{"id":"GO:0000463","count":14}]},{"hash":"214336138559735310","title":"Growth hormone and insulin signaling with TNF-apoptosis","description":"The cluster\u2019s terms cluster around receptor-mediated signaling: growth hormone receptor signaling, insulin receptor signaling, small GTPase pathways, and TNF-related apoptotic signaling, suggesting a cohesive theme of growth/insulin signaling linked to TNF-driven apoptosis and cell fate regulation.","confidence":"High","size":19,"edges":60,"triangles":96,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0060396","count":4},{"id":"GO:0008285","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0008625","count":3},{"id":"GO:0046626","count":3}]},{"hash":"1717070190136036050","title":"Ras-like GTPase Signaling and Cell Cycle Regulation","description":"The cluster is enriched for small GTPase-mediated signaling and Ras pathway modulation, with additional signals related to cell cycle control (spindle assembly, G1/S transcription) and RNA processing/nuclear export, suggesting a cohesive theme linking GTPase signaling to cell cycle progression and gene expression.","confidence":"Medium","size":19,"edges":14,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007264","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0046827","count":3},{"id":"GO:0070431","count":2},{"id":"GO:2001275","count":2}]},{"hash":"1159032013529640780","title":"Vacuolar amino acid transport","description":"This cluster is enriched for GO terms describing import and export of multiple amino acids (histidine, glutamate, serine, proline, asparagine, arginine, glutamine, etc.) across the vacuolar membrane, plus related nutrient-stress signaling. The common theme is coordinated vacuolar amino acid transport and homeostasis.","confidence":"High","size":19,"edges":8,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0090513","count":11},{"id":"GO:2000487","count":11},{"id":"GO:0015824","count":11},{"id":"GO:0089708","count":11},{"id":"GO:1901481","count":11}]},{"hash":"243500321708835491","title":"Neural development and neuronal differentiation","description":"These proteins cluster around neural development and neuronal differentiation, as shown by multiple GO terms for spinal cord motor neuron fate specification, oligodendrocyte fate specification, interneuron differentiation, and subpallium/metencephalon development. Transcription by RNA polymerase II suggests active gene regulation during development. While a few terms pertain to non-neural organogenesis (pancreas, ureteric bud), the dominant signal is neural lineage specification and brain region development.","confidence":"Medium","size":19,"edges":132,"triangles":524,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":8},{"id":"GO:0060435","count":7},{"id":"GO:0021530","count":7},{"id":"GO:0021520","count":7},{"id":"GO:0021892","count":7}]},{"hash":"2256848493705539127","title":"Neural Development and Synaptic Signaling","description":"The cluster's terms cluster around neural development and neuronal signaling, including CNS development, neural crest-related Wnt signaling, LTD, neuronal action potential, nociception, and ion-channel regulation. Some terms touch circadian rhythm or vascular aspects like angiogenesis, but the dominant theme is neural development and function, with properties spanning development, synaptic dynamics, and electrical excitability.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":2},{"id":"GO:0007417","count":2},{"id":"GO:0051216","count":2},{"id":"GO:1902260","count":1},{"id":"GO:0045188","count":1}]},{"hash":"1531651705537853098","title":"Rho/GTPase-driven cytoskeleton remodeling and migration","description":"The cluster centers on Rho and small GTPase\u2013mediated signaling and lamellipodium assembly, pointing to cytoskeletal remodeling and cell movement (GO:0035023, GO:0007264, GO:0030032). It also includes developmental cues (forebrain development, dorsal closure, thymus development) and signaling pathways (ephrin receptor signaling), with some immune context terms (T/B cell activation), suggesting a role in coordinated cell migration and signaling across developmental and immune-relevant processes. Confidence: Medium","confidence":"","size":19,"edges":35,"triangles":58,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":14},{"id":"GO:0030032","count":13},{"id":"GO:0030900","count":13},{"id":"GO:2001275","count":13},{"id":"GO:0050798","count":13}]},{"hash":"2258093764429479568","title":"Rho GTPase signaling and cytoskeleton regulation","description":"The cluster is dominated by GO terms for activation and regulation of Rho GTPase signaling (GO:0090630, GO:0007266, GO:0035023), pointing to Rho-mediated control of the actin cytoskeleton and cell morphology. The inclusion of auditory stereocilium organization supports a cytoskeletal/structural angle in sensory cells, with additional neural signaling associations (e.g., vocalization, morphine response) likely reflecting broader neuronal pathway involvement. Overall, the common thread is Rho GTPase\u2013driven signaling governing cytoskeletal dynamics.","confidence":"High","size":19,"edges":42,"triangles":36,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0090630","count":4},{"id":"GO:0007266","count":4},{"id":"GO:0060088","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0071315","count":3}]},{"hash":"1774168932956622102","title":"Developmental Differentiation and Apoptosis Signaling","description":"Based on the top GO terms, the cluster is enriched for proteins involved in developmental differentiation (myotube, lens fiber, thymus development) and SMAD/TGF-beta\u2013related signaling, together with apoptosis-related pathways (apoptotic process, ER-stress\u2013induced intrinsic apoptotic signaling) and stress responses (amino acid starvation). This suggests a cohesive theme where differentiation programs are coupled with controlled cell survival via apoptosis signaling. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014902","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0060395","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0034198","count":2}]},{"hash":"375844098688522236","title":"Placental and embryonic development","description":"The GO terms cluster around placenta formation and embryonic lineage differentiation (placenta development, trophoblast giant cell differentiation, endocardial cushion EMT, endocrine system development, pancreatic cell development, cartilage morphogenesis). A transcription-related term (DNA-templated transcription) supports regulatory programs for development. AER stress\u2013related apoptotic signaling appears secondary. Overall, the cluster points to placental and embryonic tissue development and differentiation.","confidence":"Medium","size":19,"edges":166,"triangles":890,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070059","count":5},{"id":"GO:0045600","count":5},{"id":"GO:0001890","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0003198","count":4}]},{"hash":"1201183464698100520","title":"DNA replication and viral genome integration","description":"The dominant GO terms are DNA-centric (DNA replication, DNA recombination, DNA integration) with explicit viral genome replication and proviral latency, indicating a core theme of DNA manipulation and viral genome handling. Epigenetic regulation via CpG methylation and some development terms likely reflect contextual expression but do not redefine the main function. Therefore, the cluster is best described as DNA replication and viral genome integration.","confidence":"Medium","size":19,"edges":80,"triangles":116,"max_degree":15,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0001824","count":6},{"id":"GO:0006310","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0060644","count":5}]},{"hash":"523421735589170105","title":"Retrovirus Life Cycle and Host Interaction","description":"These terms converge on retroviral biology: RNA-templated DNA biosynthesis (reverse transcription), DNA replication/recombination, and establishment of integrated proviral latency, along with entry into the host nucleus and host RNAi suppression and apoptosis modulation. Collectively, they describe a retroviral life cycle tightly linked to host manipulation, supporting this label as representative of the cluster.","confidence":"High","size":19,"edges":7,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0006278","count":1}]},{"hash":"1969612027979070680","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":38,"triangles":30,"max_degree":15,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":17},{"id":"GO:0051092","count":15},{"id":"GO:0007026","count":15},{"id":"GO:0007014","count":15},{"id":"GO:0032897","count":15}]},{"hash":"2202299610952737892","title":"Multi-tissue Development and Morphogenesis","description":"This cluster aggregates proteins linked to development and differentiation across several tissues (vascular endothelium, blood lineage, neural Purkinje cells, placenta trophoblast, cartilage) and associated morphogenesis processes (EMT, ECM secretion). The shared theme is tissue development/differentiation rather than a single pathway, justifying the label.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043388","count":2},{"id":"GO:0001935","count":2},{"id":"GO:0045654","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0021702","count":2}]},{"hash":"1601898465717257665","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning mRNA processing, hormone metabolism, multiple catabolic and metabolic pathways, capsule biosynthesis, cell wall organization, and antibiotic response. There is no cohesive functional theme or shared pathway linking the proteins, and the cluster has no edges, suggesting a random assortment rather than a single biological function.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0009823","count":1},{"id":"GO:0015945","count":1},{"id":"GO:1903457","count":1},{"id":"GO:0019516","count":1}]},{"hash":"1031303103101624095","title":"NF-kappaB\u2013driven innate immune signaling","description":"The dominant GO terms point to innate immune response and regulation of NF-kappaB signaling, including canonical NF-kappaB activation and innate immunity, with spleen development as an associated immune context. While a few terms relate to broader cellular processes (vitamin D response, muscle stretch, microtubule localization), the core theme is immune signaling governed by NF-kappaB. This makes \u201cNF-kappaB\u2013driven innate immune signaling\u201d a concise, representative label.","confidence":"Medium","size":19,"edges":13,"triangles":0,"max_degree":4,"top_function":"autophagy","top_go_terms":[{"id":"GO:0033280","count":7},{"id":"GO:0051092","count":6},{"id":"GO:0035994","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0048536","count":5}]},{"hash":"880350441638695499","title":"Embryonic Development and Morphogenesis","description":"These proteins are enriched for GO terms spanning embryonic development and tissue morphogenesis across various organs\u2014heart (endocardial cushion EMT), cartilage formation, left-right patterning, placenta and endocrine/pancreatic development, and craniofacial roof formation\u2014suggesting a broad developmental/organogenesis role. A couple of general cellular-process terms (ribosomal export, spliceosome-mediated splicing) appear but do not override the overarching developmental signal.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":11},{"id":"GO:0060536","count":11},{"id":"GO:0060707","count":11},{"id":"GO:0060972","count":11},{"id":"GO:0035270","count":11}]},{"hash":"792335381095205597","title":"Unknown","description":"The GO terms are highly heterogeneous, spanning immune regulation (IL-12) and dendritic cell differentiation alongside several cardiac/physiological processes (SA node action potential, intercellular cardiac communication, mechanical/stretch responses) and hepatocyte apoptosis, with no clear single theme tying them together. This lack of a cohesive functional signature leads to an Unknown label.","confidence":"","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":5},{"id":"GO:0002268","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0097284","count":5},{"id":"GO:0086070","count":5}]},{"hash":"1338991556479979414","title":"Developmental signaling and apoptosis in cardiac and neural tissues","description":"The cluster centers on apoptotic processes and regulation of extrinsic apoptotic signaling, with multiple development-related terms in cardiac (atrial septum development; SA node action potential regulation; calcium-mediated contraction regulation) and neural (pyramidal neuron differentiation) contexts, plus salivary gland boundary specification. This suggests a theme of developmental signaling combined with apoptosis across organ systems, particularly heart and nervous tissue. The presence of membrane localization supports signaling roles. ","confidence":"Medium","size":19,"edges":10,"triangles":0,"max_degree":4,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:2001240","count":3},{"id":"GO:0010881","count":3},{"id":"GO:0003283","count":3},{"id":"GO:0098907","count":3}]},{"hash":"2156957183464048405","title":"Innate Immunity with Lipid Uptake and Foam Cell Formation","description":"The cluster centers on innate immune responses and macrophage-associated lipid processes, including receptor-mediated endocytosis, apoptotic cell clearance, cytokine regulation, lipoprotein transport, and cholesterol storage, suggesting a coordinated immune-lipid program in macrophages; the spinal cord development term is an outlier but does not override the main immune-lipid theme.","confidence":"Medium","size":19,"edges":50,"triangles":83,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":12},{"id":"GO:0021510","count":12},{"id":"GO:0070207","count":12},{"id":"GO:0042953","count":12},{"id":"GO:0006898","count":12}]},{"hash":"260483709571394416","title":"TLR signaling and immune regulation","description":"The set is dominated by Toll-like receptor signaling terms (TLR2/4/7/9) across several pathways, indicating proteins involved in innate immune sensing. Alongside, there are several entries for negative regulation of signaling (PI3K/AKT), translational initiation, B cell activation, and IL-6 production, suggesting modulators that dampen inflammatory responses. A single term for tracheal outgrowth appears incidental, but the overall pattern centers on innate immune recognition with regulatory control of inflammation.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0034134","count":5},{"id":"GO:0034142","count":5},{"id":"GO:0034162","count":5},{"id":"GO:0051898","count":5},{"id":"GO:0045947","count":5}]},{"hash":"1975758072972793236","title":"Synaptic Vesicle Fusion and Plasticity","description":"The cluster is dominated by GO terms tied to neuronal synaptic regulation and vesicle biology: long-term potentiation, negative regulation of short-term plasticity, and modulation of Ras/Rho signaling\u2014key nodes in plasticity. In parallel, terms about vesicle fusion, vesicle-mediated cholesterol transport, lipid signaling (phosphatidylinositol dephosphorylation) and phospholipid biosynthesis point to membrane trafficking and vesicle cycling essential for neurotransmitter release and membrane remodeling, consistent with activity-dependent synaptic transmission.","confidence":"High","size":19,"edges":23,"triangles":4,"max_degree":12,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0046580","count":17},{"id":"GO:0060291","count":16},{"id":"GO:0035023","count":15},{"id":"GO:0048174","count":15},{"id":"GO:0090119","count":15}]},{"hash":"718625422964708723","title":"Embryonic organ morphogenesis","description":"The top GO terms point to broad embryonic development and morphogenesis across multiple tissues (heart, eye, limb, cartilage, placenta), including pattern formation and EMT. The proteins likely participate in coordinated organogenesis, so a general embryonic morphogenesis label fits best.","confidence":"High","size":19,"edges":56,"triangles":54,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060972","count":7},{"id":"GO:0007507","count":6},{"id":"GO:0048048","count":6},{"id":"GO:0008045","count":6},{"id":"GO:0003148","count":5}]},{"hash":"1566859450028443684","title":"Ubiquitin-Dependent Cell Cycle Control","description":"The cluster is enriched for ubiquitin-related processes (ubiquitin-dependent protein catabolic process; K48-linked deubiquitination) and cell-cycle/mitosis-related terms (mitotic cell cycle, mitotic G1 DNA damage checkpoint signaling, negative regulation of cell proliferation), suggesting a coherent module where ubiquitin-proteasome\u2013mediated proteolysis governs cell cycle progression and genome integrity. Other terms like transcription and mRNA processing may reflect broader regulatory roles of constituent proteins but do not redefine the main theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0016055","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0031571","count":2},{"id":"GO:0051436","count":2}]},{"hash":"287717697771239050","title":"Embryonic morphogenesis and craniofacial development","description":"The top GO terms point to diverse morphogenetic processes during development, including endocardial cushion EMT, melanocyte (neural crest) migration, palate formation, cartilage and hair follicle morphogenesis, and left-right patterning, suggesting a cluster centered on embryonic tissue formation and craniofacial/skin appendage development. Some regulatory terms (e.g., negative regulation of protein transport and cell proliferation) fit the broader theme as context for developmental control, but the core signal is developmental morphogenesis rather than a single pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":3},{"id":"GO:0097324","count":2},{"id":"GO:0042997","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0010957","count":2}]},{"hash":"1591932928780436852","title":"Macrophage inflammatory response and lipid metabolism","description":"The cluster\u2019s top GO terms center on innate immune activation and macrophage-associated processes, including inflammatory cytokine production, apoptotic cell clearance, foam cell differentiation, and receptor-mediated endocytosis, as well as lipoprotein transport and cholesterol storage. These connections suggest a coherent theme of macrophage-driven inflammation and lipid handling, despite some unrelated terms (e.g., spinal cord development). This makes the label representative of the cluster\u2019s function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0021510","count":7},{"id":"GO:0070207","count":7},{"id":"GO:0042953","count":7},{"id":"GO:0006898","count":7}]},{"hash":"352939074163080147","title":"Chloroplast metabolism and ABA-regulated pigment biosynthesis","description":"The top GO terms cluster around chloroplast-related processes: import into chloroplast stroma, stomatal movement and abscisic acid biosynthesis (ABA signaling), regulation of tocopherol cyclase (vitamin E) activity, lipid homeostasis, and molybdenum cofactor biosynthesis\u2014typical of plastid metabolism and pigment/lipid biosynthesis. A single term about cerebellar morphogenesis appears unrelated and likely noise. Overall, the cluster centers on chloroplast function and ABA-associated pigment/lipid pathways.","confidence":"Medium","size":19,"edges":39,"triangles":39,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0010118","count":4},{"id":"GO:0006777","count":4},{"id":"GO:0045037","count":4},{"id":"GO:0009688","count":4},{"id":"GO:0018315","count":4}]},{"hash":"289737956202680502","title":"TLR signaling and NF-kappaB activation","description":"The top GO terms point to toll-like receptor signaling pathways (TLR2/4), including MyD88-dependent and -independent routes, response to lipopolysaccharide, and I-kappaB phosphorylation leading to NF-kappaB activation and transcriptional regulation. Recurrent terms about transcription regulation and receptor trafficking (Golgi to plasma membrane transport) support an innate immune signaling module focused on NF-kappaB\u2013mediated responses. A minor term about muscle development appears as noise rather than a core theme. High","confidence":"","size":19,"edges":8,"triangles":2,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007252","count":3},{"id":"GO:0007527","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0035660","count":3},{"id":"GO:0051092","count":2}]},{"hash":"984975479041158434","title":"Muscle differentiation and sarcomere assembly","description":"The dominant signals are heart development, positive regulation of myoblast differentiation, and striated muscle myosin thick filament assembly, pointing to muscle formation and sarcomere organization. The clustering of voltage-gated potassium channels supports muscle excitability. Less directly related terms (prolactin signaling, endodermal differentiation) may reflect broader developmental roles, but the core clustering fits muscle development and function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0035987","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0045163","count":3},{"id":"GO:0008284","count":3}]},{"hash":"2072507610897251159","title":"Membrane-targeting and protein folding stress response","description":"This cluster prominently features SRP- and cotranslational/membrane-targeting to membranes (and post-translational targeting), pointing to membrane protein biogenesis. It also includes cellular response to unfolded protein and protein quality control terms, indicating folding stress management. Iron-sulfur cluster assembly and related processes suggest broader organellar protein maturation linked to membranes. While some terms are more general (cell morphogenesis, karyogamy), the dominant signal ties to membrane targeting and folding quality control.","confidence":"Medium","size":19,"edges":135,"triangles":577,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000902","count":15},{"id":"GO:0090084","count":15},{"id":"GO:0006880","count":15},{"id":"GO:0031204","count":15},{"id":"GO:1900035","count":15}]},{"hash":"1593990003775487569","title":"CD8+ T cell regulation and cytotoxicity","description":"The cluster is dominated by GO terms related to T cell receptor signaling regulation, CD8-positive T cell proliferation, granzyme B production, IL-2 signaling, interferon production, and general immune regulation (including B cell signaling and ubiquitination). This pattern points to proteins that jointly modulate adaptive immune signaling with emphasis on CD8+ T cell activation and cytotoxic functions. Confidence: High","confidence":"","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":19},{"id":"GO:2000566","count":19},{"id":"GO:0051045","count":19},{"id":"GO:0071663","count":19},{"id":"GO:1902206","count":19}]},{"hash":"1224638698606130631","title":"Phosphoinositide Biosynthesis","description":"The cluster\u2019s prevalent GO terms center on inositol phosphate and phosphatidylinositol biosynthesis (GO:0033030, GO:0046854, GO:0010919), indicating a shared involvement in producing phosphoinositide lipids that regulate signaling and membrane processes. Other terms like pollen-related or immune cell contexts may reflect broader or cross-species annotations, but the strongest common function ties to phosphoinositide biosynthesis and inositol phosphate metabolism.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002262","count":2},{"id":"GO:0010183","count":2},{"id":"GO:0097062","count":2},{"id":"GO:0000821","count":2},{"id":"GO:0035726","count":2}]},{"hash":"1943246200934815671","title":"Neuronal signaling and sensory perception","description":"This cluster is enriched for terms tied to nervous system function: responses to chemical stimuli (ethanol, fungicide, amphetamine, lithium), ion transport and cellular responses to electrical stimuli, and sensory perception (touch). Developmental terms like anterior lateral line development and pons maturation, plus memory, further support a theme of neural signaling and sensory processing.","confidence":"High","size":19,"edges":66,"triangles":105,"max_degree":14,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0045471","count":13},{"id":"GO:0060992","count":13},{"id":"GO:0048899","count":12},{"id":"GO:0021586","count":12},{"id":"GO:0007616","count":12}]},{"hash":"1693366474101253794","title":"Coagulation and complement activation","description":"These proteins are enriched for blood coagulation (GO:0007596) and complement activation (GO:0006957, GO:0006958), including regulation of fibrinolysis (GO:0051918) and membrane attack complex activation (GO:0001970). The dominant signal is a coagulation/innate-immune module, with additional developmental/adhesion terms fine-tuning context, supporting a cohesive theme around hemostasis and immune activation rather than a single enzymatic function.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051918","count":8},{"id":"GO:0001970","count":6},{"id":"GO:0007596","count":6},{"id":"GO:0007160","count":5},{"id":"GO:0010751","count":5}]},{"hash":"1538068573240329738","title":"Eicosanoid biosynthesis and inflammatory response","description":"The dominant GO terms center on lipid mediator production (prostaglandins, oxylipins) and inflammatory signaling (inflammatory response, macrophage chemotaxis), with epoxygenase P450 pathways linking to this lipid metabolism; other terms reflect miscellaneous metabolism but do not define the core function.","confidence":"High","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":2},{"id":"GO:0090305","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0008209","count":1},{"id":"GO:0019373","count":1}]},{"hash":"940877526341066536","title":"Embryonic Development and Morphogenesis","description":"The top GO terms cluster around tissue and organ development, morphogenesis, patterning, and EMT (e.g., trophoblast giant cell differentiation, palate formation, left-right patterning, cartilage and hair follicle morphogenesis, endocardial cushion EMT, and endocrine system development). While some terms reflect general cellular processes (ribosomal export, splicing), the developmental themes dominate, justifying a label centered on embryonic development and morphogenesis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0010957","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060536","count":3}]},{"hash":"1978201584501667202","title":"Neural development and organogenesis","description":"Top GO terms indicate a neural development focus (cerebral cortex regionalization; neuronal commitment in forebrain; visceral motor and spinal cord neuron differentiation) with supplementary organogenesis terms (pituitary, pancreas, palate, muscle, ureteric bud). This suggests a cluster of proteins involved in developmental patterning, predominantly neural, across multiple organs.","confidence":"High","size":19,"edges":147,"triangles":636,"max_degree":18,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0023019","count":13},{"id":"GO:0021796","count":13},{"id":"GO:0021902","count":13},{"id":"GO:0021983","count":13},{"id":"GO:0090190","count":12}]},{"hash":"134309709848419159","title":"Unknown","description":"The terms span sensory perception, immune signaling, transcriptional and telomere regulation, metabolism, and vascular processes, with only single-count annotations and no protein\u2013protein edges. This scattered set provides no single shared function or pathway to name the cluster, so \"Unknown\" is most appropriate.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050955","count":1},{"id":"GO:0007253","count":1},{"id":"GO:0016567","count":1},{"id":"GO:0070431","count":1},{"id":"GO:0097497","count":1}]},{"hash":"1306699399165254062","title":"Steroid-Responsive Immune Regulation and DNA Repair","description":"This cluster is dominated by GO terms tied to steroid hormone responses (response to estradiol, cellular response to glucocorticoid stimulus) and anti-inflammatory signaling (negative regulation of IL-1\u03b2 production, TNF-mediated signaling), plus nucleotide-excision repair. The combination suggests proteins co-regulated by steroid signaling that modulate inflammation and may connect to DNA repair stress responses.","confidence":"Medium","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0032355","count":19},{"id":"GO:2000469","count":19},{"id":"GO:0071385","count":19},{"id":"GO:0006289","count":19},{"id":"GO:0032930","count":19}]},{"hash":"810149184990062287","title":"Unknown","description":"The Top Terms cover craniofacial/developmental processes (roof of mouth, trachea gland), broad signaling (PI3K/AKT), immune (B cell proliferation, phagolysosome assembly), nervous system (synapse assembly, vocalization behavior), angiogenesis, and apoptosis regulation, with no clear, single functional theme tying all proteins together. This makes a cohesive, specific label difficult to justify.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0061153","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0042100","count":2},{"id":"GO:0090050","count":2}]},{"hash":"1605319351559350248","title":"TLR/NF-\u03baB Innate Immune Signaling","description":"The cluster is enriched for toll-like receptor 1 signaling, defense response to Gram-positive bacteria, and positive regulation of chemokine and interleukin production, plus NF-\u03baB transcription factor activity. Together these terms imply an innate immune signaling module that detects microbial components and drives inflammatory cytokine/chemokine output. A couple of obsolete glycosaminoglycan biosynthesis terms are present but do not define the overall function of the cluster.","confidence":"High","size":19,"edges":5,"triangles":1,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0015015","count":4},{"id":"GO:0030206","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0032741","count":4}]},{"hash":"367089284652364128","title":"Angiogenesis and vascular morphogenesis","description":"This cluster is dominated by GO terms linked to vascular development and cell movement, including positive regulation of sprouting angiogenesis, coronary artery morphogenesis, smooth muscle cell migration, and adhesion processes (cell\u2013cell and cell\u2013matrix). These consistently point to a theme of vessels forming and remodeling, with cells migrating and adhering during vascular morphogenesis and leukocyte recruitment participating in vascular interactions. A few terms (e.g., synaptic transmission regulation) are less central but do not outweigh the vascular-focused signals.","confidence":"High","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090050","count":10},{"id":"GO:0007157","count":10},{"id":"GO:0014909","count":8},{"id":"GO:0051968","count":8},{"id":"GO:0060982","count":8}]},{"hash":"1739620142162408027","title":"Embryonic development and organ morphogenesis","description":"The GO terms point to broad embryonic development across multiple tissues\u2014placental/trophoblast differentiation, EMT in heart development, cartilage and palate morphogenesis, heart and endocrine organ formation, and left-right patterning\u2014indicating a shared theme of embryonic organogenesis and tissue morphogenesis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":9},{"id":"GO:0003198","count":9},{"id":"GO:0060536","count":9},{"id":"GO:0035270","count":9},{"id":"GO:0060806","count":9}]},{"hash":"518895837830944754","title":"Heart development and angiogenesis signaling","description":"These proteins show strong enrichment for heart development and angiogenesis, with adhesion and proliferation regulation terms, plus PI3K-Akt signaling, pointing to a cardiovascular development and vascular growth program. A neuronal term (synapse assembly) is present but likely peripheral. Overall, the cluster centers on cardiovascular development and signaling.","confidence":"High","size":19,"edges":165,"triangles":875,"max_degree":18,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051965","count":8},{"id":"GO:0007507","count":6},{"id":"GO:0001525","count":6},{"id":"GO:0007156","count":6},{"id":"GO:0008284","count":6}]},{"hash":"706931112798800175","title":"Neural development and synaptic signaling","description":"This cluster is enriched for neural-related functions: paranodal junction assembly, heterophilic cell\u2013cell adhesion, neurotransmitter secretion, and positive regulation of Notch signaling, all of which point to neural development and synaptic communication. The presence of memory as a term reinforces a brain-associated theme, while additional terms like complement activation and pericardium morphogenesis suggest some supporting, broader cellular processes. Overall, the dominant signal aligns with neural development and synaptic signaling.","confidence":"Medium","size":19,"edges":9,"triangles":5,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001867","count":9},{"id":"GO:0007613","count":9},{"id":"GO:0030913","count":9},{"id":"GO:0071456","count":9},{"id":"GO:0007157","count":9}]},{"hash":"1173479890020968644","title":"ECM Organization and Angiogenesis Regulation","description":"Top GO terms point to extracellular matrix organization and cell-matrix adhesion (collagen fibril organization, negative regulation of fibrinolysis). They also emphasize vascular dynamics and cell migration (negative regulation of angiogenesis, endothelial cell chemotaxis, positive regulation of fibroblast migration) and related processes like synapse assembly. Additional terms on phagocytosis and complement activation suggest accompanying immune remodeling, but the core theme remains ECM remodeling coupled with angiogenic regulation.","confidence":"High","size":19,"edges":12,"triangles":2,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051918","count":8},{"id":"GO:0030199","count":8},{"id":"GO:2001027","count":7},{"id":"GO:0043652","count":7},{"id":"GO:0001558","count":7}]},{"hash":"2231436416369328530","title":"Secreted signaling peptides and hormone processing","description":"Most of the top GO terms point to production, maturation, or processing of secreted signaling molecules and hormones (nerve growth factor production, insulin processing, renin secretion, peptide pheromone maturation), with additional terms related to receptor-mediated processes (LDL receptor catabolic activity) that support ligand handling. This suggests a cohesive theme around secreted signaling and hormone processing, justifying the label. ","confidence":"Medium","size":19,"edges":15,"triangles":6,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0032902","count":5},{"id":"GO:0032802","count":5},{"id":"GO:0030435","count":5},{"id":"GO:0030070","count":5},{"id":"GO:0002001","count":5}]},{"hash":"1651768011135285415","title":"Golgi vesicle transport and organization","description":"The proteins are enriched for GO terms describing intra-Golgi and ER-to-Golgi vesicle transport, vesicle docking/fusion with the Golgi, Golgi disassembly, and regulation of Golgi organization, pointing to a cohesive role in Golgi trafficking and structural maintenance.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006891","count":2},{"id":"GO:0048278","count":2},{"id":"GO:0090166","count":2},{"id":"GO:0006886","count":2},{"id":"GO:1903358","count":2}]},{"hash":"74964761582532546","title":"Complement System Activation","description":"The top GO terms are dominated by complement activation pathways (classical, alternative, lectin) and activation of the membrane attack complex, indicating proteins involved in initiating and regulating the complement cascade. A couple of terms related to development appear, but the dominant signal is immune/complement-related. This supports labeling the cluster as focusing on complement system activation rather than other processes.","confidence":"High","size":19,"edges":12,"triangles":7,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006958","count":17},{"id":"GO:0006957","count":15},{"id":"GO:0001970","count":15},{"id":"GO:0001701","count":15},{"id":"GO:0034392","count":15}]},{"hash":"1441953237004750724","title":"Angiogenesis and vascular morphogenesis","description":"Terms cluster around endothelial movement and blood vessel formation (endothelial chemotaxis, sprouting angiogenesis, vasculogenesis, and related morphogenesis), indicating a vascular development emphasis. While some terms refer to broader tissue morphogenesis, the dominant theme is angiogenesis/vasculogenesis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2001027","count":17},{"id":"GO:0007157","count":17},{"id":"GO:0003344","count":16},{"id":"GO:0090050","count":16},{"id":"GO:0007262","count":16}]},{"hash":"2203060549482147797","title":"GPCR-Driven Cyclic Nucleotide Signaling","description":"These proteins are enriched for GPCR-related signaling, including adenylate cyclase-activating dopamine receptor signaling and receptor guanylyl cyclase signaling, with downstream cAMP and cGMP processes. They also relate to vasopressin-induced water homeostasis and neuromuscular balance, suggesting regulatory signaling roles in kidney and muscle function; a minor GPI anchor biosynthesis term is present but not central. Overall, the cluster maps to GPCR-driven cyclic nucleotide signaling.","confidence":"High","size":19,"edges":82,"triangles":113,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006506","count":2},{"id":"GO:0071361","count":1},{"id":"GO:0006171","count":1},{"id":"GO:0007191","count":1},{"id":"GO:1904117","count":1}]},{"hash":"1575091086830596148","title":"Mitochondrial stress signaling and innate immunity","description":"The cluster shows enrichment for mitochondrial dynamics and apoptosis regulation (positive regulation of mitochondrial membrane potential, regulation of mitochondrial fission, negative regulation of execution phase of apoptosis) alongside immune-related terms (interleukin-2 production, positive regulation of toll-like receptor 3 signaling). Additional terms related to metabolic and stress responses (response to food, response to cold, lipid storage) fit a broader mitochondria-centered stress response theme that interfaces with innate immune signaling, suggesting a cohesive functional module. ","confidence":"Medium","size":19,"edges":110,"triangles":323,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0010918","count":3},{"id":"GO:0032094","count":3},{"id":"GO:0070584","count":3},{"id":"GO:0009409","count":2},{"id":"GO:0090140","count":2}]},{"hash":"510028175443267942","title":"Neural development and innervation","description":"This cluster is dominated by GO terms related to nervous system development, innervation, and glial/neurotrophic signaling, along with a related muscle-innervation context (esophagus smooth muscle contraction). While a couple terms point to bacterial metabolism, the strongest and most consistent signals point to neural patterning and neuron\u2013muscle interactions, suggesting a cohesive theme around neural development and signaling.","confidence":"Medium","size":19,"edges":17,"triangles":12,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":10},{"id":"GO:0060686","count":10},{"id":"GO:0040037","count":10},{"id":"GO:0014846","count":10},{"id":"GO:0042425","count":10}]},{"hash":"1657382196682687719","title":"Neuroendocrine signaling and stress response","description":"This cluster's top GO terms cluster around neuronal excitability (excitatory postsynaptic potential, membrane depolarization/hyperpolarization) and cAMP signaling, plus corticotropin secretion and general adaptation syndrome. Together these suggest proteins involved in neuroendocrine communication and the body's stress response, with some developmental terms present but not driving the theme. The label reflects the dominant neuroendocrine signaling pattern.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":2},{"id":"GO:0060081","count":2},{"id":"GO:0051899","count":2},{"id":"GO:0051867","count":2},{"id":"GO:0051458","count":2}]},{"hash":"1720992384472554358","title":"Unknown","description":"The top GO terms span diverse, seemingly unrelated areas (plant development such as floral organ morphogenesis and raffinose biosynthesis; neural-related terms like synapse organization, cholinergic transmission regulation, and retina development), with little cohesive functional theme and sparse connectivity (Edges: 1, Triangles: 0). This makes it impossible to assign a single, representative function to the cluster.","confidence":"","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048444","count":6},{"id":"GO:0010325","count":6},{"id":"GO:0042136","count":6},{"id":"GO:0050808","count":6},{"id":"GO:0032223","count":6}]},{"hash":"531284678212054374","title":"Diverse solute membrane transporters","description":"Based on the Top Terms, this cluster is dominated by transmembrane transport activities for a wide range of substrates, including sugars (galactose, fucose), vitamins, organic acids, ions (phosphate, potassium, nitrate, nitrite), sialic acid, and xenobiotics. The consistent theme of transmembrane transport across many substrates suggests the proteins are membrane transporters with broad specificity.","confidence":"High","size":19,"edges":8,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":18},{"id":"GO:0035461","count":18},{"id":"GO:1900754","count":18},{"id":"GO:0035435","count":18},{"id":"GO:0071805","count":18}]},{"hash":"853202528013804589","title":"Neural signaling and autonomic regulation","description":"The cluster's top GO terms cluster around neural communication and modulation across synapses (trans-synaptic endocannabinoid signaling; dopamine receptor signaling; operant conditioning). It also includes autonomic regulatory processes affecting heart and vessels (regulation of cardiac muscle contraction; positive regulation of vasoconstriction) and related systemic responses (histamine-induced gastric acid secretion; heat generation), indicating proteins involved in neuromodulatory signaling with broader physiological regulation rather than a single pathway.","confidence":"Medium","size":19,"edges":91,"triangles":153,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":19},{"id":"GO:0035106","count":19},{"id":"GO:0055117","count":19},{"id":"GO:0031649","count":19},{"id":"GO:1902239","count":19}]},{"hash":"1649390761581029096","title":"Cell Cycle and ER-Golgi Transport Proteins","description":"The cluster's terms cover both nuclear processes (DNA-templated transcription, DNA replication, CENP-A chromatin assembly, cell division) and ER-Golgi/ERAD-related trafficking and protein regulation (ER-to-Golgi vesicle transport, ubiquitin-dependent ERAD, microtubule dynamics). This pattern suggests proteins involved in chromosome maintenance with components of the secretory/quality-control pathway, implying a broader coordination between cell cycle progression and intracellular transport. Confidence: Medium","confidence":"Medium","size":18,"edges":107,"triangles":325,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0006260","count":4},{"id":"GO:0051013","count":4}]},{"hash":"2022723237865598176","title":"Retroviral integration and proviral latency","description":"These proteins are enriched for GO terms tied to the retroviral lifecycle: DNA integration, RNA-templated DNA biosynthesis (reverse transcription), and establishment of integrated proviral latency, along with host-cell entry processes and host apoptosis modulation. The combination strongly points to viral genome integration and latency mechanisms rather than general DNA metabolism, justifying a retroviral-focused cluster label.","confidence":"High","size":18,"edges":5,"triangles":1,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0015074","count":12},{"id":"GO:0006278","count":11},{"id":"GO:0075732","count":11},{"id":"GO:1903704","count":11},{"id":"GO:0006310","count":11}]},{"hash":"2279301541907453861","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":57,"triangles":56,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006310","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0071030","count":1},{"id":"GO:0000460","count":1},{"id":"GO:0071039","count":1}]},{"hash":"1663738867591353008","title":"Interferon-Driven Innate Immunity and Hormone Signaling","description":"This cluster is dominated by terms related to interferon responses and antiviral defense (cellular response to type I interferon, innate immune response, defense response to virus), pointing to a core immune theme. The presence of steroid hormone\u2013related terms (steroid hormone receptor complex assembly, male sex differentiation, prostate gland development) suggests concurrent hormone signaling involvement. Some cell cycle-related terms (cell division, mitotic regulation) imply proliferative activity that can accompany immune responses. Overall, the label emphasizes the main immune/interferon theme with a note on hormone signaling.","confidence":"Medium","size":18,"edges":15,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071357","count":11},{"id":"GO:0046661","count":11},{"id":"GO:0030850","count":11},{"id":"GO:0006463","count":11},{"id":"GO:0045087","count":10}]},{"hash":"2121703786514078449","title":"Spliceosome Assembly and mRNA Splicing Regulation","description":"The cluster is strongly enriched for spliceosome- and RNA processing-related functions, with multiple terms covering mRNA splicing via the spliceosome, spliceosomal complex disassembly, and regulation of alternative splicing, plus related RNA export and catalytic steps. A single defense-response term appears but does not dominate the profile, suggesting the core theme is RNA splicing machinery and its regulation.","confidence":"High","size":18,"edges":152,"triangles":800,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0016973","count":2},{"id":"GO:1901407","count":2},{"id":"GO:0008380","count":2},{"id":"GO:0000350","count":2},{"id":"GO:0050829","count":2}]},{"hash":"2178753820199171589","title":"DNA Maintenance and Cell Cycle Regulation","description":"This cluster is enriched for DNA-related processes: DNA transposition and DNA integration suggest genome mobility/rearrangement; base-excision repair indicates DNA repair activity; apoptotic and cell-cycle transition GO terms indicate links to genome integrity surveillance and progression through G1/S. The combination points to a group involved in genome maintenance with associated cell-cycle and apoptotic regulation, rather than a single signaling pathway.","confidence":"Medium","size":18,"edges":14,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006313","count":5},{"id":"GO:0015074","count":4},{"id":"GO:0006915","count":3},{"id":"GO:1900087","count":2},{"id":"GO:0043488","count":2}]},{"hash":"1761365667385513618","title":"SA node electrical conduction","description":"These proteins are enriched for GO terms tied to cardiac electrical signaling, notably SA node action potential regulation and SA node-to-atrial communication, as well as positive regulation of membrane depolarization in cardiac muscle. The strongest signals point to SA node conduction and intercellular electrical coupling, supporting a cohesive role in cardiac rhythm generation. A few non-cardiac terms appear, but the dominant theme is SA node\u2013mediated cardiac conduction.","confidence":"High","size":18,"edges":18,"triangles":1,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010650","count":6},{"id":"GO:1900827","count":6},{"id":"GO:0098907","count":6},{"id":"GO:0086070","count":6},{"id":"GO:0072660","count":6}]},{"hash":"749584070390559301","title":"Auditory synapse formation and calcium signaling","description":"The cluster is anchored by GO terms tied to auditory-related functions (vocalization behavior; sensory perception of sound) and synapse assembly, along with calcium signaling (store-operated calcium entry and activation of store-operated calcium channels). Trafficking-related terms (localization to Golgi and lysosome) suggest processing of synaptic components. Some unrelated or obsolete terms are present, but the dominant theme points to neuronal communication and calcium-dependent synaptic activity.","confidence":"Medium","size":18,"edges":31,"triangles":29,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071625","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0048745","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0006622","count":2}]},{"hash":"254858009242057754","title":"TLR-MyD88 NF-\u03baB cytokine signaling","description":"The proteins are grouped around Toll-like receptor signaling, especially MyD88-dependent routes to NF-\u03baB activation, with downstream cytokine production (IL-6, IL-12) and regulation of related signaling modules (GTPase activity, STAT phosphorylation). While there is a hint of apoptotic pathway cross-talk, the dominant theme is innate immune signaling via TLRs and NF-\u03baB, justifying a TLR/MyD88\u2013NF-\u03baB\u2013cytokine label.","confidence":"High","size":18,"edges":11,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0002755","count":4},{"id":"GO:0043123","count":4},{"id":"GO:2001241","count":4},{"id":"GO:0071230","count":3},{"id":"GO:0043547","count":3}]},{"hash":"678936604382932102","title":"Rho-regulated cardiac cytoskeleton signaling","description":"The cluster features strong enrichment for Rho pathway regulation, actin cytoskeleton remodeling and filopodium assembly, plus heart development and cardiac muscle contraction, indicating proteins governing cytoskeletal dynamics in cardiac cells and morphogenesis.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0007507","count":7},{"id":"GO:0007205","count":7},{"id":"GO:0046847","count":6},{"id":"GO:0007605","count":6}]},{"hash":"266104580737529965","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":43,"triangles":50,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051092","count":9},{"id":"GO:0002755","count":8},{"id":"GO:0043123","count":8},{"id":"GO:1901026","count":8},{"id":"GO:0070671","count":8}]},{"hash":"1546053427896422868","title":"Membrane Transporters and Ion Homeostasis","description":"The cluster is enriched for multiple transmembrane transport terms (fructose, L-aspartate, chloride, bicarbonate, oxalate) and regulation of membrane potential, plus related processes like gastric acid secretion and a sporulation-related term. This points to a group of membrane transport proteins involved in ion and metabolite movement and maintaining electrochemical gradients; the presence of an odd term like sensory perception of sound may be noise or context-specific annotation. ","confidence":"Medium","size":18,"edges":58,"triangles":88,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007605","count":7},{"id":"GO:0015755","count":6},{"id":"GO:0048240","count":6},{"id":"GO:0089712","count":6},{"id":"GO:1902476","count":6}]},{"hash":"108396670802094596","title":"Chemokine production and immune cell migration","description":"This cluster is dominated by GO terms related to chemokine production (CXCL1, CXCL5) and cell migration, indicating a shared role in inflammatory signaling and leukocyte trafficking. Innate immune pathways (NOD2 signaling) and a response to capsazepine further support an immune/infammation-focused module, with other terms like spindle assembly and cell cycle likely reflecting broader cellular coordination or multi-functionality across proteins. Overall, a coherent theme is chemokine regulation and immune cell movement.","confidence":"High","size":18,"edges":80,"triangles":111,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0043488","count":7},{"id":"GO:0016477","count":7},{"id":"GO:2000340","count":7},{"id":"GO:0060743","count":7},{"id":"GO:0051225","count":7}]},{"hash":"894797477614014300","title":"Unknown","description":"The cluster mixes cytoskeletal dynamics and signaling terms (actin crosslinking, terminal web assembly, protein phosphorylation, kinase regulation) with diverse organismal development processes (axonogenesis, memory, cardiac development, ascospore formation) and DNA integration, showing no single cohesive function. ","confidence":"","size":18,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051764","count":3},{"id":"GO:0000742","count":3},{"id":"GO:0007409","count":3},{"id":"GO:1902896","count":3},{"id":"GO:0006469","count":3}]},{"hash":"1916690849754464420","title":"Retroviral integration and proviral latency","description":"The GO terms cluster around DNA replication/recombination, DNA integration, and RNA-templated DNA biosynthesis, plus entries into and latency establishment in host cells, which together point to retroviral life-cycle processes and proviral latency as the common theme. The presence of transposition and host-response terms (e.g., siRNA processing) further supports a retroelement/provirus\u2013host interaction context. ","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0006310","count":6},{"id":"GO:0046718","count":6},{"id":"GO:0015074","count":6},{"id":"GO:1903704","count":5}]},{"hash":"1047402431086549137","title":"Cell Cycle and DNA Repair via Ubiquitin-Proteasome","description":"Proteins in this cluster cluster around cell division and mitotic progression, chromosome segregation, and DNA double-strand break repair by homologous recombination. They also relate to ubiquitin-dependent proteolysis (SCF and APC/C), ER-associated degradation, and chromatin organization, all connected to maintaining proteostasis during the cell cycle. The combination suggests a cohesive module supporting cell cycle control and DNA damage response via ubiquitin-proteasome pathways.","confidence":"High","size":18,"edges":107,"triangles":345,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":11},{"id":"GO:0000278","count":11},{"id":"GO:0007059","count":10},{"id":"GO:0000724","count":10},{"id":"GO:0030433","count":10}]},{"hash":"1762439597673645118","title":"Unknown","description":"The GO terms are very diverse, including metabolism (PQQ biosynthesis), signaling (insulin receptor pathway), growth regulation, protein assembly, and various development/reproduction terms, with several obsolete entries. No single cohesive biological theme emerges to define the cluster.","confidence":"","size":18,"edges":37,"triangles":22,"max_degree":11,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0018189","count":5},{"id":"GO:0008285","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0006627","count":4}]},{"hash":"216379963469657073","title":"Neuronal development and ER-stress-induced apoptosis","description":"The cluster strongly features brain/forebrain development and neuron apoptotic processes, plus an intrinsic apoptotic pathway activated by ER stress and DNA damage signaling, pointing to a neural development theme linked to stress-induced cell death. Ubiquitination and protein homooligomerization are common regulatory processes that can modulate these pathways, supporting the overall neuronal context. Some immune-related terms may reflect broader stress responses but do not eclipse the neural focus.","confidence":"Medium","size":18,"edges":148,"triangles":741,"max_degree":17,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0000209","count":8},{"id":"GO:0050830","count":6},{"id":"GO:0070059","count":6},{"id":"GO:0007584","count":6},{"id":"GO:0051260","count":6}]},{"hash":"1001510077713455363","title":"Epithelial differentiation and polarity","description":"The top GO terms point to polarized epithelial features (lens fiber differentiation, follicle cell microvillus organization, brush border assembly) and tissue-specific differentiation, with also spindle orientation suggesting controlled cell division in epithelia. While some terms are broader (ubiquitination, transcription), the prevalent theme is epithelial cell identity and apical-basal polarity, justifying this label. ","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000209","count":2},{"id":"GO:0000132","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0001845","count":2}]},{"hash":"695085863222958712","title":"Kinetochore Localization and Mitotic Chromosome Alignment","description":"The GO terms are dominated by mitosis-related processes: localization to the kinetochore, metaphase chromosome alignment, and the mitotic cell cycle, with supporting signals for nuclear transport and protein turnover during cell division. This points to a cluster of proteins involved in kinetochore function and chromosome alignment during mitosis.","confidence":"High","size":18,"edges":109,"triangles":326,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034501","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007080","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0035048","count":3}]},{"hash":"2064489910026582746","title":"Virus-Host Interaction and DNA Metabolism","description":"The cluster includes terms for viral genome replication and viral entry into the host nucleus, alongside host DNA replication and recombination, and immune/stress responses (NF-kappaB signaling, necroptosis regulation) plus cytoskeletal and protein quality control processes (microtubule severing, aggresome assembly). This pattern points to a module where viral infection intersects with host DNA metabolism and stress response pathways, justifying a label centered on virus-host interplay with DNA processes.","confidence":"Medium","size":18,"edges":57,"triangles":64,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0090394","count":2},{"id":"GO:0019079","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0051013","count":2}]},{"hash":"966281811152176103","title":"Cardiac Electrical Signaling and Remodeling","description":"Most terms center on cardiac electrical activity: regulation of SA node and cardiomyocyte action potentials, and communication between cardiac cells via electrical coupling and membrane localization. This suggests a cluster tied to cardiac conduction and signaling, with fibroblast proliferation indicating remodeling, and innate immune signals possibly reflecting tissue response. Overall, the dominant theme is cardiac electrical signaling and associated tissue remodeling.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0048146","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0010650","count":2},{"id":"GO:1900827","count":2}]},{"hash":"1805782601462693317","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":77,"triangles":233,"max_degree":13,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0014068","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0035372","count":5},{"id":"GO:0061470","count":4}]},{"hash":"1502716291069493044","title":"Innate Immune Response and Apoptosis Regulation","description":"This cluster is strongly enriched for innate immune response (GO:0045087), protein ubiquitination (GO:0016567), and apoptotic processes (GO:0006915), including pyroptotic inflammatory response (GO:0090307). The presence of melanization defense response and inflammatory terms reinforces a host-defense and cell-death\u2013related theme, with ubiquitination likely regulating signaling and apoptosis. A few nervous system development terms appear but are much less represented, suggesting they are secondary. Overall, the core signal points to innate immune activation linked to apoptosis/pyroptosis.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":17},{"id":"GO:0016567","count":17},{"id":"GO:1990001","count":17},{"id":"GO:0090307","count":17},{"id":"GO:0070269","count":17}]},{"hash":"43422898498369321","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":63,"triangles":100,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002781","count":6},{"id":"GO:0034145","count":6},{"id":"GO:2000494","count":6},{"id":"GO:0002755","count":6},{"id":"GO:0043123","count":6}]},{"hash":"204728743817225409","title":"Virus-host Interactions and Virion Assembly","description":"This cluster is dominated by terms tied to viruses and their interaction with host cells: virion assembly, viral budding via the host ESCRT machinery, and viral release, plus proviral latency which points to persistent viral integration. Additional terms about symbiont entry and host apoptosis further emphasize pathogen\u2013host interactions. A few terms related to plant signaling and RNA processing appear ancillary, but the central theme remains virus\u2013host processes.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0009738","count":3},{"id":"GO:0030260","count":2},{"id":"GO:0039702","count":2},{"id":"GO:0010587","count":2}]},{"hash":"1340301522689479931","title":"Unknown","description":"The top terms mix lipid metabolism (glycerophospholipid catabolic process) with immune and nociception-related functions (NOD-like receptor signaling, IL-12 regulation, pain detection) and some obsolete entries, showing no clear, single shared function for the cluster. Thus no coherent label can be reliably assigned.","confidence":"","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046475","count":18},{"id":"GO:1901594","count":18},{"id":"GO:0070431","count":18},{"id":"GO:0043488","count":18},{"id":"GO:1904743","count":18}]},{"hash":"1849035591056540601","title":"Neural signaling and plasticity","description":"The terms cluster around neural function: learning/memory, neuron and glial apoptotic processes, and responses to hormones and stimuli (estradiol, nicotine, glucose), along with NF-kappaB activity. This points to proteins involved in neuronal signaling, development, and plasticity, with some stress/hormonal modulation. Metamorphosis adds developmental context but the dominant theme is neural. ","confidence":"Medium","size":18,"edges":145,"triangles":703,"max_degree":17,"top_function":"wound healing","top_go_terms":[{"id":"GO:0051092","count":18},{"id":"GO:0007611","count":17},{"id":"GO:0032355","count":17},{"id":"GO:2001269","count":17},{"id":"GO:0009749","count":17}]},{"hash":"208203131009205640","title":"Developmental and Immune Signaling Regulators","description":"The top GO terms span developmental processes (heart, placenta) and immune cell differentiation (B cells, NK T cells), plus regulation of signaling cascades (NFAT, JNK) and apoptosis. This suggests a set of proteins that modulate signaling in both development and immune contexts, rather than a single cohesive pathway, and the sparse connectivity supports a broad regulatory role.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0010763","count":2},{"id":"GO:0002344","count":2},{"id":"GO:0001865","count":2},{"id":"GO:0051534","count":2}]},{"hash":"329666365174359453","title":"Glycan biosynthesis and sialylation","description":"Most of the top GO terms point to glycosylation and glycan metabolism (N-glycan processing; protein sialylation; glycosphingolipid/ganglioside biosynthesis; N-acetylneuraminate metabolism). A few terms refer to pollen and olfactory system development, which may reflect broader developmental roles of glycosylation. Overall, the cluster seems centered on glycan assembly and modification pathways on proteins and lipids.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006054","count":5},{"id":"GO:0009860","count":5},{"id":"GO:0006677","count":5},{"id":"GO:1990743","count":5},{"id":"GO:0001574","count":5}]},{"hash":"778526416915097166","title":"SA node\u2013mediated cardiac electrical conduction","description":"The GO terms cluster around SA node cell communication, regulation of SA node action potential, and membrane depolarization in cardiac muscle cells, indicating a focus on cardiac electrical signaling and conduction. Some terms (e.g., apoptotic process, DNA damage response) are less central and may reflect broader cellular stress signals, but the dominant theme is cardiac conduction.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006977","count":2},{"id":"GO:0072660","count":2},{"id":"GO:0010650","count":2},{"id":"GO:0086070","count":2},{"id":"GO:1900827","count":2}]},{"hash":"1271510344254902518","title":"Developmental Morphogenesis and Neural Crest","description":"The cluster is enriched for several developmental and morphogenesis terms: nervous system development, sprouting angiogenesis, hair follicle morphogenesis, optic vesicle formation, ventral trunk neural crest cell migration, and ossification in bone maturation. These together point to embryonic tissue formation and tissue patterning, with neural crest\u2013related processes highlighted. Some terms referring to ribosomal export or xenobiotic response appear, but the dominant signature is developmental morphogenesis, especially neural crest\u2013associated events.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":2},{"id":"GO:0002040","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0097327","count":2},{"id":"GO:0000055","count":2}]},{"hash":"1858009974184357580","title":"Unknown","description":"The GO terms are scattered across plant development (leaf morphogenesis, leaf vascular patterning), energy signaling (CAMKK-AMPK), vesicle trafficking/synaptic regulation, mitochondrial processes, and even bone resorption, with little overlap among them. There isn\u2019t a single cohesive theme linking the proteins, and only a few terms cluster together, so a clear, representative label cannot be assigned.","confidence":"","size":18,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034260","count":2},{"id":"GO:0009965","count":1},{"id":"GO:1905289","count":1},{"id":"GO:1903217","count":1},{"id":"GO:0090394","count":1}]},{"hash":"432434615100913852","title":"Craniofacial connective tissue and skeletal development","description":"The top GO terms cluster around collagen fibril organization, face morphogenesis, roof of mouth development, skeletal system development, and blood vessel maturation, all core aspects of craniofacial connective tissue formation and skeletal patterning. Negative regulation of BMP signaling and calcium entry regulation further suggest developmental control of growth and differentiation in these tissues, supporting a cohesive theme of craniofacial ECM remodeling and skeletal development.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0060325","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0010751","count":2},{"id":"GO:0060021","count":2}]},{"hash":"1081445139292926700","title":"Symbiotic nitrogen fixation and host interaction","description":"This cluster is enriched with terms around nitrogen metabolism and host interaction in symbiotic contexts (nitrogen fixation, symbiont-mediated immune evasion, transcriptional regulation in response to nutrients), suggesting proteins involved in nitrogen metabolism and modulating host defenses during symbiosis. Some GO terms are obsolete or noisy, but the core theme points to nitrogen fixation and host interaction.","confidence":"Medium","size":18,"edges":142,"triangles":673,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0009399","count":15},{"id":"GO:0009749","count":15},{"id":"GO:0006542","count":15},{"id":"GO:0009405","count":15},{"id":"GO:0051968","count":15}]},{"hash":"2070104300141944942","title":"Ubiquitin-Dependent Protein Turnover and NF-\u03baB Signaling","description":"The cluster shows strong enrichment for various ubiquitination processes (autoubiquitination; K6- and K63-linked ubiquitination) and ubiquitin-dependent protein catabolism, plus histone turnover. It also includes positive regulation of TNF signaling and canonical NF-\u03baB signaling, linking ubiquitin modification to NF-\u03baB pathway activation and protein degradation. This suggests a cohesive role in ubiquitin-mediated turnover and NF-\u03baB\u2013driven responses.","confidence":"High","size":18,"edges":68,"triangles":127,"max_degree":15,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":18},{"id":"GO:1903265","count":17},{"id":"GO:0085020","count":17},{"id":"GO:0036205","count":17},{"id":"GO:0042787","count":17}]},{"hash":"313522942763318840","title":"Steroid Hormone and Retinoid Metabolism","description":"Enriched for steroid hormone biosynthesis (androgen/estrogen/glucocorticoid) and retinoid metabolism (retinol/retinal/retinoic acid), suggesting a cohesive focus on synthesis of steroid hormones together with vitamin A derivatives.","confidence":"High","size":18,"edges":39,"triangles":60,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008209","count":10},{"id":"GO:0061370","count":10},{"id":"GO:0042572","count":9},{"id":"GO:0042574","count":9},{"id":"GO:0006729","count":8}]},{"hash":"2033028044157653506","title":"Inflammatory vascular regulation and pain signaling","description":"The cluster is dominated by GO terms related to vascular tone and blood pressure regulation (vasoconstriction, smooth muscle regulation), coagulation, inflammatory response, and signals linked to pain perception and LPS response. The GPCR signaling pathway and histamine-related secretion further support a theme of immune\u2013vascular communication and nociception. A lone term for the electron transport chain is less connected to the core theme but may reflect metabolic activity in immune cells.","confidence":"High","size":18,"edges":8,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045907","count":14},{"id":"GO:0045986","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0006954","count":14},{"id":"GO:0032496","count":14}]},{"hash":"2017652564543271398","title":"NF-kappaB-related immune signaling and cardiac mechanotransduction","description":"The top GO terms split between immune signaling (negative regulation of IL-12 production, follicular dendritic cell differentiation, canonical NF-kappaB signaling) and cardiac/mechanical signaling (regulation of SA node cell action potential, SA node cell to atrial cardiac muscle cell communication, response to muscle stretch, cellular response to mechanical stimulus). This suggests a cluster of proteins involved in immune regulation that also participate in mechanotransduction or stress signaling in cardiac tissues. Given the presence of both themes but without a single tightly connected pathway, the label reflects the dominant themes rather than a single specialized function. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045083","count":3},{"id":"GO:0002268","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0086070","count":3}]},{"hash":"2096008819210808727","title":"Nuclear transport and chromatin regulation","description":"The GO terms cluster around nuclear-centric processes: localization to the nuclear inner membrane, RNA export, and nuclear import; chromatin silencing maintenance; ubiquitin-dependent protein turnover; spindle organization; and regulation of SMAD signaling and GTPase activity. Collectively, these point to a cohesive theme of nuclear transport, chromatin maintenance, and mitotic regulation that ties the proteins\u2019 functions together.","confidence":"High","size":18,"edges":19,"triangles":5,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0036228","count":2},{"id":"GO:1901181","count":2},{"id":"GO:0000061","count":2},{"id":"GO:0035392","count":2},{"id":"GO:0006511","count":2}]},{"hash":"710234154157303901","title":"Innate Antiviral and Interferon Response","description":"The cluster is dominated by GO terms related to defense against virus, innate immune response, and cellular response to interferon-alpha, indicating an antiviral/innate immunity program. While a few other terms (cell division, synapse assembly, coagulation, unfolded protein response) appear, they are less represented, suggesting the core function is innate antiviral defense.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0035457","count":3}]},{"hash":"1667077415130759277","title":"Ubiquitination and Protein Degradation","description":"Based on the presence of terms like protein autoubiquitination and K48-linked ubiquitination, along with positive regulation of protein catabolic processes, the core theme of this cluster appears to center on ubiquitin-mediated protein turnover and degradation. The remaining terms are more diverse, but the ubiquitin-proteasome axis provides the most coherent shared function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0033160","count":2},{"id":"GO:0019089","count":2},{"id":"GO:0032443","count":2},{"id":"GO:0051865","count":2}]},{"hash":"723365527955223974","title":"Macrophage Foam Cell Formation and Lipid Uptake","description":"The cluster's GO terms cluster around macrophage biology: innate immune response, receptor-mediated endocytosis, apoptotic cell clearance, lipoprotein transport, cholesterol storage, foam cell differentiation, and inflammatory cytokine production. Collectively, they point to macrophage-driven lipid uptake and foam cell formation in inflammatory contexts; a few terms like spinal cord development and protein deamination appear as less central noise. ","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0070207","count":2},{"id":"GO:0042953","count":2},{"id":"GO:0006898","count":2}]},{"hash":"1129613029803027518","title":"Synaptic plasticity, spine morphogenesis, and receptor clustering","description":"This cluster centers on neuronal synaptic function, with high enrichment for long-term plasticity, dendritic spine morphogenesis, postsynaptic density assembly, and clustering of NMDA/AMPA receptors, plus related signaling and ubiquitination processes. The terms collectively indicate regulation of synaptic structure and signaling at glutamatergic synapses, supporting a label around synaptic plasticity and receptor organization.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048170","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0050894","count":2},{"id":"GO:0097107","count":2}]},{"hash":"320428636348314739","title":"SA node signaling and cardiac action potential regulation","description":"The top GO terms cluster around SA node cell communication, atrial cardiac muscle cell communication, and regulation of cardiac action potentials, including membrane depolarization. This points to a theme of cardiac electrical signaling and pacemaker activity (SA node) rather than general apoptosis. A membrane localization term complements this by suggesting membrane-associated signaling or trafficking relevant to these processes; a few apoptosis-related terms appear less central. Overall, the cluster is best described by cardiac electrical activity and SA node signaling.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0072660","count":4},{"id":"GO:0010650","count":4},{"id":"GO:0086070","count":4},{"id":"GO:1900827","count":4}]},{"hash":"1842545830143647082","title":"Unknown","description":"The cluster contains GO terms from diverse biological areas: cell cycle and cell division appear twice, but most other terms relate to metabolism of various compounds (cytokinin, methanol, lactate, alkaloids), capsule biosynthesis, and antibiotic response. The terms do not point to a single coherent biological function or pathway shared by the proteins, suggesting heterogeneity rather than a common theme. Therefore, Unknown with None.","confidence":"","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0009823","count":1},{"id":"GO:0015945","count":1},{"id":"GO:1903457","count":1}]},{"hash":"2056187625380556680","title":"Neuronal signaling and sensory processing","description":"This cluster is dominated by GO terms tied to nervous system function: transmission of nerve impulses, catecholamine regulation (norepinephrine secretion), and sensory processing, along with cochlea development and circadian/sleep regulation. The presence of walking behavior and ovulation cycle rhythm hints at broader neurobehavioral control, while amyloid-beta formation points to neural-related pathology. Taken together, the proteins likely participate in neuronal signaling and sensory information processing, with ancillary roles in rhythmic and behavioral regulation.","confidence":"High","size":18,"edges":151,"triangles":785,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0071361","count":18},{"id":"GO:1902004","count":18},{"id":"GO:0045188","count":18},{"id":"GO:0060112","count":18},{"id":"GO:0007628","count":18}]},{"hash":"783638138247659320","title":"Transposon and Proviral Integration","description":"This cluster is dominated by GO terms related to genome mobility and viral processes: DNA transposition, retrotransposition, and establishment of integrated proviral latency, as well as viral penetration into the host nucleus. While there are a couple of neural development terms present (e.g., synapse assembly, axonal fasciculation) they appear secondary to the core theme of transposable elements and proviral integration. Overall, the functions suggest a pattern of genome mobility and viral integration activities.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0014068","count":2},{"id":"GO:0007413","count":2},{"id":"GO:0042552","count":2}]},{"hash":"1072008849299349273","title":"Angiogenesis and coagulation with cell adhesion","description":"The cluster centers on vascular processes: angiogenesis and positive regulation of angiogenesis, along with cell-matrix and homophilic cell adhesion, plasminogen activation, fibrinolysis, and blood coagulation. This combination points to coordinated vascular remodeling and coagulation/adhesion functions, with a few ancillary terms like apoptotic cell recognition and GnRH response that may reflect broader expression contexts.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0045766","count":3},{"id":"GO:0042730","count":3},{"id":"GO:0097211","count":3}]},{"hash":"2082351365392197009","title":"Developmental morphogenesis and angiogenesis","description":"The GO terms cluster around organismal development and tissue morphogenesis, including angiogenesis, face morphogenesis, EMT in heart development, VEGF signaling, and other developmental processes such as adipogenesis and taste bud formation, suggesting a shared developmental function rather than a single pathway. Some mitochondrial translation terms appear but do not define the overall theme.","confidence":"High","size":18,"edges":18,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0070143","count":2},{"id":"GO:0006450","count":2},{"id":"GO:2001240","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0007275","count":2}]},{"hash":"670997450682397820","title":"Neural development and complement activation","description":"This cluster centers on embryonic brain development signals, especially cerebellar Purkinje cell layer development, and includes immune-related GO terms for complement activation and regulation of the membrane attack complex. The presence of ion transport and a behavioral term like vocalization supports a neuronal function angle, suggesting a link between neurodevelopment and (neuro)immune processes in this protein set.","confidence":"Medium","size":18,"edges":2,"triangles":0,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006957","count":6},{"id":"GO:0001970","count":6},{"id":"GO:0071625","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0001701","count":6}]},{"hash":"1013448420033680010","title":"Neuronal synapse regulation and innate immune signaling","description":"Based on the top GO terms, the cluster centers on synaptic regulation (negative regulation of excitatory postsynaptic potential, positive regulation of synapse assembly, axonogenesis) and neural development, while also prominently featuring innate immune pathways (TLR signaling, defense against Gram-positive bacteria, IL-18 production, antibacterial peptide biosynthesis). This pattern suggests proteins that bridge neuronal activity and immune signaling, or a cohort with dual roles in neuro-immune regulation. The absence of network edges implies the terms are spread across proteins rather than a tight, single-function module.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090394","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0032741","count":2},{"id":"GO:0006963","count":2},{"id":"GO:0051901","count":2}]},{"hash":"216392135769517140","title":"Unknown","description":"The GO terms span highly diverse developmental processes across multiple tissues and species (plant seed morphogenesis, atrial and nephron development, ectoderm formation, pancreatic D cell development) plus assorted signaling and cytoskeletal functions, with no single cohesive function or pathway tying them together.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":4},{"id":"GO:0048317","count":3},{"id":"GO:0055011","count":3},{"id":"GO:0001705","count":3},{"id":"GO:2000768","count":3}]},{"hash":"1921777701980859581","title":"ECM remodeling and vascular regulation","description":"The terms cluster around extracellular matrix architecture (collagen fibril organization, cartilage condensation) and circulatory/vascular control (regulation of angiotensin, arterial blood pressure, plasma lipoprotein clearance), with immune involvement (complement activation) and developmental contexts (spinal cord development, hair cell differentiation) that often relate to ECM scaffolding and tissue remodeling. This suggests a functional theme of connective tissue remodeling intertwined with vascular/homeostatic regulation.","confidence":"Medium","size":18,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0021510","count":3},{"id":"GO:0035813","count":3},{"id":"GO:0003050","count":3}]},{"hash":"710091036841618473","title":"Coagulation and fibrinolysis","description":"This cluster is enriched for components of blood coagulation and the plasminogen activation/fibrinolysis pathway (e.g., blood coagulation, plasminogen activation, positive regulation of fibrinolysis, positive regulation of plasminogen activation, Factor XII activation). Additional terms point to vascular/muscle remodeling and signaling processes (G protein-coupled acetylcholine receptor signaling, receptor clustering, smooth muscle cell migration) and embryo implantation, all consistent with coordinated coagulation, fibrinolysis, and tissue remodeling. Together, these terms suggest a cohesive module centered on coagulation with concurrent regulation of fibrinolysis and vascular remodeling.","confidence":"High","size":18,"edges":105,"triangles":295,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":15},{"id":"GO:0007566","count":15},{"id":"GO:0007213","count":14},{"id":"GO:0043113","count":14},{"id":"GO:0031639","count":14}]},{"hash":"1765548653354478477","title":"Developmental morphogenesis and cell adhesion","description":"This cluster centers on tissue remodeling and morphogenesis across different contexts (pericardium, prostate epithelium, palatal shelf), with strong signals for cell migration, integrin- and receptor-mediated adhesion, and anti-anoikis regulation, suggesting coordinated roles in epithelial dynamics and vascular remodeling.","confidence":"High","size":18,"edges":130,"triangles":521,"max_degree":17,"top_function":"wound healing","top_go_terms":[{"id":"GO:0014909","count":16},{"id":"GO:0003344","count":15},{"id":"GO:0043113","count":15},{"id":"GO:1990134","count":14},{"id":"GO:0007161","count":14}]},{"hash":"1270872249614523536","title":"Glycan processing and glycosphingolipid biosynthesis","description":"This cluster's top terms converge on glycosylation and glycosphingolipid metabolism: N-glycan processing, protein sialylation, glycosylceramide metabolism, ganglioside biosynthesis, and N-acetylneuraminate metabolism dominate the set. A few terms tied to pollen or nerve development may reflect broader roles of glycosylation in signaling, but the core theme is glycan modification and glycolipid biosynthesis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016525","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0006054","count":3},{"id":"GO:0009860","count":3},{"id":"GO:0006677","count":3}]},{"hash":"2079168922575985804","title":"RNA Methylation and Processing","description":"Top GO terms point to RNA modification and processing: RNA (guanine-N7)-methylation, 7-methylguanosine mRNA capping, and peptidyl-arginine methylation, plus tRNA wobble uridine modification. These collectively indicate a cohesive role in RNA maturation and methylation-based regulation. Some terms (e.g., nodulation, light-independent chlorophyll biosynthesis) are plant-specific contexts that can accompany RNA-modifying enzymes, but do not negate the central RNA-modification theme.","confidence":"High","size":18,"edges":148,"triangles":739,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0046690","count":17},{"id":"GO:0036265","count":17},{"id":"GO:0019919","count":17},{"id":"GO:0002098","count":17},{"id":"GO:1901052","count":17}]},{"hash":"1823601813372577214","title":"Neurovascular morphogenesis","description":"The dominant GO terms point to neural development (axon fasciculation/guidance, neural crest migration, synaptic plasticity) and vascular development (sprouting angiogenesis, retina vasculature morphogenesis) with involvement of growth factor signaling (HGF/c-Met) and endosomal trafficking, suggesting a neurovascular development theme for the cluster. Some terms like complement activation may be less central or reflect broader cellular roles, but the core pattern aligns with coordinated neurovascular morphogenesis.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007413","count":3},{"id":"GO:0048846","count":3},{"id":"GO:0001867","count":2},{"id":"GO:0048168","count":2},{"id":"GO:0036486","count":2}]},{"hash":"1467835980507227462","title":"Mechanosensory signaling and neurochemical regulation","description":"This cluster centers on mechanosensory behavior, regulation of synaptic activity, and detection of mechanical stimuli related to pain, along with salty taste and control of neurotransmitter secretion, pointing to a core role in sensory neuron signaling and neurotransmission. Some terms reference pH response and water homeostasis/tracheal system, suggesting broader environmental sensing, but the primary theme remains mechanosensory and sensory-neural regulation.","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1905792","count":2},{"id":"GO:0060025","count":2},{"id":"GO:0071467","count":2},{"id":"GO:0035179","count":2},{"id":"GO:0050966","count":2}]},{"hash":"1273635303000692279","title":"Unknown","description":"This set of GO terms is highly heterogeneous: includes multiple transport activities (organic anion, D-xylose, glucose transport), vesicle-related process (phagolysosome assembly), and diverse regulatory or behavioral terms (angiogenesis-related migration, synapse assembly, vocalization, extrinsic apoptotic signaling). With no evident single biological function linking all proteins and no edges among them, there is no coherent theme to name the cluster.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043252","count":2},{"id":"GO:0090050","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0001845","count":2},{"id":"GO:0071625","count":2}]},{"hash":"215419843999281518","title":"Glycan biosynthesis in developmental epithelia","description":"The cluster is enriched for glycosylation-related processes (O-linked hydroxyproline glycosylation, arabinogalactan protein metabolism, poly-N-acetyllactosamine and Lewis a epitopes) and developmentally relevant epithelial functions (follicle epithelium polarity/adhesion, root hair development, insect visual primordium formation), suggesting a theme of glycan modification guiding development and tissue organization.","confidence":"Medium","size":18,"edges":109,"triangles":352,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":9},{"id":"GO:0048354","count":7},{"id":"GO:0080147","count":7},{"id":"GO:0018258","count":7},{"id":"GO:0007299","count":7}]},{"hash":"1888933397938187790","title":"Vacuole Transport and Metabolic Homeostasis","description":"The cluster shows a common theme of intracellular transport and metabolic balance centered on the vacuole and related membranes: vacuole fusion, amino acid transport and export from the vacuole, intracellular amino acid homeostasis, and associated lipid/glycan metabolism (glucose transport, glycerophospholipid catabolism, dolichol-linked glycan biosynthesis). A few terms (lens development, grooming behavior, nitrogen-starvation conjugation regulation) are species-specific or functional outliers and do not define the core theme. Overall, the proteins appear linked to membrane transport and metabolic regulation within vesicular compartments. ","confidence":"Medium","size":18,"edges":20,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042144","count":2},{"id":"GO:0015811","count":2},{"id":"GO:1904659","count":2},{"id":"GO:0006488","count":2},{"id":"GO:0002088","count":2}]},{"hash":"176687465220943867","title":"Stress- and sensory-response signaling","description":"The cluster includes GO terms tied to stress responses (cardiac hypertrophy in response to stress, hypoxia) and to sensory signaling (detection of mechanical stimulus for pain, startle response, cellular response to caffeine, response to capsazepine). Heart-related terms (AV node depolarization) and ion homeostasis (magnesium) appear alongside more general signaling terms, with a plant-specific jasmonic acid regulation term suggesting cross-kingdom signaling. Overall, the proteins seem to co-cluster around stress- and sensory-response pathways rather than a single narrow function, justifying this label.","confidence":"Medium","size":18,"edges":31,"triangles":9,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1903244","count":18},{"id":"GO:1901594","count":18},{"id":"GO:0086045","count":18},{"id":"GO:0060453","count":18},{"id":"GO:0071313","count":18}]},{"hash":"1149826414330322328","title":"Kidney Development and Immune Signaling","description":"The top GO terms center on metanephric/mesonephric development (kidney structures such as proximal tubule and ascending limb) indicating a renal development theme. Simultaneously, multiple immune-related pathways (complement activation lectin pathway, Fc-gamma receptor signaling, leukocyte tethering/rolling, NK cell chemotaxis) appear, suggesting involvement of immune signaling in this renal context or shared pathways. Therefore, a label that reflects both kidney morphogenesis and immune modulation best represents the cluster.","confidence":"Medium","size":18,"edges":54,"triangles":50,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":18},{"id":"GO:0072218","count":18},{"id":"GO:0072237","count":18},{"id":"GO:0060355","count":18},{"id":"GO:0090238","count":18}]},{"hash":"2159279737235674602","title":"Plant flavonoid and lignin biosynthesis","description":"The cluster is dominated by GO terms for biosynthesis of flavonoids (anthocyanin, kaempferol, and quercetin glucosides) and lignin metabolism, indicating a cohesive plant phenylpropanoid pathway. Some terms appear as outliers (e.g., paranode axon localization), but the core signal points to flavonoid/lignin biosynthesis.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0002175","count":18},{"id":"GO:0009718","count":18},{"id":"GO:0033485","count":18},{"id":"GO:0006711","count":18},{"id":"GO:0009808","count":18}]},{"hash":"2282086846623943401","title":"Unknown","description":"The top terms are a mix of development (CNS development, glomerular basement membrane development, colon epithelial migration), innervation signaling, and some metabolic processes (lipoteichoic acid and choline biosynthesis) that don\u2019t cohere into a single clear function. With low connectivity (3 edges, 0 triangles) and no obvious common theme, there isn\u2019t a strong, unified function to label this cluster.","confidence":"","size":18,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":15},{"id":"GO:0060686","count":15},{"id":"GO:0040037","count":15},{"id":"GO:0014846","count":15},{"id":"GO:0042425","count":15}]},{"hash":"1766816751271858097","title":"Diverse Substrate Transmembrane Transporters","description":"This cluster is enriched for transmembrane transport of many substrates\u2014galactose, vitamins, ions, nitrite/nitrate, sialic acid, and xenobiotics\u2014plus related metabolic activity, indicating a cohesive group of membrane transport proteins with broad substrate specificity.","confidence":"High","size":18,"edges":47,"triangles":50,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":15},{"id":"GO:0035461","count":15},{"id":"GO:1900754","count":15},{"id":"GO:0035435","count":15},{"id":"GO:0071805","count":15}]},{"hash":"1357906764273885611","title":"ECM remodeling and skin wound healing","description":"The terms cluster around extracellular matrix organization (collagen fibril organization), connective tissue development and skin-related processes (keratinocyte migration, wound healing), plus mechanotransduction (response to mechanical stimulus). This pattern points to remodeling of connective tissue and epidermal repair across tissues, with some ancillary terms like immune response aligning with tissue remodeling contexts.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0060658","count":3},{"id":"GO:0060427","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0051549","count":3}]},{"hash":"1573046095766288645","title":"Transmembrane Ion and Sugar Transporters","description":"Top GO terms indicate a strong enrichment for transmembrane transport across a variety of substrates (ions like Na+, K+, phosphate; sugars such as arabinose and fucose; nitrite; sialic acid; xenobiotics) and vesicular transport related to neurotransmitter loading. This pattern points to a cluster of membrane transporter proteins with diverse substrate specificities, including vesicular transport components. High","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0006855","count":10},{"id":"GO:0035435","count":9},{"id":"GO:0015739","count":9},{"id":"GO:0071805","count":9},{"id":"GO:0006004","count":9}]},{"hash":"365520877221542002","title":"Calcium-Driven Ion Transport and Immune Signaling","description":"The GO terms cluster around calcium-activated membrane processes (phospholipid scrambling, galactosylceramide scrambling), ion transport (chloride, potassium), and immune cell movement (dendritic cell and monocyte chemotaxis) along with intracellular signal transduction; bone mineralization terms reflect calcium's central role, reinforcing a unifying theme of calcium-dependent signaling and membrane transport in immune/vascular contexts.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902476","count":3},{"id":"GO:0035556","count":2},{"id":"GO:0035630","count":2},{"id":"GO:0002407","count":2},{"id":"GO:1902304","count":2}]},{"hash":"1310377361768889761","title":"Lipoxygenase-driven inflammatory lipid biosynthesis","description":"This cluster is dominated by GO terms for leukotriene biosynthesis and the lipoxygenase pathway, with supporting terms related to lipid hydroperoxide response and cellular oxidant detoxification, all pointing to the production and handling of inflammatory lipid mediators. Chronic inflammatory response also appears, reinforcing this theme. Calcium signaling and protein homotrimerization may be ancillary, but the core interpretation is lipoxygenase-dependent lipid mediator synthesis driving inflammation.","confidence":"High","size":18,"edges":102,"triangles":336,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0019370","count":9},{"id":"GO:0071277","count":9},{"id":"GO:0070207","count":9},{"id":"GO:0019372","count":9},{"id":"GO:0008285","count":9}]},{"hash":"275018173508915124","title":"Cardiac GPCR signaling and blood pressure regulation","description":"Strong enrichment for GPCR signaling that activates adenylate cyclase, plus terms for heart development, regulation of cardiac muscle contraction, blood pressure, and ERK/MAPK signaling, points to a shared function in cardiovascular signaling and heart function. The electron transport chain aligns with the energy demand of cardiac tissue, while a couple of outliers reflect broader signaling roles; overall the cluster centers on cardiac signaling pathways.","confidence":"High","size":18,"edges":15,"triangles":7,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0022900","count":14},{"id":"GO:0035025","count":14},{"id":"GO:0042742","count":13}]},{"hash":"1800847967502323008","title":"Neurotransmission and Physiological Signaling Regulators","description":"The top GO terms point to diverse signaling roles across systems: neural signaling (dopamine receptor signaling, endocannabinoid trans-synaptic signaling), cardiovascular regulation (vasoconstriction, cardiac muscle contraction), digestive/endocrine processes (histamine-induced gastric acid secretion), and immune/inflammatory signaling (IL-1\u03b2 production) plus stress-responsive apoptosis. There isn't a single cohesive pathway, but a common theme of modulating signaling across tissues, justifying a broad label centered on signaling regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":18},{"id":"GO:0035106","count":18},{"id":"GO:0055117","count":18},{"id":"GO:0031649","count":18},{"id":"GO:1902239","count":18}]},{"hash":"887556142670854394","title":"Retroviral DNA integration and proviral latency","description":"The top GO terms cluster around DNA synthesis and genome integration (DNA replication, DNA recombination, DNA integration, RNA-templated DNA biosynthetic process) and viral life cycle steps (viral penetration into host nucleus, establishment of integrated proviral latency). The inclusion of terms related to siRNA processing regulation and host apoptosis activation further supports viral manipulation of host defenses. Together, they point to retroviral genome integration and latency as the core theme of this cluster.","confidence":"High","size":17,"edges":39,"triangles":24,"max_degree":10,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0006310","count":5},{"id":"GO:0015074","count":4},{"id":"GO:0006278","count":3},{"id":"GO:0075732","count":3}]},{"hash":"1367456763929292393","title":"Developmental Regulation and Stress Responses","description":"The top GO terms point to transcriptional regulation and multicellular development (DNA-templated transcription; forebrain and skeletal system development) combined with stress and immune-related responses (defense against Gram-positive bacteria; ER-stress\u2013induced apoptosis; cadmium response). This suggests a cluster of proteins involved in developmental gene regulation that also engages cellular stress pathways, so a label that captures both developmental regulation and stress responses is appropriate.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0050830","count":5},{"id":"GO:0070059","count":5},{"id":"GO:0030900","count":5}]},{"hash":"312038474317800813","title":"ESCRT-driven vesicle trafficking and membrane remodeling","description":"The cluster\u2019s GO terms converge on ESCRT-dependent processes: multivesicular body assembly, regulation of exosomal secretion, and viral budding via the host ESCRT complex all point to vesicle formation and membrane remodeling. Nuclear membrane reassembly and links to cell cycle and mitotic spindle regulation further tie this to membrane dynamics during mitosis and cytokinesis. While a few terms (lens maintenance, follicle cell formation) are less direct, the dominant signals indicate a cohesive ESCRT- and vesicle-trafficking theme. ","confidence":"High","size":17,"edges":20,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045053","count":3},{"id":"GO:1903541","count":2},{"id":"GO:0036258","count":2},{"id":"GO:0031468","count":2},{"id":"GO:0036438","count":2}]},{"hash":"1018843404621597945","title":"Ubiquitin-Dependent Signaling and Protein Turnover","description":"The cluster is dominated by ubiquitin-related processes (K11-linked ubiquitination; ubiquitin-dependent protein catabolic process) and includes necroptosis-related ripoptosome assembly and NF-\u03baB signaling connections, alongside signals affecting NMDA receptor activity and cellular barriers. While some terms touch on development and cell cycle, the recurring theme is ubiquitin-mediated regulation of signaling pathways and protein turnover, suggesting a proteostasis/signaling-centered module.","confidence":"Medium","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1901026","count":4},{"id":"GO:0090557","count":4},{"id":"GO:2000310","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0000278","count":3}]},{"hash":"324060848298876744","title":"Melanosome transport and secretory vesicle trafficking","description":"The cluster shows strong representation of melanosome transport/organization and related secretory pathways (anterograde synaptic vesicle transport, secretion of lysosomal enzymes, platelet dense granule organization, endosome-to-melanosome transport, pigmentation development), suggesting a cohesive theme of intracellular trafficking to pigment-related and secretory organelles. Some terms like photosynthesis and meiosis cytokinesis appear as less coherent outliers, but the dominant pattern is vesicle trafficking to secretory/pigment organelles.","confidence":"High","size":17,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015979","count":1},{"id":"GO:0060155","count":1},{"id":"GO:0032816","count":1},{"id":"GO:0032438","count":1},{"id":"GO:0033299","count":1}]},{"hash":"1677094971730252584","title":"RNA processing and vesicle trafficking regulation","description":"This cluster is dominated by regulatory processes affecting RNA metabolism (transcription by RNA Pol III, tRNA export and processing) and membrane/vesicle trafficking (receptor-mediated endocytosis and related regulation), with some miscellaneous regulatory terms like dendrite extension and sterol biosynthesis that are less central. The strongest cohesive theme across the top GO terms is regulation of RNA handling together with vesicular transport processes.","confidence":"Medium","size":17,"edges":128,"triangles":578,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0045945","count":3},{"id":"GO:0030579","count":3},{"id":"GO:0046642","count":3},{"id":"GO:0010794","count":3},{"id":"GO:0010796","count":3}]},{"hash":"1234445241239024079","title":"Viral DNA integration and host cell cycle manipulation","description":"The terms cluster around DNA transposition and proviral integration, plus stages of viral entry and nucleus penetration, suggesting integrases/transposases and retroviral latency. The inclusion of DNA replication and cell cycle-related processes implies viral manipulation of host replication and division. Together, they reflect a theme of viral DNA integration and host cell cycle modulation.","confidence":"High","size":17,"edges":98,"triangles":305,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006313","count":5},{"id":"GO:0075713","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0006260","count":3}]},{"hash":"644067937131299212","title":"Spliceosome-Driven RNA Processing and Surveillance","description":"This cluster's top GO terms cluster around RNA metabolism: spliceosome assembly/disassembly, mRNA splicing, spliceosome\u2013mediated processing, nonsense-mediated decay, mRNA export, and RNA surveillance pathways (TRAMP). These repeatedly point to a core function in RNA processing and quality control in the nucleus, with DNA replication and SOS response terms likely reflecting broader cellular stress regulation rather than core cluster function.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000184","count":14},{"id":"GO:0006260","count":12},{"id":"GO:0009432","count":12},{"id":"GO:0000390","count":11},{"id":"GO:1903241","count":11}]},{"hash":"1232712613323063906","title":"RNA Splicing and mRNA Export","description":"The top GO terms show strong emphasis on RNA processing and transport: splicing regulation, prespliceosome assembly, spliceosomal disassembly, and poly(A)+ mRNA export, plus RNA quality control (TRAMP) and regulatory ncRNA pathways. Developmental terms like oskar mRNA localization and neural plate morphogenesis suggest RNA localization roles in development, but the core signal is RNA splicing/processing and mRNA handling. ","confidence":"High","size":17,"edges":50,"triangles":52,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0001839","count":2},{"id":"GO:0045176","count":2},{"id":"GO:0045451","count":1}]},{"hash":"809440291338381617","title":"DNA replication and UV-damage repair","description":"The cluster is dominated by GO terms for DNA-templated replication, cellular response to UV-C, and both error-free and error-prone translesion synthesis, along with nucleotide-excision repair and DNA gap filling, indicating a core function in genome maintenance and damage tolerance under UV stress. Additional terms related to translation and non-stop decay appear less prominently, suggesting possible multifunctionality or co-purified RNA factors, but the central theme is DNA replication/repair and UV damage response.","confidence":"High","size":17,"edges":123,"triangles":511,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006261","count":3},{"id":"GO:0071494","count":3},{"id":"GO:0070987","count":3},{"id":"GO:0042276","count":3},{"id":"GO:0006297","count":3}]},{"hash":"193106902138342014","title":"TLR signaling and cytokine production","description":"The top GO terms cluster around toll-like receptor signaling (TLR2/TLR4), MyD88-dependent pathways, and downstream NF-\u03baB activation, driving pro-inflammatory cytokines such as IL-6, IL-12, and IL-18, as well as chemokine production. This pattern indicates a cohesive innate immune signaling module responding to microbial stimuli.","confidence":"High","size":17,"edges":15,"triangles":9,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0034137","count":9},{"id":"GO:0002755","count":9},{"id":"GO:0034145","count":9},{"id":"GO:0045410","count":9},{"id":"GO:0070671","count":9}]},{"hash":"624004950180767142","title":"Embryogenesis and Organ Morphogenesis","description":"Most terms point to development and morphogenesis across tissues\u2014placental development, heart cushion EMT, cartilage morphogenesis, left-right patterning, pancreatic endocrine development, and overall endocrine system development\u2014with a couple of general RNA processing terms that may reflect core gene expression. The dominant signal is embryonic differentiation and organ formation, suggesting these proteins participate in developmental processes rather than a single specific pathway.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":5},{"id":"GO:0032298","count":3},{"id":"GO:0060707","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060536","count":3}]},{"hash":"1739331762173292092","title":"Folate One-Carbon Metabolism","description":"This cluster is driven by folate/one-carbon metabolism: folic acid biosynthesis and catabolic processes, tetrahydrofolate interconversion, and formate metabolism. Other terms like DNA-templated transcription and liver regeneration appear but are less representative. The lack of edges doesn\u2019t undermine the folate signature, making this label a reasonable fit.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0097421","count":2},{"id":"GO:0009396","count":2},{"id":"GO:0015942","count":2},{"id":"GO:0035999","count":2}]},{"hash":"221383161883191970","title":"Immune signaling and apoptosis regulation","description":"This cluster is dominated by GO terms related to NF-kappaB signaling, chemokine production/regulation, IL-12 regulation, and TRAIL-mediated apoptotic signaling, suggesting a core theme of immune signaling and programmed cell death control. Developmental terms appear less central and may reflect broader regulatory roles. ","confidence":"Medium","size":17,"edges":23,"triangles":9,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0042489","count":6},{"id":"GO:0051798","count":6},{"id":"GO:2000341","count":6},{"id":"GO:0071285","count":6}]},{"hash":"2052083531328908680","title":"TLR/MYD88-Driven Inflammatory Response","description":"The GO terms show a strong emphasis on innate immune signaling, with defense against virus, LPS signaling, MyD88-dependent TLR signaling, and inflammatory TNF production, indicating proteins involved in TLR-NF-\u03baB\u2013mediated inflammation. Some RNA-catabolic terms appear but do not define the core function. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032760","count":3},{"id":"GO:0051607","count":2},{"id":"GO:0031663","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0006954","count":2}]},{"hash":"1625248578780204101","title":"Ubiquitin-Dependent Protein Degradation and Receptor Turnover","description":"The cluster is characterized by strong enrichment for ubiquitination and proteolysis terms (protein ubiquitination, ubiquitin-dependent ERAD, K48-/K6-linked ubiquitination) and general protein catabolic processes, pointing to ubiquitin-mediated proteostasis. Some terms such as Wnt receptor catabolic process and peroxisomal import may reflect regulation of turnover via ubiquitination, with a peripheral link to vitamin D response. Overall, the cohesive theme is ubiquitin-dependent protein degradation.","confidence":"High","size":17,"edges":8,"triangles":0,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":8},{"id":"GO:0030433","count":7},{"id":"GO:0046621","count":7},{"id":"GO:0070936","count":7},{"id":"GO:0042787","count":7}]},{"hash":"1094997028597940741","title":"Embryonic Patterning and Tissue Differentiation","description":"The top GO terms converge on developmental processes across multiple tissues and axes, including somite formation, left-right patterning, floor plate and cardioblast migration, and organ development (lung vasculature, pancreas, muscle, amacrine cells). This suggests a shared theme of embryonic development and tissue specification, justifying a name that emphasizes patterning and differentiation during development. High","confidence":"","size":17,"edges":30,"triangles":17,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":5},{"id":"GO:0060426","count":4},{"id":"GO:0033504","count":4},{"id":"GO:0035881","count":4},{"id":"GO:0031018","count":4}]},{"hash":"1820419564534571442","title":"Embryonic Development and Morphogenesis","description":"These proteins show a common association with developmental processes across multiple tissues: trophoblast differentiation, epithelial-to-mesenchymal transition in heart development, cartilage morphogenesis, placenta-associated differentiation, endocrine development, left-right patterning, and corticospinal tract formation. The shared theme is embryonic tissue differentiation and organ morphogenesis rather than a single specific pathway, with a minor outlier term related to antiviral defense that does not override the overall developmental signal. Confidence: Medium","confidence":"","size":17,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0035270","count":3}]},{"hash":"1006860499586065058","title":"Microtubule-Mediated Nuclear Migration and Spindle Dynamics","description":"The top GO terms point to microtubule-based movement and nuclear/spindle processes, including nuclear migration along microtubules, spindle orientation and elongation, cytokinesis, and karyogamy during conjugation. These collectively indicate a cluster of proteins coordinating microtubule motors and spindle dynamics across mitosis, meiosis, and cellular fusion events.","confidence":"High","size":17,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0030473","count":16},{"id":"GO:0032886","count":16},{"id":"GO:0000911","count":16},{"id":"GO:0051296","count":16},{"id":"GO:0000022","count":16}]},{"hash":"407769920801071098","title":"Cardiac pacemaker signaling","description":"Based on the top GO terms, the cluster centers on cardiac electrical activity: regulation of SA node cell action potential, membrane depolarization in cardiac muscle, and communication between pacemaker and atrial cells, suggesting proteins involved in heart rhythm signaling. Some terms about membrane localization and multicellular development may reflect broader signaling contexts in cardiac tissue, but the core theme is cardiac pacemaker signaling and action potential regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006977","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0035994","count":3},{"id":"GO:0010650","count":3},{"id":"GO:1900827","count":3}]},{"hash":"1666949222019637414","title":"Cell signaling and endomembrane trafficking","description":"This cluster shows a dominant theme of signaling pathways (Wnt signalosome assembly; CAMKK-AMPK regulation; phosphorylation) together with intracellular transport processes (regulation of retrograde transport from endosome to Golgi). Metabolic and amino-acid related terms appear less central, likely background noise, but the core connection is signaling linked to vesicular trafficking. ","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006576","count":3},{"id":"GO:0019284","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0019509","count":3}]},{"hash":"178051384160896086","title":"Immune Response and Cell Adhesion","description":"The proteins cluster around innate and adaptive immune functions (innate immune response, complement activation, adaptive immune response, B cell receptor signaling) with frequent cell adhesion terms (cell-cell adhesion, heterophilic adhesion), indicating a theme of immune signaling and immune cell interactions. A heart development term is present but appears less representative of the core function.","confidence":"High","size":17,"edges":13,"triangles":5,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0007157","count":7},{"id":"GO:0007507","count":5},{"id":"GO:0002250","count":5}]},{"hash":"928374006733248640","title":"Epigenetic Chromatin Silencing and Cell Cycle Control","description":"This cluster centers on epigenetic mechanisms\u2014DNA methylation, histone modifications, chromatin silencing, and siRNA-directed methylation\u2014that regulate gene expression and heterochromatin structure, alongside terms about cell cycle regulation (notably G1/S transition). The common thread is epigenetic control of transcription with an influence on cell cycle progression, justifying a combined label.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010216","count":1},{"id":"GO:0010390","count":1},{"id":"GO:0051865","count":1},{"id":"GO:0090308","count":1},{"id":"GO:0080188","count":1}]},{"hash":"829153885799287104","title":"SA Node Signaling and Membrane Localization","description":"The terms show strong emphasis on plasma membrane localization and SA node\u2013related electrical signaling (membrane depolarization, SA node action potential, and cell-to-cell electrical communication), with supporting microtubule-related terms suggesting additional structural roles. This points to a cluster centered on membrane-associated cardiac signaling rather than a single enzymatic pathway. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0072661","count":3},{"id":"GO:0010650","count":3},{"id":"GO:1900827","count":3},{"id":"GO:0098907","count":3},{"id":"GO:0086070","count":3}]},{"hash":"327345879175221942","title":"Unknown","description":"The GO terms are too diverse, including telomere maintenance, mRNA processing, proteasome assembly, cell migration, adipogenesis, and several muscle/electrophysiology terms, with no single shared function. Without a unifying theme, a precise label is not possible, so Unknown.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":5},{"id":"GO:1904355","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0032212","count":5},{"id":"GO:0045444","count":5}]},{"hash":"456459414277845048","title":"Rho-Driven Actin Remodeling and Membrane Protrusions","description":"This cluster centers on actin cytoskeleton remodeling and protrusive structures (lamellipodia, filopodia) with Rho signaling, plus related processes like actin organization, axon extension, and membrane-associated transport from Golgi to plasma membrane. The cohesive theme is actin-driven protrusion and membrane trafficking underpinning cell migration and neural outgrowth, with peripheral links to platelet aggregation and host-cell entry that also involve cytoskeletal dynamics.","confidence":"High","size":17,"edges":91,"triangles":273,"max_degree":15,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006893","count":5},{"id":"GO:0007266","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0048675","count":4},{"id":"GO:2000535","count":4}]},{"hash":"489248521360658460","title":"Cell adhesion, polarity, and cytoskeleton organization","description":"The dominant terms point to processes governing cell-cell junctions (adherens junction organization), maintenance of cell polarity, and actin cytoskeleton remodeling (stress fiber assembly) with links to spindle orientation during cell division. This suggests a cohesive theme around how cells adhere, polarize, and reorganize their cytoskeleton for growth and division. While some terms touch broader signaling pathways or transport, these appear secondary to the central theme of cell architecture and polarity.","confidence":"High","size":17,"edges":116,"triangles":435,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034332","count":17},{"id":"GO:0000055","count":17},{"id":"GO:1903434","count":17},{"id":"GO:0097327","count":17},{"id":"GO:0035264","count":17}]},{"hash":"817464790352908748","title":"NF-\u03baB Regulation in Immune Response","description":"The GO terms cluster around NF-\u03baB signaling and immune modulation, including positive regulation of canonical NF-\u03baB signaling and NF-\u03baB transcription factor activity, as well as immune-regulatory processes (negative regulation of B cell proliferation, IL-12 production, thymic T cell selection, and follicular dendritic cell differentiation). Ubiquitination is a key regulatory step for NF-\u03baB, and LPS response links to NF-\u03baB activation; viral mRNA export from the host nucleus hints at virus\u2013host interactions that commonly affect this pathway. A cellular response to mechanical stimulus may reflect related stress signaling feeding into NF-\u03baB activity. Overall, the cluster appears to group proteins involved in modulating NF-\u03baB\u2013driven immune responses.","confidence":"High","size":17,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0045060","count":3},{"id":"GO:0032496","count":3}]},{"hash":"2156639125237216650","title":"Embryogenesis and Organ Morphogenesis","description":"The top GO terms cluster around embryonic development and organogenesis, including epithelial-to-mesenchymal transitions in heart development, cartilage morphogenesis, left-right patterning, palate/roof of mouth development, pancreatic endocrine development, and placenta-related differentiation. A few housekeeping terms are present, but the dominant theme is developmental processes shaping tissues and organs.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0003323","count":6},{"id":"GO:0060707","count":6}]},{"hash":"1128680893577348973","title":"Detoxification and Xenobiotic Amino Acid Catabolism","description":"These proteins co-occur with GO terms covering response to antibiotics, xenobiotic and amino acid catabolic pathways (phenylalanine/tyrosine), and glutathione metabolism, with added redox-related processes and regulatory/endocytic steps. The common theme is metabolic processing and detoxification of xenobiotics and amino-acid\u2013derived compounds via redox and glutathione-dependent pathways, justifying a label focused on detoxification and catabolism of xenobiotics and amino acids.","confidence":"Medium","size":17,"edges":98,"triangles":283,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0032259","count":3},{"id":"GO:0006559","count":3},{"id":"GO:0042178","count":3}]},{"hash":"588622192249525867","title":"CYP450-driven steroid and lipid metabolism","description":"The top GO terms cluster around androgen metabolic and testosterone biosynthetic processes, and include epoxygenase P450 and oxylipin biosynthesis, indicating cytochrome P450 enzymes driving steroid and lipid metabolism. Additional terms such as retinoic acid biosynthesis and xenobiotic-related processes (insecticide, vancomycin biosynthesis) support a broader P450-centered metabolic capacity. Overall, the dominant signal is P450-mediated metabolism of steroids and lipids with some related xenobiotic processing.","confidence":"High","size":17,"edges":129,"triangles":585,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":17},{"id":"GO:0061370","count":17},{"id":"GO:0019373","count":16},{"id":"GO:0031408","count":16},{"id":"GO:1900087","count":16}]},{"hash":"1495384920358304947","title":"Mitochondrial Protein Import and Dephosphorylation","description":"The top GO terms cluster around protein handling and energy-related processes, especially mitochondrial protein import and dephosphorylation, with protein stabilization and cellular response to ATP also represented. A few terms appear as noise from bacterial biosynthetic pathways, but the core signal points to mitochondrial protein maturation and phosphorylation-state regulation.","confidence":"Medium","size":17,"edges":52,"triangles":29,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0050821","count":3},{"id":"GO:0030150","count":2},{"id":"GO:0031247","count":1},{"id":"GO:0071318","count":1},{"id":"GO:0006470","count":1}]},{"hash":"250236023490266108","title":"Metal Ion Transport and Phosphatase Signaling","description":"The top GO terms emphasize transmembrane transport of metal ions (cadmium, zinc), calcium ion homeostasis, and dephosphorylation/phospholipid dephosphorylation, suggesting a membrane-associated signaling and ion-homeostasis theme. While there are some related catabolic and hormone-response terms, the core signal centers on metal transport and lipid-signaling processes.","confidence":"Medium","size":17,"edges":59,"triangles":93,"max_degree":13,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0019700","count":5},{"id":"GO:0006874","count":5},{"id":"GO:0046272","count":5},{"id":"GO:0019373","count":5}]},{"hash":"455638400519458373","title":"Developmental signaling and ECM remodeling","description":"The cluster features enrichment for signaling pathways (ERK cascade, NF-kappaB, cytokine signaling) along with extracellular matrix-related processes (collagen fibril organization) and organ/tissue development (lung, kidney, nipple). This suggests a module where signaling regulates tissue formation and ECM remodeling, with some immune signaling activity that may reflect crosstalk between development and defense responses.","confidence":"Medium","size":17,"edges":36,"triangles":38,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":12},{"id":"GO:0050830","count":12},{"id":"GO:0019221","count":11},{"id":"GO:0030199","count":11},{"id":"GO:1900155","count":11}]},{"hash":"1030313100280091274","title":"Estrogen-responsive neural development genes","description":"The top terms are dominated by brain/visual-system development (cerebellar cortex, hippocampus, optic nerve, retinal ganglion cell axon guidance, corpus callosum) and by transcriptional regulation (DNA-templated transcription, transcription factor activity), with an additional hint of estrogen response. This suggests a cluster of proteins involved in neural development with estrogen-responsive transcriptional regulation; heart development appears less central. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043627","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0021695","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0033138","count":2}]},{"hash":"285521477372479649","title":"Neuronal development and synaptic regulation with mechanotransduction","description":"This cluster is enriched for GO terms such as positive regulation of neuron projection development, regulation of long-term neuronal synaptic plasticity, and regulation of glutamatergic synaptic transmission, pointing to neuronal development and synaptic function. Additional terms highlight responses to mechanical stimuli and mechanosensation, suggesting mechanotransduction contexts, along with regulation of extracellular matrix assembly, which can influence neurite outgrowth and synapse formation. The combination of synaptic regulation and mechanotransduction with ECM context supports a cohesive theme around neuronal connectivity shaped by mechanical cues.","confidence":"High","size":17,"edges":21,"triangles":3,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0010976","count":3},{"id":"GO:0048169","count":3},{"id":"GO:0051966","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0090190","count":2}]},{"hash":"1914030755689497760","title":"Embryonic morphogenesis and placental development","description":"The cluster shows strong representation of embryogenesis-related terms (trophoblast giant cell differentiation, EMT in endocardial cushion formation, cartilage morphogenesis, left/right pattern formation, endocrine system development, placental-related processes). While a few terms touch general cellular functions (ubiquitination, splicing, DNA replication initiation), the overall theme centers on embryonic development and placental lineage specification, supporting a cohesive developmental cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060806","count":4}]},{"hash":"728441659130824642","title":"Signaling and Trafficking Regulators","description":"The GO terms point to diverse regulatory roles in multiple pathways (energy-sensing CAMKK-AMPK signaling, Wnt signalosome assembly, Toll-like receptor signaling, pathogen detection), as well as processes like neuronal maturation, polarity maintenance, retrograde transport, and cell-cycle transitions. The common thread is broad regulatory influence on signaling and intracellular trafficking rather than a single specific pathway, so a general label of Signaling and Trafficking Regulators is appropriate, though the spread of terms makes the connection modest.","confidence":"Low","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905289","count":1},{"id":"GO:0090394","count":1},{"id":"GO:1905279","count":1},{"id":"GO:1904887","count":1},{"id":"GO:0016336","count":1}]},{"hash":"250990281227319415","title":"Embryonic Organogenesis and Heart Development","description":"The GO terms show a cohesive theme of embryonic development across multiple organs, notably heart-related processes (endocardial cushion formation, heart trabecula morphogenesis), left-right patterning, cartilage morphogenesis, and placental/endocrine system development. This points to proteins involved in broad organogenesis with a strong emphasis on cardiac development.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":4},{"id":"GO:0060707","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0060806","count":3}]},{"hash":"81029075121039434","title":"Embryonic development and tissue morphogenesis","description":"This cluster groups proteins associated with broad developmental processes across tissues: extracellular matrix remodeling (collagen fibril organization, cartilage morphogenesis), neural development (myelination, axonogenesis), and key embryonic lineage events (trophoblast differentiation, EMT in heart development, left-right pattern formation, endocrine system development). The shared theme is embryonic differentiation and morphogenesis rather than a single signaling pathway.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":5},{"id":"GO:0007169","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0050772","count":4},{"id":"GO:0060707","count":4}]},{"hash":"20518209846619293","title":"Innate Immune Activation and Stress Response","description":"Proteins in this cluster show enrichment for innate immune processes (complement activation via classical and alternative pathways, phagolysosome assembly) and stress-related regulation (apoptotic signaling, xenobiotic response). Some terms like vocalization and fertilization appear unrelated and may reflect annotation noise, but the core themes point to immune and stress-related functions.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001241","count":2},{"id":"GO:0006957","count":2},{"id":"GO:0071625","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0090050","count":2}]},{"hash":"623920495263438332","title":"Unknown","description":"The GO terms span metabolism (glucose homeostasis, spermidine catabolic process), neural development/behavior (positive regulation of synapse assembly, vocalization behavior), immune signaling (positive regulation of T cell proliferation), lysosome function (phagolysosome assembly), and cell fate regulation (apoptotic signaling, negative regulation of proliferation), with no clear single pathway or function linking them and no edges between proteins. This dispersed theme suggests no coherent cluster function can be assigned beyond Unknown.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042593","count":2},{"id":"GO:0090050","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0001845","count":2},{"id":"GO:0071625","count":2}]},{"hash":"2194799578504946089","title":"Cross-Tissue Developmental Morphogenesis","description":"The top GO terms cover morphogenesis and development across multiple tissues (heart vasculature, pericardium, palatal shelf, prostate glandular structures, cerebellar development, glomerular mesangial cells) along with axon guidance and regulation of signaling pathways (e.g., JAK-STAT). This suggests a shared theme of developmental morphogenesis across organs rather than a single tissue-specific function, so a cross-tissue developmental morphogenesis label fits best.","confidence":"Medium","size":17,"edges":5,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060982","count":11},{"id":"GO:1990134","count":11},{"id":"GO:0048846","count":10},{"id":"GO:0003344","count":10},{"id":"GO:0007262","count":10}]},{"hash":"1896644338941380742","title":"Myelin Formation and Neuronal Signaling","description":"The cluster is enriched for myelin-related processes (galactosylceramide biosynthesis and myelination) and neural signaling terms (regulation of glutamate receptor signaling, locomotion, and pain response), suggesting proteins involved in oligodendrocyte-driven myelin formation and CNS communication; immune and vascular terms appear peripheral.","confidence":"Medium","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":2},{"id":"GO:0006682","count":2},{"id":"GO:0042552","count":2},{"id":"GO:0043059","count":2},{"id":"GO:0001975","count":2}]},{"hash":"2249194003545804139","title":"P450-driven lipid mediator and xenobiotic metabolism","description":"The top GO terms cluster around epoxygenase P450 pathway, oxylipin and prostaglandin biosynthesis, and various steroid-related processes (androgen, vitamin D metabolism), which collectively point to cytochrome P450\u2013mediated metabolism of lipids into signaling molecules and detoxification pathways. This suggests a cohesive theme of lipid mediator biosynthesis coupled with xenobiotic/steroid metabolism.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0001516","count":2},{"id":"GO:0008209","count":1},{"id":"GO:0019373","count":1},{"id":"GO:0031408","count":1}]},{"hash":"1473614130889571591","title":"Cardiovascular development and vascular remodeling","description":"The top GO terms cluster around heart and vessel biology: pericardium morphogenesis, sprouting angiogenesis, smooth muscle cell proliferation, PDGF production, blood pressure regulation, and GPCR-mediated acetylcholine signaling, all pointing to cardiovascular development and vascular remodeling. Some terms like keratinocyte differentiation are less central but do not negate the overall vascular/cardiovascular theme.","confidence":"High","size":17,"edges":50,"triangles":78,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043154","count":17},{"id":"GO:0003344","count":17},{"id":"GO:0048661","count":17},{"id":"GO:0061476","count":17},{"id":"GO:0090050","count":17}]},{"hash":"1733984437328034192","title":"ER Trafficking and ER Stress Signaling","description":"Most terms point to endoplasmic reticulum biology\u2014ER-to-Golgi transport, ER exit regulation, ER tubular network organization, and ER inheritance\u2014paired with ER stress and stress-induced apoptotic signaling. A few non-ER terms appear, but the dominant pattern is ER homeostasis and trafficking.","confidence":"High","size":17,"edges":120,"triangles":479,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0002037","count":2},{"id":"GO:0008631","count":2},{"id":"GO:0010917","count":2},{"id":"GO:0070863","count":2}]},{"hash":"144113663289176428","title":"Cardiovascular development via cell adhesion and migration","description":"Most of the top terms center on cell adhesion (heterophilic cell-cell adhesion; cell-matrix adhesion) and cell migration, with explicit references to cardiovascular morphogenesis (endocardial cushion formation; sprouting angiogenesis). The other terms seem ancillary, so the dominant theme is adhesion- and migration-driven cardiovascular development.","confidence":"High","size":17,"edges":14,"triangles":0,"max_degree":5,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007157","count":10},{"id":"GO:2001241","count":9},{"id":"GO:0071625","count":9},{"id":"GO:0007160","count":9},{"id":"GO:0090050","count":9}]},{"hash":"333347549454180131","title":"Neural and muscle development","description":"The terms show a cohesive theme of developmental processes in both neural and muscular tissues: neurogenesis, neuron migration, synapse assembly, and cell adhesion (neural-focused), alongside myoblast differentiation, muscle filament assembly, and heart development (muscle/cardiac-focused), with signaling pathways such as Robo and BMP implicated across these processes. This suggests a cluster of proteins coordinated in neural and muscular development rather than a single specialized function.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035385","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0021836","count":8},{"id":"GO:0051965","count":8},{"id":"GO:0030513","count":8}]},{"hash":"1629329572015327492","title":"TLR-Mediated Innate Immune Signaling","description":"The cluster is dominated by GO terms for Toll-like receptor pathways (TLR1/2/8) and the MyD88-dependent signaling axis, with positive regulation of NF-\u03baB signaling and cytokine production (IL-18, IFN-\u03b1). It also includes defenses against Gram-positive and Gram-negative bacteria and non-canonical NF-\u03baB signaling, indicating a cohesive module of TLR-triggered innate immune responses and downstream inflammatory signaling.","confidence":"High","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032741","count":17},{"id":"GO:0050830","count":17},{"id":"GO:0034130","count":17},{"id":"GO:0042346","count":17},{"id":"GO:0034134","count":17}]},{"hash":"231683608076523717","title":"Calcium-Dependent Sensory and Cardiac Signaling","description":"Proteins in this cluster prominently feature calcium ion import and processes tied to sensory perception of temperature and pain, along with regulation of SA node cell action potential, suggesting a shared theme of calcium-driven signaling that links sensory inputs with cardiac electrophysiology. Additional GO terms (ubiquitination, lipid catabolism, vitamin D response, IL-12 regulation, cell growth) appear peripheral to this core theme but indicate broader cellular regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0098907","count":8},{"id":"GO:1901594","count":7},{"id":"GO:0098703","count":7},{"id":"GO:0033280","count":7},{"id":"GO:0050960","count":7}]},{"hash":"755176309207578717","title":"Bone ECM remodeling and innate immunity","description":"The cluster shows strong representation of extracellular matrix and bone-related processes (bone development, collagen fibril organization, glycosaminoglycan cross-linking), suggesting a core theme of ECM remodeling in bone tissue. Concurrent enrichment for innate immune signaling (TLR1 pathway, defense response to Gram-positive bacteria, IL-18 production) indicates a link between tissue remodeling and immune responses. Additional terms like axonogenesis and endosome-Golgi transport point to broader developmental roles, but the dominant pattern ties ECM/bone biology with innate immunity. ","confidence":"Medium","size":17,"edges":41,"triangles":40,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019800","count":14},{"id":"GO:0060348","count":14},{"id":"GO:0030199","count":13},{"id":"GO:0032741","count":11},{"id":"GO:0006963","count":11}]},{"hash":"994765537432815480","title":"Golgi-to-synapse vesicle trafficking (SNAREs)","description":"The cluster centers on vesicle trafficking involving the Golgi (ER\u2192Golgi transport, intra-Golgi transport, Golgi ribbon formation, and Golgi-to-vacuole transport) and SNARE complex assembly, together with synaptic roles such as synaptic vesicle fusion at the presynaptic site and postsynaptic receptor localization, ending in processes like long-term potentiation. This combines Golgi/secretory pathway functions with synaptic vesicle dynamics, suggesting a cohesive role in both Golgi-mediated trafficking and synaptic membrane modulation.","confidence":"High","size":17,"edges":78,"triangles":170,"max_degree":16,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048280","count":9},{"id":"GO:0006888","count":9},{"id":"GO:0090161","count":8},{"id":"GO:0006891","count":7},{"id":"GO:0006896","count":6}]},{"hash":"1232853183873571233","title":"Neural development and myelination","description":"The cluster is dominated by GO terms related to nervous system development, neurogenesis, and myelination (e.g., myelination, neurogenesis, positive regulation of synapse assembly). Signaling pathways tied to neural patterning and axon guidance, such as BMP signaling, Hedgehog (Smoothened), and Roundabout signaling, further support a neural development/synaptic differentiation theme. A neutrophil clearance term appears as a minor outlier, but the overall signature points to neural development and myelination. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0097350","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0045663","count":3}]},{"hash":"677186252123760801","title":"Sterol and lipid biosynthesis","description":"The top GO terms cluster around lipid metabolism and sterol pathways: ergosterol biosynthetic process, cholesterol biosynthetic process via lathosterol, fatty acid biosynthesis, ether lipid metabolism, and specific sterol oxidations. The mention of CNS myelin maintenance and sebaceous gland differentiation also aligns with lipid-rich membranes and secreted lipids, supporting a cohesive theme of lipid biosynthesis and metabolism across tissues.","confidence":"High","size":17,"edges":135,"triangles":665,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0032286","count":12},{"id":"GO:0006675","count":12},{"id":"GO:0001949","count":12},{"id":"GO:0006696","count":10},{"id":"GO:0035754","count":9}]},{"hash":"1155304462186571147","title":"Cholesterol Homeostasis and Lipoprotein Regulation","description":"This cluster's top GO terms cluster around cholesterol storage and homeostasis, regulation of plasma lipoprotein particle levels, foam cell differentiation, and related lipid modification and signaling processes, suggesting a cohesive role in lipid metabolism and cholesterol handling.","confidence":"High","size":17,"edges":125,"triangles":547,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0018009","count":4},{"id":"GO:0097006","count":4},{"id":"GO:0042121","count":4},{"id":"GO:0007224","count":4},{"id":"GO:0010742","count":4}]},{"hash":"1138505813948771621","title":"Immune cytokine signaling and antiviral defense","description":"This cluster is dominated by GO terms related to regulation of cytokine production (including IL-18, IL-2), modulation of T cell receptor signaling, and cellular responses to type II interferon, along with defense responses against viruses and protozoa. The combination suggests a coherent theme of immune communication and host defense, with some involvement in trafficking-related processes (Golgi organization, protein localization) that could support cytokine secretion. Overall, the terms point to an immune-regulatory, antiviral defense cluster rather than a purely metabolic or structural one.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":2},{"id":"GO:1900017","count":2},{"id":"GO:0072616","count":2},{"id":"GO:1903077","count":2},{"id":"GO:0007030","count":2}]},{"hash":"1085785821296554544","title":"Developmental Differentiation Across Tissues","description":"The top GO terms point to developmental and differentiation processes across multiple tissues (heart development, myoblast differentiation, neurogenesis, adipose tissue proliferation, and endothelial cell chemotaxis). This suggests a broad developmental signaling program rather than a single pathway, justifying a broad label for the cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0070352","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0045663","count":2},{"id":"GO:0001798","count":2}]},{"hash":"768471547104091587","title":"Immune defense and signaling","description":"This cluster is dominated by GO terms related to immune processes: complement activation (alternative pathway), positive regulation of membrane attack complex activation, immunological synapse formation, and defense responses such as callose deposition and immune response to tumor cells. There is also a plant-immunity signal (salicylic acid metabolism). While a few terms like short-term memory, behavioral fear response, and hair orientation are less clearly tied to immunity, the overall theme centers on immune activation and defense signaling across species, with some outlier terms. ","confidence":"Medium","size":17,"edges":112,"triangles":409,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0007614","count":9},{"id":"GO:0001662","count":9},{"id":"GO:0002418","count":9},{"id":"GO:0006957","count":9},{"id":"GO:0001970","count":9}]},{"hash":"1141689541226545039","title":"Developmental morphogenesis and innate immune signaling","description":"The top GO terms include collagen fibril organization and nipple morphogenesis (developmental processes), along with axonogenesis and dorsal/ventral axis specification, together with innate immunity signals (TLR1 signaling, NF-kappaB, IL-18 production, antibacterial peptide biosynthesis). This suggests a cluster of proteins involved in developmental morphogenesis where innate immune pathways are engaged, indicating a developmental context with immune signaling.","confidence":"Medium","size":17,"edges":13,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030199","count":17},{"id":"GO:0032741","count":15},{"id":"GO:0006963","count":15},{"id":"GO:0051901","count":15},{"id":"GO:0007409","count":15}]},{"hash":"193230293201034093","title":"Innate immunity and endocytosis","description":"The cluster is dominated by innate immune response and endocytic processes, including receptor-mediated endocytosis, apoptotic cell clearance, and inflammatory cytokine regulation, suggesting a core role in immune recognition and clearance. A subset of terms on lipoprotein transport and cholesterol storage hints at lipid-associated inflammatory regulation, while a few terms (spinal cord development, renal sodium excretion, protein trimerization) may reflect broader functional annotations or indirect connections.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035813","count":17},{"id":"GO:0046598","count":17},{"id":"GO:0045087","count":17},{"id":"GO:0021510","count":17},{"id":"GO:0070207","count":17}]},{"hash":"20290564982055438","title":"Mitochondrial membrane potential and ion transport","description":"The cluster\u2019s top GO terms cluster around regulation of mitochondrial membrane potential and permeability, together with ion homeostasis (chloride and bicarbonate transport) and secretion, suggesting a set of proteins involved in controlling mitochondrial function and related transport/secretion processes. Some terms (e.g., odontogenesis) appear as outliers but do not define the dominant theme.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010940","count":3},{"id":"GO:0010917","count":3},{"id":"GO:0035794","count":3},{"id":"GO:0007160","count":2},{"id":"GO:0055064","count":2}]},{"hash":"1189093825232937710","title":"Membrane Transporters and Vesicle Loading","description":"This cluster is dominated by GO terms for transmembrane transport of various substrates (ions like phosphate, potassium, sodium, nitrite; sugars like sialic acid, arabinose, fucose; xenobiotics) and a specific role in neurotransmitter loading into synaptic vesicles. The convergence on diverse membrane-transport activities, including vesicular transport, suggests a cohesive group of transporter proteins and vesicle-associated transport components. Unknown metabolism terms (e.g., fucose metabolic process) appear less central than transport terms, but overall the pattern supports the label of membrane transporters with vesicle involvement.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":17},{"id":"GO:0015739","count":17},{"id":"GO:0071805","count":17},{"id":"GO:0006004","count":17},{"id":"GO:0015707","count":17}]},{"hash":"867497627828881837","title":"P450-Driven lipid and xenobiotic metabolism","description":"This cluster is strongly enriched for GO terms tied to cytochrome P450\u2013mediated metabolism, including epoxygenase pathways, oxylipin biosynthesis, androgen metabolism, retinoic acid biosynthesis, and various xenobiotic processing processes (insecticides, alkaloids, vancomycin). These patterns point to a cohesive theme of lipid- and steroid-related metabolism and detoxification, with possible links to hormone signaling and cell cycle regulation. ","confidence":"High","size":17,"edges":106,"triangles":354,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":17},{"id":"GO:0019373","count":17},{"id":"GO:0031408","count":17},{"id":"GO:1900087","count":17},{"id":"GO:0017143","count":17}]},{"hash":"2200766669010973074","title":"Lipid-derived metabolite biosynthesis and xenobiotic metabolism","description":"The top GO terms cluster around lipid- and steroid-derived metabolite production (androgen metabolism, oxylipin biosynthesis, retinoic acid biosynthesis) along with detoxification/processing of xenobiotics (insecticide, alkaloid, and antibiotic-associated processes), suggesting a cohesive set of enzymes involved in lipid metabolism and xenobiotic handling.","confidence":"High","size":17,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":17},{"id":"GO:0019373","count":17},{"id":"GO:0031408","count":17},{"id":"GO:1900087","count":17},{"id":"GO:0017143","count":17}]},{"hash":"1732329351999981615","title":"Multisubstrate Transmembrane Transport","description":"The top GO terms all describe transmembrane transport of diverse substrates (galactose, vitamins, ions, nitrite/nitrate, sialic acid, xenobiotics, etc.), indicating the cluster centers on membrane transporters with broad substrate specificity.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":10},{"id":"GO:0035461","count":10},{"id":"GO:1900754","count":10},{"id":"GO:0035435","count":10},{"id":"GO:0071805","count":10}]},{"hash":"2019995129205873591","title":"Vitamin transport and calcium signaling","description":"The cluster shows strong signals for retinol transport and vitamin transport, indicating a vitamin transport function. It also includes several calcium-related processes (calcium ion transport to the ER, calcium-dependent exocytosis, and membrane repolarization), suggesting calcium signaling and ion homeostasis. While there are other related terms (epoxygenase P450 pathway, ATP biosynthesis, and cardiac hypertrophy regulation), the core themes appear to be vitamin transport coupled with calcium signaling. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034633","count":3},{"id":"GO:0051180","count":3},{"id":"GO:0010248","count":1},{"id":"GO:0019373","count":1},{"id":"GO:0086009","count":1}]},{"hash":"1412595938177366109","title":"Cardiovascular GPCR signaling and vascular regulation","description":"The top GO terms cluster around GPCR-mediated signaling that activates adenylate cyclase, regulation of blood pressure, vasoconstriction, and cardiac muscle contraction, pointing to a set of proteins involved in autonomic control of heart function and vascular tone. While a few terms (e.g., histamine-induced gastric acid secretion, electron transport chain) suggest broader metabolic or tissue-specific roles, the dominant theme is cardiovascular signaling and regulation of vascular function.","confidence":"High","size":17,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0001697","count":14},{"id":"GO:0035106","count":14}]},{"hash":"900208513005550442","title":"Glycinergic signaling and neural development","description":"This cluster shows a strong enrichment for terms related to neural development (perineurial glial growth, thalamus development) and inhibitory neurotransmission (regulation of glycinergic transmission, glycine secretion, dopamine uptake in synaptic transmission), along with amino acid transport (proline, leucine, taurine). Together, these suggest a cohesive theme around the development of neural tissue and the functioning of inhibitory glycinergic synapses, with supporting roles from amino acid transporters. ","confidence":"High","size":17,"edges":43,"triangles":72,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0042066","count":14},{"id":"GO:1905847","count":14},{"id":"GO:0021794","count":14},{"id":"GO:0015824","count":14},{"id":"GO:0060092","count":14}]},{"hash":"883724395097740480","title":"Diverse Transmembrane Transporters","description":"The top GO terms point to transport across membranes for a wide range of substrates (sugars like galactose and fucose, vitamins, ions, nitrate/nitrite, sialic acid, phosphate, xenobiotics, etc.). This pattern suggests a cluster of membrane transport proteins with broad substrate specificity, rather than a single, focused pathway.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":8},{"id":"GO:0035461","count":8},{"id":"GO:1900754","count":8},{"id":"GO:0035435","count":8},{"id":"GO:0071805","count":8}]},{"hash":"2236859821604516657","title":"Cardiac GPCR signaling and blood pressure regulation","description":"The top GO terms cluster around GPCR signaling activating adenylate cyclase, regulation of blood pressure and vasoconstriction, and cardiac muscle contraction, with energy metabolism linked to the electron transport chain. Together these suggest a cardiovascular signaling and metabolic theme, despite a few outlier terms. ","confidence":"High","size":17,"edges":103,"triangles":307,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":17},{"id":"GO:0045777","count":17},{"id":"GO:0022900","count":17},{"id":"GO:0001697","count":16},{"id":"GO:0035106","count":16}]},{"hash":"913610434065675888","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms centered on ubiquitination and protein turnover\u2014positive regulation of ubiquitin-dependent protein catabolic process, ubiquitin-dependent ERAD pathway, protein polyubiquitination, and K11-linked ubiquitination\u2014indicating a core theme of ubiquitin-proteasome\u2013mediated degradation. Other terms note tissue- or process-specific contexts (lens fiber differentiation, skeletal development, transcription, and defense responses), which can reflect downstream or context-dependent roles of ubiquitination. Overall, the main signal points to proteostasis and ubiquitin-regulated protein turnover.","confidence":"High","size":16,"edges":25,"triangles":12,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000060","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0070306","count":6},{"id":"GO:0070979","count":6},{"id":"GO:0031915","count":5}]},{"hash":"1245335959988990390","title":"Innate Immune\u2013Virus Interaction","description":"The cluster\u2019s GO terms are dominated by innate immune response and regulation related to viruses (e.g., positive regulation of viral genome replication and negative regulation of host defense), indicating a theme of antiviral innate processes and host\u2013virus interplay, with some unrelated terms likely reflecting annotation noise.","confidence":"Medium","size":16,"edges":13,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0045070","count":2},{"id":"GO:0050689","count":2},{"id":"GO:0043525","count":1},{"id":"GO:0016570","count":1}]},{"hash":"813512456300187694","title":"Aminoacyl-tRNA Synthetases and Mitochondrial Translation","description":"This cluster is dominated by translation-related functions, especially aminoacyl-tRNA synthetases that charge a variety of tRNAs, including mitochondrial versions (valyl, tyrosyl, tryptophanyl, methionyl, lysyl). It also includes tRNA processing and regulation of translational fidelity, indicating a core translation machinery module; the vascular development terms (vasculogenesis/angiogenesis) may reflect noncanonical roles of ARS in vascular biology. Overall, the shared theme is protein synthesis machinery with a focus on mitochondrial translation and tRNA charging.","confidence":"High","size":16,"edges":50,"triangles":100,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0001570","count":5},{"id":"GO:0006438","count":5},{"id":"GO:0070184","count":5},{"id":"GO:0070183","count":5}]},{"hash":"2094375885166133742","title":"Neural and muscle development","description":"The top GO terms cluster around nervous system development, neurogenesis, and axonogenesis, together with myogenesis and striated muscle assembly, plus signaling pathways like ROBO/slit and related developmental processes. This pattern suggests the proteins act in coordinating neural and muscular development across related tissues.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":10},{"id":"GO:0055072","count":8},{"id":"GO:0038161","count":8},{"id":"GO:0045663","count":8},{"id":"GO:0071688","count":8}]},{"hash":"2265959312310896684","title":"Genome maintenance and cell cycle regulation","description":"The cluster centers on genome maintenance and cell cycle regulation, with terms for base-excision repair, DNA recombination, and positive regulation of G1/S transition. Other terms reflect broader signaling and stress responses (mRNA stability regulation, xenobiotic and hormone signaling), but the core connectivity points to genome integrity and cell-cycle control as the defining theme.","confidence":"Medium","size":16,"edges":83,"triangles":199,"max_degree":15,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1900087","count":6},{"id":"GO:0043488","count":6},{"id":"GO:0071375","count":6},{"id":"GO:0006284","count":6},{"id":"GO:0046856","count":6}]},{"hash":"236640987641709495","title":"Spermatid flagellar dynein arm assembly","description":"The top GO terms point to inner dynein arm assembly and spermatid development, which together indicate a role in sperm flagellum formation and function. While there are a few nuclear condensation and stress response terms present, they are less central to the core function suggested by the strongest annotations. Overall, the cluster most likely reflects proteins involved in spermatid development and axonemal dynein arm assembly.","confidence":"High","size":16,"edges":115,"triangles":497,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0036159","count":2},{"id":"GO:0007286","count":2},{"id":"GO:2000574","count":2},{"id":"GO:0061780","count":1},{"id":"GO:0010032","count":1}]},{"hash":"1142003755407714532","title":"Innate-immune driven apoptosis and pyroptosis","description":"The top GO terms center on apoptotic processes, innate immune response, protein ubiquitination, and pyroptotic inflammatory response, pointing to a cluster involved in innate immune signaling linked to programmed cell death and inflammatory pathways, with ubiquitination likely regulating these processes. While nervous system development terms appear, they are less represented, so the core theme is immune-related apoptosis and pyroptosis rather than development. ","confidence":"High","size":16,"edges":115,"triangles":500,"max_degree":15,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0006915","count":15},{"id":"GO:0045087","count":14},{"id":"GO:0016567","count":14},{"id":"GO:1990001","count":14},{"id":"GO:0090307","count":14}]},{"hash":"388131904328181109","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":51,"triangles":83,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0048702","count":5},{"id":"GO:0006068","count":5},{"id":"GO:0009812","count":5},{"id":"GO:0030205","count":5},{"id":"GO:0050427","count":5}]},{"hash":"1670426506399943601","title":"Retroviral Entry and Proviral Latency","description":"The top GO terms cluster around steps of retroviral infection and genome handling: entry into host cell, penetration into the nucleus, reverse transcription (RNA-templated DNA biosynthesis), DNA integration, recombination, and establishment of proviral latency. Additional terms for DNA transposition and host apoptosis modulation align with mobile genetic elements and virus\u2013host interactions, suggesting proteins involved in retroviral replication and latency.","confidence":"High","size":16,"edges":51,"triangles":71,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0075713","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0006313","count":3},{"id":"GO:0006278","count":2}]},{"hash":"43150661363268373","title":"Mitosis and Cell Division","description":"Dominant GO signals center on mitotic cell cycle, APC/C-dependent catabolic processes, and microtubule dynamics, all pointing to mitosis and cell proliferation; other terms like splicing and GPCR regulation appear as ancillary processes but do not alter the core theme.","confidence":"High","size":16,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0008277","count":2},{"id":"GO:0051301","count":2}]},{"hash":"2177780758194732692","title":"Developmental gene expression and chromatin regulation","description":"This cluster is dominated by terms tied to developmental processes (gastrulation, lens fiber cell differentiation) and transcriptional control via chromatin modifications (histone deacetylation, H3K4 methylation) and DNA-templated transcription, along with cell proliferation and mitotic orientation. While a few terms refer to general cellular transport, the strongest signals point to coordinated regulation of gene expression during development and chromatin state changes that enable differentiation and proliferation. Confidence: Medium","confidence":"","size":16,"edges":77,"triangles":159,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007369","count":4},{"id":"GO:0016575","count":4},{"id":"GO:0000132","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0007568","count":4}]},{"hash":"1288196621421177442","title":"NF-kB\u2013driven inflammatory signaling","description":"The top GO terms center on NF-kappaB activation and innate immune signaling (positive regulation of NF-kB activity and canonical NF-kB signaling), with downstream inflammatory responses such as IL-17 production, JNK cascade, chemokine regulation, and TLR/MyD88 signaling, indicating a cohesive inflammatory signaling module.","confidence":"High","size":16,"edges":72,"triangles":158,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051092","count":8},{"id":"GO:0043123","count":7},{"id":"GO:0032740","count":7},{"id":"GO:0046330","count":7},{"id":"GO:0006954","count":7}]},{"hash":"1501653515900367012","title":"Cardiac pacemaker signaling and mechanotransduction","description":"The strongest terms point to SA node electrical activity and communication with adjacent atrial cardiomyocytes, plus cellular responses to mechanical stimuli and muscle stretch, indicating a cardiac mechanotransduction/pacemaker signaling theme. Ubiquitination and membrane protein localization terms suggest regulation of signaling components. Immune-related terms are present but appear secondary, implying some cross-talk rather than primary immune function.","confidence":"Medium","size":16,"edges":53,"triangles":63,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045083","count":6},{"id":"GO:0002268","count":6},{"id":"GO:0098907","count":6},{"id":"GO:0016567","count":6},{"id":"GO:0097284","count":6}]},{"hash":"355033100414368866","title":"Nuclear DNA Replication and Transcription Control","description":"The cluster is dominated by nuclear processes: positive regulation of DNA-templated DNA replication initiation, centriole replication, and DNA-templated transcription, suggesting a shared theme around DNA replication and transcription regulation. While a few terms touch on signaling, development, and metabolism, the strongest signals point to nucleus-centered regulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032298","count":3},{"id":"GO:0007099","count":3},{"id":"GO:0048709","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0090090","count":2}]},{"hash":"1497995606518213310","title":"Innate Immune Signaling and Inflammation","description":"These proteins show enrichment for innate immune responses and inflammatory signaling, including TLR10 and NOD2 pathways, and negative regulation of NF-kappaB. They also touch on apoptosis and cytokine production like IL-18, suggesting a coordinated role in immune sensing and regulation of inflammation. Despite no observed edges, the GO profile consistently centers on innate immunity, inflammation, and cell death, supporting a label of innate immune signaling and inflammation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":2},{"id":"GO:0070584","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0034166","count":1},{"id":"GO:0045087","count":1}]},{"hash":"604028656320157378","title":"Cardiac electrical conduction and rhythm regulation","description":"Most top GO terms cluster around heart electrophysiology, including regulation of SA node cell action potential, membrane depolarization during cardiac action potential, and SA node-to-atrial cardiac muscle cell communication, plus positive regulation of cell communication by electrical coupling. While a few terms touch on unrelated processes (cell cycle, immune differentiation), the dominant theme is cardiac electrical activity and rhythm control, suggesting the cluster represents cardiac conduction/ rhythm regulation.","confidence":"Medium","size":16,"edges":96,"triangles":317,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0045083","count":3},{"id":"GO:0010650","count":3},{"id":"GO:1900827","count":3},{"id":"GO:0002268","count":3}]},{"hash":"1320770974164156221","title":"Innate Immune Signaling and Antibacterial Peptide Production","description":"The top GO terms point to innate immune pathways (NOD2 signaling, IL-18 production) and antimicrobial peptide biosynthesis, suggesting the cluster is enriched for immune response and antimicrobial effector functions. Additional terms related to vesicular transport and cellular stress may reflect supportive cellular processes during immune activation, while unrelated terms like bone development or axonogenesis are likely incidental. Overall, the core theme centers on innate immunity and antimicrobial output.","confidence":"Medium","size":16,"edges":108,"triangles":413,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0019800","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0070431","count":1},{"id":"GO:0032741","count":1},{"id":"GO:0006963","count":1}]},{"hash":"1437982922735493076","title":"NF-kappaB-driven innate inflammatory signaling","description":"The dominant GO terms point to inflammatory response, lipopolysaccharide signaling, and canonical NF-kappaB pathway activation (including its positive regulation), indicating a core NF-kappaB\u2013mediated innate immune signaling theme. Supporting terms about small GTPase signaling and endosome-to-Golgi transport suggest connected signal transduction and vesicular trafficking involved in immune signaling. Some terms like axonogenesis and mechanical stimulus response may reflect broader cellular remodeling aspects that accompany signaling. Overall, the cluster is best described as NF-kappaB\u2013driven innate inflammatory signaling.","confidence":"High","size":16,"edges":14,"triangles":2,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0031663","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0007249","count":3}]},{"hash":"1961888191125076300","title":"TLR4/TLR2 Innate Signaling and Cytokine Production","description":"This cluster is enriched for Toll-like receptor signaling terms (TLR2/TLR4, MyD88-dependent, TIRAP-dependent) and downstream inflammatory responses, including IL-6, IL-12, and IL-18 production, as well as chemokine production and antifungal peptide activity. A single spliceosomal assembly term is present but likely represents a minor or off-target annotation; the dominant theme ties to innate immune sensing and cytokine-driven inflammation.","confidence":"High","size":16,"edges":56,"triangles":82,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":2},{"id":"GO:0034137","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0034145","count":2},{"id":"GO:0045410","count":2}]},{"hash":"1818956493443764020","title":"Translational initiation control and mRNA processing","description":"The top GO terms cluster around regulation of translational initiation (eIF4F assembly, preinitiation complex formation, initiation regulation, and reinitiation) and various mRNA processing/modification steps (mRNA modification, polyadenylation regulation, poly(A) tail shortening), plus RNA silencing pathways (ncRNA/miRNA-mediated silencing). This indicates a cohesive functional theme centered on controlling translation and broader mRNA regulation.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006446","count":14},{"id":"GO:0016556","count":14},{"id":"GO:0097010","count":14},{"id":"GO:0006376","count":14},{"id":"GO:0002188","count":14}]},{"hash":"1842459701533548095","title":"Genome maintenance and stress response","description":"This cluster is dominated by GO terms related to genome integrity (nucleotide-excision repair), organelle quality control (mitophagy, ERAD-related maintenance), and protein turnover (autoubiquitination), along with regulation of transcription and responses to toxic substances and stress. Together these point to a cohesive theme of maintaining genomic and cellular homeostasis under stress, rather than a single linear pathway, justifying a label centered on genome maintenance and stress response.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"autophagy","top_go_terms":[{"id":"GO:0010216","count":14},{"id":"GO:0000423","count":14},{"id":"GO:0006289","count":14},{"id":"GO:0030474","count":14},{"id":"GO:0033132","count":14}]},{"hash":"550213438428419554","title":"Ubiquitin-Proteasome\u2013Mediated Cell Cycle Control","description":"Top GO terms show strong enrichment for ubiquitin-dependent protein catabolic processes and proteasomal degradation (SCF-dependent, polyubiquitination), indicating a core theme of targeted protein turnover. Connections to G1/S regulation and DNA damage checkpoint signaling support a cell-cycle\u2013related function. Additional links to metal stress responses and circadian regulation align with ubiquitin-regulated controls. Overall, the cluster seems defined by proteasome-mediated turnover integrated with cell cycle and stress-response regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0000083","count":5},{"id":"GO:0031146","count":5},{"id":"GO:0071276","count":4},{"id":"GO:0030174","count":4}]},{"hash":"1527408272577948588","title":"Retinoid metabolism and neural patterning","description":"This cluster is enriched for retinal metabolism and retinoic acid biosynthesis terms, plus neural development and anterior/posterior pattern specification, suggesting a shared role in retinoid signaling influencing neural patterning. While other metabolic terms are present (ethanol/acetate metabolism, carbon utilization), the prominence of retinoid-related and neural patterning terms provides a coherent functional theme.","confidence":"Medium","size":16,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0036293","count":14},{"id":"GO:0042574","count":14},{"id":"GO:0015976","count":14},{"id":"GO:0006068","count":14},{"id":"GO:0042904","count":14}]},{"hash":"557105739452796237","title":"Ubiquitin-Proteasome Regulation in Development","description":"The cluster centers on ubiquitin-mediated processes (SCF-dependent ubiquitination, proteasomal degradation, ERAD) and protein interactions, with accompanying signals and a set of developmental terms (brain, retina, male gonad). This points to a group of proteins involved in proteostasis that interfaces with developmental signaling pathways, hence the name.","confidence":"High","size":16,"edges":20,"triangles":6,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0007200","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0008584","count":3},{"id":"GO:0000209","count":3}]},{"hash":"1717471346034188557","title":"Endomembrane and endocytic vesicle trafficking","description":"This cluster is dominated by GO terms describing vesicle movement within the endomembrane system (ER\u2013Golgi transport, retrograde Golgi\u2013ER, endocytosis, endosome-to-Golgi), vesicle targeting to vacuoles, and synaptic vesicle budding, indicating a cohesive theme of intracellular vesicle trafficking across organelles and membranes.","confidence":"High","size":16,"edges":109,"triangles":428,"max_degree":15,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":7},{"id":"GO:0006890","count":7},{"id":"GO:0006897","count":6},{"id":"GO:0006623","count":6},{"id":"GO:0006886","count":5}]},{"hash":"1139028572577003418","title":"RNA processing and translation initiation regulation","description":"Likely a module of RNA maturation and translation control: splicing machinery (spliceosome, splice-site recognition, mRNA splicing), mRNA modification, preinitiation complex and eIF4F assembly, plus ncRNA/miRNA-mediated silencing of translation. The GO signature ties together RNA processing and regulation of translation initiation and reinitiation.","confidence":"High","size":16,"edges":79,"triangles":210,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":12},{"id":"GO:0006446","count":11},{"id":"GO:0016556","count":11},{"id":"GO:0097010","count":11},{"id":"GO:0006376","count":11}]},{"hash":"533177746466706985","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":116,"triangles":507,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":3},{"id":"GO:0090502","count":2},{"id":"GO:0009451","count":2},{"id":"GO:0097049","count":2},{"id":"GO:0000455","count":1}]},{"hash":"1280174977157108434","title":"Myeloid Immune Differentiation with ER Stress Transcription","description":"This cluster is enriched for terms indicating differentiation of myeloid lineage immune cells (macrophages and dendritic cells) and transcriptional regulation, including DNA-templated transcription and transcriptional responses to ER stress. ER stress\u2013related terms (unfolded protein response, tunicamycin response) suggest a link between differentiation and stress-responsive transcription, with additional metabolic signals (IGF response, triglyceride homeostasis) present. Overall, the dominant theme is myeloid immune differentiation with associated stress-responsive transcription.","confidence":"Medium","size":16,"edges":30,"triangles":37,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030225","count":4},{"id":"GO:0043011","count":4},{"id":"GO:0006351","count":4},{"id":"GO:2000020","count":3},{"id":"GO:1900103","count":3}]},{"hash":"125450715699686638","title":"Unknown","description":"The GO terms span diverse processes (membrane trafficking regulation, cardiac signaling, telomere maintenance, transcription regulation, hepatocyte apoptosis, heat response, protein ADP-ribosylation, membrane localization, and TOR signaling) with no obvious shared function or pathway connecting all 16 proteins, and the cluster has no edges or interactions. Therefore, there isn\u2019t a coherent label to assign beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035544","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0032212","count":2},{"id":"GO:0006357","count":2},{"id":"GO:0097284","count":2}]},{"hash":"2073460243372556101","title":"Telomere Regulation and Differentiation Signals","description":"This cluster is dominated by GO terms related to telomere maintenance and capping (positive regulation via telomerase and telomere capping), with supporting terms about transcriptional regulation, mRNA processing, and signals tied to differentiation and cellular movement (fat cell differentiation, cell migration, response to muscle stretch). The strongest theme appears to be telomere biology coupled with transcriptional and differentiation cues, suggesting proteins that participate in chromatin-telomere regulation alongside differentiation signaling.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0032212","count":8},{"id":"GO:2001275","count":7},{"id":"GO:1904355","count":7},{"id":"GO:0016477","count":7},{"id":"GO:0045736","count":7}]},{"hash":"1098783613920869810","title":"SA node signaling and cardiac electrical conduction","description":"The GO terms center on heart rhythm and electrical activity, including SA node\u2013to\u2013atrial cardiac muscle communication, regulation of SA node action potential, and membrane depolarization during cardiac action potentials, with supporting signals from cardiac development pathways (Notch signaling in heart field, endothelial differentiation). This points to a cohesive theme of cardiac electrical conduction and related heart development.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016049","count":6},{"id":"GO:0072660","count":5},{"id":"GO:0010650","count":5},{"id":"GO:0086070","count":5},{"id":"GO:1900827","count":5}]},{"hash":"629115330579025410","title":"Multitissue cell signaling and differentiation","description":"The top GO terms show intracellular signal transduction across several tissue contexts, including fat cell differentiation, insulin secretion, cardiac muscle contraction, and eye development, along with signaling pathways like EGFR, Rho, and Wnt. This suggests the proteins participate in diverse signaling networks that govern differentiation and tissue-specific functions rather than a single unified pathway.","confidence":"Medium","size":16,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":2},{"id":"GO:0045444","count":2},{"id":"GO:0060048","count":2},{"id":"GO:0007173","count":2},{"id":"GO:0060087","count":1}]},{"hash":"671434462652019434","title":"Alcohol and sugar catabolism with metal stress","description":"This cluster is dominated by GO terms for catabolic processes of alcohols and sugars (ethanol, xylitol, Ehrlich pathway to alcohols, D-xylulose 5-phosphate biosynthesis) and related carbohydrate metabolism, with additional hints of stress responses (nitrosative stress, copper ion response). The convergence on alcohol/sugar metabolism suggests a cohesive functional theme, with metal-related and oxidative stress responses as supportive context.","confidence":"High","size":16,"edges":106,"triangles":401,"max_degree":15,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0051409","count":16},{"id":"GO:0006068","count":16},{"id":"GO:0051160","count":16},{"id":"GO:1901159","count":16},{"id":"GO:0006116","count":16}]},{"hash":"770953578968878835","title":"Thyroid Hormone Biosynthesis & Stress Response","description":"The top GO terms cluster around thyroid hormone generation, catabolic processing, and biosynthesis, which points to an endocrine theme centered on thyroid hormone production. The additional terms\u2014hypoxia response, lipopolysaccharide response, wound healing, and apoptotic signaling\u2014suggest linked stress and immune/tissue-repair processes that commonly accompany hormonal regulation. A retina development term appears ancillary and not central to the main theme. Overall, the dominant signal is thyroid hormone biosynthesis/metabolism with secondary stress-response associations.","confidence":"High","size":16,"edges":104,"triangles":391,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006590","count":4},{"id":"GO:0061074","count":4},{"id":"GO:0042404","count":4},{"id":"GO:0042446","count":4},{"id":"GO:0051092","count":2}]},{"hash":"1142570090193206719","title":"Developmental Differentiation and Apoptosis Regulation","description":"This cluster\u2019s top GO terms center on developmental processes across tissues (myotube differentiation, antennal joint development, genital disc sexually dimorphic development, cerebellar granule cell precursor proliferation) and on modulation of apoptotic signaling (intrinsic and extrinsic). A few terms touch on broader regulation such as lymphocyte homeostasis and protein oligomerization, suggesting proteins involved in diverse developmental and cell fate control processes rather than a single pathway. Hence, a label capturing development and apoptosis regulation is appropriate, though the evidence is moderate given term diversity.","confidence":"Medium","size":16,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0014902","count":1},{"id":"GO:1902231","count":1},{"id":"GO:1902043","count":1},{"id":"GO:0010626","count":1},{"id":"GO:0021936","count":1}]},{"hash":"2143718960611732749","title":"Ubiquitination-Linked Innate Immunity and Growth","description":"The cluster centers on protein ubiquitination as a key regulatory process, with strong representation of innate immune signaling (NOD2 pathway) and cytokine regulation (negative IL-12 production), plus components of post-transcriptional control (mRNA stability) and growth-related pathways (cell cycle and cell growth). Additional terms related to lipid catabolism and chemical-stress response (capsazepine) suggest membrane-associated signaling adjustments, reinforcing a theme of coordinated signaling regulation that ties immune responses to cellular growth control.","confidence":"Medium","size":16,"edges":7,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":11},{"id":"GO:0046475","count":10},{"id":"GO:1901594","count":10},{"id":"GO:0070431","count":10},{"id":"GO:0043488","count":10}]},{"hash":"2079869203481622150","title":"Innate Immunity, Pyroptosis, and Ubiquitination","description":"The top GO terms are dominated by innate immune response, pyroptotic inflammatory response, and apoptotic process, with strong enrichment for protein ubiquitination. This pattern suggests a cluster of proteins involved in immune signaling and programmed cell death, with ubiquitin-mediated regulation, and some related cell cycle/stress response terms. Thus the label \u201cInnate Immunity, Pyroptosis, and Ubiquitination\u201d captures the main theme.","confidence":"High","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":15},{"id":"GO:0016567","count":15},{"id":"GO:1990001","count":15},{"id":"GO:0070269","count":15},{"id":"GO:0090307","count":15}]},{"hash":"539200126365196592","title":"Proteostasis and ubiquitin-proteasome quality control","description":"Based on the top GO terms, the strongest signal is around protein turnover and cytoplasmic quality control by the ubiquitin-proteasome system (e.g., cytoplasm protein quality control by UPS and N-end rule\u2013mediated proteolysis). Other terms (peroxisome import, neuron development/apoptosis, DNA repair, heterochromatin) are more diverse and less cohesive, suggesting a proteostasis-centered cluster with some incidental functions.","confidence":"Medium","size":16,"edges":63,"triangles":119,"max_degree":13,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0070459","count":15},{"id":"GO:0051092","count":14},{"id":"GO:0016562","count":14},{"id":"GO:0010976","count":14},{"id":"GO:0071596","count":14}]},{"hash":"2170754734681589648","title":"Stress-Responsive Metabolism and RNA Methylation","description":"The cluster shows stress-related GO terms (hyperosmotic response, response to immobilization stress, response to tellurium ion) alongside various biosynthetic processes (biotin, phosphatidylcholine, polyamine) and RNA methylation activities (guanine-N7 methylation, rRNA methylation) plus peptidyl-arginine hydroxylation. This pattern suggests proteins involved in metabolic adjustment under stress and RNA/protein modification pathways, rather than a single, narrow function. ","confidence":"Medium","size":16,"edges":86,"triangles":273,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0030961","count":9},{"id":"GO:0046690","count":9},{"id":"GO:0006972","count":9},{"id":"GO:0006656","count":9},{"id":"GO:0006596","count":9}]},{"hash":"1443279683708855189","title":"Neuronal axon guidance & sensory perception","description":"This cluster is dominated by GO terms related to neuron axon guidance (including dopaminergic and serotonergic neurons) and planar polarity pathways, alongside sensory modalities (mechanosensory behavior, pain perception, and salty taste) and synaptic activity regulation, pointing to a cohesive theme of neural development and sensory signaling.","confidence":"High","size":16,"edges":83,"triangles":287,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1904938","count":8},{"id":"GO:0036514","count":8},{"id":"GO:0048105","count":8},{"id":"GO:0036515","count":8},{"id":"GO:1905792","count":7}]},{"hash":"582613417924871811","title":"Drosophila sensory organ development and transcription regulation","description":"The cluster is enriched for DNA-templated transcription and its regulation, and includes terms for antennal and compound eye photoreceptor development, plus apoptosis. This suggests proteins involved in transcriptional control during insect sensory organ formation, with apoptotic processes as part of development. A few terms imply immune signaling, but the dominant theme is developmental transcriptional regulation in sensory organs.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0008283","count":2},{"id":"GO:0034260","count":2},{"id":"GO:0045316","count":2},{"id":"GO:0007469","count":2}]},{"hash":"1826615247279575559","title":"Steroid and retinoid hormone biosynthesis","description":"The cluster is dominated by biosynthetic processes, notably steroid hormone biosynthesis (androgen, estrogen, glucocorticoid) and retinoid biosynthesis (retinoic acid, retinol), with supporting lipid-related terms (melanin, sphingolipid). This points to a core theme of steroid and retinoid biosynthesis among the proteins.","confidence":"High","size":16,"edges":106,"triangles":455,"max_degree":15,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008209","count":15},{"id":"GO:0006729","count":15},{"id":"GO:0002138","count":15},{"id":"GO:0031427","count":15},{"id":"GO:0006704","count":15}]},{"hash":"672330831103037111","title":"Rho GTPase-driven actin remodeling and signaling","description":"The cluster centers on cytoskeleton remodeling and signaling regulated by Rho family GTPases, evidenced by terms like actin filament branching, positive regulation of GTPase activity, and regulation of Rho signaling. Downstream effects include JUN phosphorylation and broader developmental and immune signaling contexts (neuronal projection development, mammary gland branching, T cell proliferation, and TLR2 pathway modulation), suggesting a cohesive theme of cytoskeleton-dependent signal transduction across diverse biological processes.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0060444","count":15},{"id":"GO:0043547","count":15},{"id":"GO:0010954","count":14},{"id":"GO:0090135","count":14},{"id":"GO:0035023","count":14}]},{"hash":"618948242481068494","title":"Embryonic organogenesis and tissue differentiation","description":"The cluster spans diverse developmental processes across multiple tissues\u2014endocrine pancreas development and beta-cell formation, skeletal muscle differentiation, cartilage morphogenesis, placental/trophoblast development, EMT in cardiac cushion formation, and left-right patterning\u2014pointing to a common theme of embryonic differentiation and organogenesis rather than a single pathway. The transcriptional regulation terms further support a role in orchestrating fate decisions during development.","confidence":"Medium","size":16,"edges":115,"triangles":496,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0031018","count":5},{"id":"GO:0035914","count":5},{"id":"GO:0060707","count":4},{"id":"GO:0003198","count":4}]},{"hash":"550721837761250864","title":"Plant Development and Core Metabolism","description":"The presence of plant-specific development terms (inflorescence and flower development) suggests a plant-centered developmental theme, while other terms (translation, protein maturation, fatty-acyl-CoA biosynthesis, iron-sulfur cluster assembly) point to conserved housekeeping processes. Together, the cluster appears to combine plant developmental factors with core metabolic machinery, justifying a plant-development\u2013oriented label that also acknowledges basic cellular functions.","confidence":"Medium","size":16,"edges":112,"triangles":461,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035338","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0016226","count":1},{"id":"GO:0006880","count":1},{"id":"GO:0009399","count":1}]},{"hash":"384592113248656054","title":"Nuclear transcription and DNA repair","description":"This cluster is dominated by nuclear processes: DNA-templated transcription, snRNA transcription, nucleosome assembly, and DNA repair/double-strand break repair, along with cell-cycle regulation. The core theme appears to be transcription-associated chromatin dynamics and genome maintenance, with a few peripheral terms (viral process, heart development, Golgi retention) likely noise. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0016032","count":3},{"id":"GO:0006334","count":3},{"id":"GO:0043433","count":3},{"id":"GO:0007507","count":3}]},{"hash":"152237940407423550","title":"Neural development and brain region specification","description":"These terms cluster around neural development and brain region specification\u2014spinal cord neuron/fate specification, cerebral cortex interneuron differentiation, cerebellum development, and subpallium fate commitment\u2014along with general transcriptional regulation during development. There are a few lung morphogenesis terms, but the dominant theme is neurodevelopment.","confidence":"Medium","size":16,"edges":76,"triangles":153,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0031018","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0006366","count":5},{"id":"GO:0060435","count":4},{"id":"GO:0021530","count":4}]},{"hash":"763362681828567265","title":"NF-kappaB\u2013driven antiviral and cytoskeletal regulation","description":"The cluster\u2019s top GO terms are dominated by NF-kappaB activation and signaling, with additional entries related to viral entry and transcription, as well as cytoskeletal/ubiquitination processes (actin ubiquitination, microtubule regulation) and proteostasis (aggresome assembly). This suggests proteins that tie inflammatory signaling to antiviral responses and cytoskeletal/ubiquitin-proteasome dynamics during viral interactions. A couple of terms (e.g., brassinosteroid signaling) appear as noise, but the core theme is NF-kappaB\u2013related antiviral and cytoskeletal regulation.","confidence":"Medium","size":16,"edges":9,"triangles":1,"max_degree":3,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0043123","count":6},{"id":"GO:0046598","count":5},{"id":"GO:0045869","count":5},{"id":"GO:1900458","count":5}]},{"hash":"2067116551476553534","title":"Muscle contraction and cardiac development with glycosylation","description":"The top GO terms center on diaphragm and heart contraction, neuromuscular control, and heart morphogenesis, pointing to a muscle/cardiac function theme. Additional terms for maltose metabolism and N-glycan processing suggest linked metabolic and protein-processing roles that commonly accompany muscle and cardiac biology, while the fungal \u03b2-glucan biosynthesis term appears as a broader, cross-species annotation signal. Overall, the strongest signal is muscle and cardiac development with supporting metabolic/glycosylation context.","confidence":"Medium","size":16,"edges":92,"triangles":287,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0070880","count":12},{"id":"GO:0000023","count":12},{"id":"GO:0043181","count":11},{"id":"GO:0050884","count":11},{"id":"GO:0006491","count":11}]},{"hash":"1706150407977101754","title":"Sulfur amino acid metabolism and central carbon metabolism","description":"The top GO terms indicate broad metabolic activities: TCA cycle, glycolytic process, thiamine biosynthesis, and amino acid biosynthesis (glutamine, histidine, lysine), with notable emphasis on transsulfuration and hydrogen sulfide production. This points to a cohesive cluster of enzymes involved in central carbon metabolism and sulfur-containing amino acid pathways, despite a few obsolete GO terms. ","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0009228","count":4},{"id":"GO:0006099","count":4},{"id":"GO:0070814","count":4},{"id":"GO:0019346","count":4}]},{"hash":"922183933140445366","title":"TGF-beta/BMP Signaling Regulation","description":"Most top GO terms point to negative regulation of TGF-beta receptor signaling and BMP signaling, with several entries involving SMAD signaling and cellular responses to TGF-beta, suggesting proteins that modulate these pathways. A few terms reference plant-specific processes or photosystem adjustments, likely due to annotation breadth, but the core theme centers on regulation of TGF-beta/BMP signaling and related regulatory/nuclear transport activities. Thus, the cluster is best labeled as TGF-beta/BMP signaling regulation.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":7},{"id":"GO:0010074","count":7},{"id":"GO:0000173","count":7},{"id":"GO:0030514","count":7},{"id":"GO:0080005","count":7}]},{"hash":"384401462719024111","title":"Neuronal signaling and neurotransmitter metabolism","description":"This cluster is enriched for neural communication terms, especially glycinergic synaptic transmission and dopamine catabolic process, indicating roles in inhibitory synaptic signaling and neurotransmitter turnover. Supporting terms involving ERBB signaling and regulation of kinase activity suggest broader signaling regulation, with peripheral ties to hormone biosynthesis and cell size. Overall, it points to neuronal signaling with metabolic/regulatory components.","confidence":"Medium","size":16,"edges":56,"triangles":76,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0016575","count":2},{"id":"GO:0042420","count":2},{"id":"GO:0060012","count":2},{"id":"GO:0061099","count":1},{"id":"GO:0038127","count":1}]},{"hash":"948874149974366337","title":"Enamel formation and epithelial morphogenesis","description":"This cluster centers on epithelial development and enamel production, highlighted by amelogenesis, epidermal wound healing, endodermal differentiation, and thymus epithelium morphogenesis. The shared peptidyl-proline hydroxylation point also aligns with extracellular matrix/post-translational modifications seen in enamel and epithelial tissues. Some older or broader terms related to metabolism are present, but the core theme points to epithelial differentiation and enamel formation.","confidence":"Medium","size":16,"edges":69,"triangles":120,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0032364","count":3},{"id":"GO:1901874","count":3},{"id":"GO:0018401","count":3},{"id":"GO:0097186","count":2}]},{"hash":"469690329141656867","title":"Neural signaling and mitochondrial regulation","description":"The cluster shows prominent neural-related GO terms like memory and myelination in the peripheral nervous system, along with mitochondrial functions such as regulation of mitochondrial membrane potential and membrane permeability. While there are a few broader terms (vasoconstriction, metal ion response), the strongest common theme links neural signaling with mitochondrial dynamics, suggesting roles in neuronal energy management and signaling processes. Confidence: Medium","confidence":"","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0045907","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0007613","count":2},{"id":"GO:0010042","count":2},{"id":"GO:0010940","count":2}]},{"hash":"934715792107124935","title":"Dendritic Cell Regulation and Fc Receptor Signaling","description":"Top GO terms indicate a module centered on dendritic cell differentiation/activation regulation and Fc receptor signaling, with receptor internalization and endosomal trafficking supporting the trafficking aspect of immune signaling. Some terms about neuronal junctions and synaptic plasticity are less directly connected and may reflect shared pathways rather than core function. Overall, the cluster represents dendritic cell signaling and regulation with endocytic trafficking components.","confidence":"Medium","size":16,"edges":9,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:2001199","count":3},{"id":"GO:0038095","count":3},{"id":"GO:0048172","count":2},{"id":"GO:2000145","count":1},{"id":"GO:0030886","count":1}]},{"hash":"2181862346096669239","title":"Adherens junctions and cytoskeleton remodeling","description":"The cluster is enriched for adherens junction organization and stress fiber assembly, pointing to actin cytoskeleton remodeling and cell-cell adhesion. Additional terms on spindle orientation and multicellular growth suggest roles in coordinated cell division and development, with some transport/secretory pathway terms present but less central. Overall, a cohesive theme around cytoskeletal dynamics and cell junctions governing tissue organization and growth. ","confidence":"Medium","size":16,"edges":76,"triangles":218,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0014041","count":16},{"id":"GO:0045453","count":16},{"id":"GO:0034332","count":15},{"id":"GO:0000055","count":15},{"id":"GO:1903434","count":15}]},{"hash":"935529849063320948","title":"Nervous system development and sensory signaling","description":"The terms cluster around neural development and sensory functions: nervous system development, sensory perception of sound, phototransduction, dendrite formation and self-avoidance, and axon fasciculation\u2014all core to sensory neuron function. Additional GO terms point to signaling and transcription regulation that support neural growth and activity (PI3K/AKT pathway, insulin signaling, transcriptional regulation). While a few terms (heart development, broad signaling) are broader, the predominant theme is nervous system and sensory neuron processes.","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0009585","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0008286","count":2}]},{"hash":"392507281536914474","title":"Cardiovascular development and angiogenesis","description":"This cluster is dominated by terms tied to blood vessel formation and heart formation (angiogenesis, heart development, negative regulation of endothelial cell apoptosis), complemented by ubiquitination and signaling regulation (NF-kappaB, ERK pathways) and cytoskeletal remodeling (actin filament bundle assembly, mechanical stimulus response), suggesting a cohesive theme around vascular and cardiac development with associated signaling and structural regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:2000352","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0007507","count":2},{"id":"GO:2001275","count":2}]},{"hash":"2018933676092548646","title":"Unknown","description":"The listed GO terms span neural development, immune signaling, lipid metabolism, and cell cycle, with no single process dominating; hence there isn\u2019t a clear common function tying these proteins together.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048709","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0008584","count":2},{"id":"GO:0046475","count":2},{"id":"GO:1901594","count":2}]},{"hash":"1120295469204625899","title":"COPII Vesicle Budding and Transport","description":"Based on the top GO terms, the strongest shared function is vesicle trafficking and secretion, including protein transport, vesicle-mediated transport, and COPII-coated vesicle budding. This suggests the cluster centers on components of the secretory pathway. Some terms are more divergent (tRNA splicing, chromatin remodeling, pattern formation, and T cell regulation), but the vesicle transport theme dominates.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0016192","count":1},{"id":"GO:0090114","count":1},{"id":"GO:0048096","count":1}]},{"hash":"1617635495909394698","title":"Unknown","description":"The top terms are highly diverse, spanning immune signaling (TLR1, Gram-positive defense, IL-18 production, antibacterial peptide biosynthesis), endocrine signaling (luteinizing hormone and thyroid-stimulating hormone pathways), neural development (axonogenesis), intracellular trafficking (retrograde transport from endosome to Golgi), and mitochondrial function, plus an developmental axis term. There is no single cohesive biological theme linking all terms, and the cluster has no edges, suggesting the proteins do not form a functionally coherent group. ","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071373","count":1},{"id":"GO:0032741","count":1},{"id":"GO:0006963","count":1},{"id":"GO:0051901","count":1},{"id":"GO:1905279","count":1}]},{"hash":"1473363951042883618","title":"Developmental cell adhesion and migration","description":"The GO terms show strong signals for cellular adhesion (heterophilic and homophilic), various migration processes (smooth muscle and neuron), sprouting angiogenesis, and junction/synapse assembly, all pointing to adhesion-guided development and tissue patterning. The combination suggests a cohesive theme around cell adhesion steering morphogenesis, vascular and neural development, and synaptic organization. Although there are no direct interactions in the edge data, the term set supports a development-focused adhesion/migration cluster.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":5},{"id":"GO:0048661","count":4},{"id":"GO:0090050","count":4},{"id":"GO:1990134","count":4},{"id":"GO:0051968","count":4}]},{"hash":"512767157562255219","title":"Neural development and synapse formation via cell adhesion","description":"The top GO terms cluster around cell adhesion (heterophilic/homophilic), synapse assembly, and neuronal migration, with multiple terms pointing to multicellular organism development and neural processes. This suggests the proteins largely participate in neural development and synapse formation through cell adhesion, though some terms touch on broader developmental roles (skeletal/cardiovascular), indicating some diversity in function. Overall, neural development and adhesion-mediated synaptogenesis appear to be the central theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":3},{"id":"GO:0007156","count":2},{"id":"GO:0021836","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0001501","count":2}]},{"hash":"347818608010813889","title":"Complement Activation and MAC Regulation","description":"The cluster is dominated by GO terms for complement activation across classical, lectin, and alternative pathways, plus positive regulation of membrane attack complex activation, pointing to a cohesive role in the complement system and MAC formation; other terms appear incidental rather than defining the group.","confidence":"High","size":16,"edges":19,"triangles":1,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006957","count":4},{"id":"GO:0001970","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0001701","count":4},{"id":"GO:0034392","count":3}]},{"hash":"825942909559904552","title":"Receptor signaling and developmental remodeling","description":"These terms cluster around receptor-mediated signaling (GPCR acetylcholine signaling, GnRH response, receptor clustering) and development/tissue remodeling processes (keratinocyte differentiation, angiogenesis, follicle development, synapse assembly), with some coagulation terms present as broader tissue-level processes. The common theme is signaling pathways guiding development and structural changes across tissues.","confidence":"Medium","size":16,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":5},{"id":"GO:0007596","count":5},{"id":"GO:2000354","count":4},{"id":"GO:0090050","count":4},{"id":"GO:0051965","count":4}]},{"hash":"82042419561768092","title":"Skeletal development and cell adhesion","description":"It ties together ossification and bone formation terms (ossification, bone trabecula formation) with adhesion processes (cell-matrix adhesion, heterophilic cell-cell adhesion) and developmental signaling (Wnt, Hedgehog), suggesting a cluster centered on skeletal development and related cell interactions. The immune term appears less central to the main theme.","confidence":"High","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0007157","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0032495","count":3}]},{"hash":"790405584746056919","title":"Unknown","description":"The top GO terms span immune response, stress/unfolded protein response, cell cycle/division, various signaling pathways, and organelle localization, with several obsolete terms. This lack of a cohesive theme makes it hard to assign a confident, representative label for the cluster.","confidence":"","size":16,"edges":55,"triangles":71,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0006986","count":2},{"id":"GO:0055059","count":2},{"id":"GO:0016570","count":2},{"id":"GO:0000278","count":2}]},{"hash":"979031463008885972","title":"Membrane lipid biosynthesis and trafficking","description":"This cluster's top GO terms converge on lipid metabolism and membrane biogenesis: ether lipid metabolism, long-chain fatty-acyl-CoA biosynthesis, fatty acid elongation; GPI anchor biosynthetic process; rhabdomere membrane biogenesis; post-Golgi vesicle-mediated transport. A couple terms about pollen germination/growth and mitochondrial ribosome assembly may reflect broader cellular growth or organelle biogenesis, but the dominant signal is lipid synthesis and membrane formation/trafficking.","confidence":"Medium","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006506","count":2},{"id":"GO:0006067","count":1},{"id":"GO:0061668","count":1},{"id":"GO:0009846","count":1},{"id":"GO:0009860","count":1}]},{"hash":"2167447096071284987","title":"Endosome-lysosome trafficking and autophagy","description":"The cluster\u2019s top GO terms cluster around endosome organization, endosomal transport, lysosome organization, receptor recycling, and microautophagy, suggesting a shared role in intracellular vesicle trafficking and turnover. Obsolete terms are present but the coherent non-obsolete terms support a vesicle trafficking/autophagy theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0010039","count":2},{"id":"GO:0010940","count":1},{"id":"GO:0010917","count":1},{"id":"GO:0035794","count":1}]},{"hash":"1920900046969291944","title":"Neural signaling and sensory perception","description":"This cluster centers on neural signaling and sensory processing, with terms like excitatory postsynaptic potential, detection of sound, and responses to psychoactive substances (cocaine, ethanol). It also includes peripheral nervous system myelination and circadian/neuroendocrine rhythm regulation (sleep/wake cycle, ovulation rhythm), suggesting a neural/sensory theme with regulatory aspects. Some terms (angiogenesis, amyloid-beta formation) appear peripheral but do not override the core neural focus.","confidence":"Medium","size":16,"edges":14,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060079","count":6},{"id":"GO:0042220","count":6},{"id":"GO:0050910","count":4},{"id":"GO:0032516","count":4},{"id":"GO:0022011","count":4}]},{"hash":"1214964867822169234","title":"Ubiquitin-Mediated Protein Regulation","description":"The set is dominated by ubiquitination-related terms (protein ubiquitination, autoubiquitination, and K48-linked ubiquitination), underscoring a theme of ubiquitin-dependent control of protein stability. Other terms connect ubiquitin signaling to I-kappaB phosphorylation and mitotic spindle checkpoint signaling, while endosome localization suggests roles in trafficking and degradation. Taken together, the cluster represents ubiquitin-driven regulation of protein turnover and signaling across cell cycle and immune pathways.","confidence":"Medium","size":16,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060544","count":1},{"id":"GO:2000620","count":1},{"id":"GO:0036010","count":1},{"id":"GO:0016567","count":1},{"id":"GO:1903721","count":1}]},{"hash":"752303229682496100","title":"GPCR-cAMP Endocrine Stress Signaling","description":"The cluster centers on adenylate cyclase-activating GPCR signaling and cAMP biosynthesis, with corticotropin secretion and general adaptation syndrome, pointing to an endocrine stress-response module. Additional terms about VEGF/angiogenesis regulation and blood pressure suggest vascular effects downstream of GPCR-cAMP signaling, while energy metabolism and reproductive development terms imply broader hormonal regulation of metabolism and reproduction.","confidence":"Medium","size":16,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010579","count":16},{"id":"GO:0016525","count":16},{"id":"GO:0051965","count":16},{"id":"GO:1900747","count":16},{"id":"GO:0045777","count":16}]},{"hash":"1161770372455857131","title":"Diverse solute transmembrane transport","description":"With multiple GO terms for transmembrane transport of various substrates (nitrate, nitrite, potassium, phosphate, galactose, sugar derivatives, sialic acid, fucose, vitamins), the cluster appears to comprise membrane transport proteins handling diverse solutes rather than a single substrate or pathway.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":15},{"id":"GO:0015757","count":14},{"id":"GO:0035461","count":14},{"id":"GO:1900754","count":14},{"id":"GO:0035435","count":14}]},{"hash":"919522726932443335","title":"Embryonic development and morphogenesis","description":"The top GO terms cluster around developmental processes across multiple tissues\u2014central nervous system development, axonogenesis, BMP signaling, EMT in heart development, cartilage morphogenesis, placental and endocrine system development, left-right patterning, and pancreatic cell development\u2014suggesting proteins involved in embryogenesis, tissue patterning, and morphogenesis.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":7},{"id":"GO:0050772","count":4},{"id":"GO:0030513","count":4},{"id":"GO:0060707","count":4},{"id":"GO:0003198","count":4}]},{"hash":"679651880875456131","title":"Heart and vascular morphogenesis","description":"This cluster is dominated by GO terms related to heart and blood vessel development (endocardial cushion formation, dorsal aorta morphogenesis, pericardium morphogenesis, venous endothelial differentiation, sprouting angiogenesis, and cell migration/adhesion), with supporting signals from Wnt pathways. The common theme is coordinated cardiovascular morphogenesis and endothelial differentiation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0003273","count":15},{"id":"GO:1990134","count":14},{"id":"GO:0035912","count":14},{"id":"GO:0007157","count":14},{"id":"GO:0044332","count":13}]},{"hash":"274709957023202509","title":"Neurotransmission and Autonomic Signaling","description":"This cluster centers on neuronal signaling and autonomic regulation, highlighted by dopamine receptor signaling, endocannabinoid signaling, and related GPCR pathways that modulate cardiac function and vasoconstriction, as well as behavior (operant conditioning). While a few terms (e.g., histamine-induced gastric acid secretion) appear peripheral, the dominant theme is neural and autonomic signaling.","confidence":"Medium","size":16,"edges":105,"triangles":376,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":16},{"id":"GO:0035106","count":16},{"id":"GO:0055117","count":16},{"id":"GO:0031649","count":16},{"id":"GO:1902239","count":16}]},{"hash":"1482245616806556343","title":"Neuroendocrine and Autonomic Signaling","description":"The cluster features GPCR-related signaling and autonomic outputs: dopamine receptor signaling inhibiting adenylate cyclase, endocannabinoid-mediated trans-synaptic signaling, regulation of vasoconstriction and cardiac contraction, histamine-induced gastric acid secretion, and inflammatory mediator regulation. These collectively point to a common theme of coordinated neural/hormonal signaling across systems, despite one outlier term (cell wall macromolecule catabolic process) that may reflect noise. ","confidence":"Medium","size":16,"edges":78,"triangles":174,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":16},{"id":"GO:0035106","count":16},{"id":"GO:0055117","count":16},{"id":"GO:0031649","count":16},{"id":"GO:1902239","count":16}]},{"hash":"978078139866919355","title":"Neural signaling and cardiovascular regulation","description":"This cluster centers on neural communication and autonomic control affecting heart rate, vascular tone, and related physiology, as evidenced by dopamine receptor signaling, endocannabinoid trans-synaptic signaling, and regulation of vasoconstriction and cardiac muscle contraction. Additional terms for histamine-induced gastric acid secretion and operant conditioning reinforce a nervous system\u2013driven behavioral and physiological context. A few outliers (e.g., cell wall macromolecule catabolic process) are less clearly connected, but the dominant theme is signaling that coordinates neural, cardiovascular, and digestive functions.","confidence":"Medium","size":16,"edges":109,"triangles":419,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":16},{"id":"GO:0035106","count":16},{"id":"GO:0055117","count":16},{"id":"GO:0031649","count":16},{"id":"GO:1902239","count":16}]},{"hash":"1844599023236412758","title":"GPCR-mediated neuromodulatory signaling","description":"The top GO terms point to G-protein coupled receptor signaling across neural and autonomic systems (dopamine receptor signaling, endocannabinoid signaling, histamine signaling, vasoconstriction, cardiac regulation, synaptic transmission), with operant conditioning reflecting learning-related roles of such signaling. This suggests a cohesive theme of GPCR-driven neuromodulation across tissues, despite a few outliers.","confidence":"Medium","size":16,"edges":94,"triangles":295,"max_degree":15,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":16},{"id":"GO:0035106","count":16},{"id":"GO:0055117","count":16},{"id":"GO:0031649","count":16},{"id":"GO:1902239","count":16}]},{"hash":"1197298450737389670","title":"Cardiovascular GPCR-cAMP signaling and energy metabolism","description":"This cluster is dominated by GO terms for adenylate cyclase-activating GPCR signaling and regulators of blood pressure and cardiac contraction, pointing to GPCR-driven cardiovascular signaling. The presence of electron transport and heat generation terms suggests linked metabolic activity, with some terms also touching on broader signaling and neural processes. ","confidence":"Medium","size":16,"edges":40,"triangles":21,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":16},{"id":"GO:0045777","count":16},{"id":"GO:0022900","count":16},{"id":"GO:0035025","count":16},{"id":"GO:0001697","count":15}]},{"hash":"1762112190994567054","title":"Ribosome Biogenesis and Cell Cycle","description":"This cluster is dominated by GO terms related to ribosome biogenesis and ribosomal subunit processing (ribosome biogenesis, small and large subunit maturation, and export). The inclusion of LSU/SSU maturation and nuclear export indicates nucleolar/nuclear ribosome assembly, while cell cycle and division terms imply coordination between ribosome production and proliferation. Overall, the proteins likely function together in assembling ribosomal subunits and linking this process to cell division.","confidence":"High","size":15,"edges":97,"triangles":365,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0000463","count":4},{"id":"GO:0000055","count":4},{"id":"GO:0000747","count":4},{"id":"GO:0051301","count":4}]},{"hash":"2011513007007180995","title":"Innate Immunity and Cell Death Signaling","description":"This cluster is dominated by GO terms tied to innate immune response, pyroptosis, and apoptosis, with ubiquitination and regulatory NF-kB activity. The co-occurrence of immune activation, inflammatory programmed cell death, and ubiquitin-mediated regulation suggests a cohesive theme of innate immune signaling leading to cell death.","confidence":"High","size":15,"edges":91,"triangles":364,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":14},{"id":"GO:0016567","count":14},{"id":"GO:0090307","count":14},{"id":"GO:0070269","count":14},{"id":"GO:1990001","count":14}]},{"hash":"1314335222733600402","title":"Drosophila Embryonic Development and Morphogenesis","description":"This cluster centers on embryonic development and morphogenesis, with terms for posterior head segmentation, embryonic morphogenesis, Spemann organizer reference, and regulation of oskar mRNA translation, plus related apoptotic remodeling during development. A couple of outliers like DNA transposition and endothelial proliferation exist but do not override the dominant developmental theme.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001935","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0061408","count":2},{"id":"GO:0060062","count":1},{"id":"GO:0048598","count":1}]},{"hash":"147537479093134551","title":"Retroviral DNA Integration and Proviral Latency","description":"These GO terms cluster around steps of the retroviral life cycle: entry into host cells, penetration into the nucleus, reverse transcription (RNA-templated DNA biosynthesis), DNA replication and recombination, and integration with establishment of proviral latency. Additional terms reflect host-virus interactions and antiviral responses, supporting a cohesive theme of retroviral genome integration and provirus maintenance.","confidence":"High","size":15,"edges":64,"triangles":146,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0046718","count":9},{"id":"GO:0006278","count":8},{"id":"GO:0075732","count":8},{"id":"GO:1903704","count":8}]},{"hash":"1122754828090429408","title":"Viral integration and genome transposition","description":"This cluster centers on GO terms related to viral entry and proviral latency, DNA integration, RNA-templated DNA synthesis (reverse transcription), DNA recombination and transposition, indicating proteins involved in genome integration and mobile element activity, with some host-pathogen interaction signals such as apoptosis activation and siRNA processing regulation.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0075732","count":15},{"id":"GO:0075713","count":15},{"id":"GO:0046718","count":15},{"id":"GO:0039651","count":15},{"id":"GO:0015074","count":15}]},{"hash":"1799803886036655812","title":"Apoptosis and innate immune signaling","description":"This cluster is enriched for apoptotic process, pyroptotic inflammatory response, and innate immune response, with strong ubiquitination signals, suggesting a coordinated stress response that links cell fate decisions (death) with immune signaling. The presence of DNA replication and repair terms may reflect overlap with cell cycle and genome maintenance during stress.","confidence":"High","size":15,"edges":92,"triangles":353,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006915","count":14},{"id":"GO:0045087","count":12},{"id":"GO:0016567","count":12},{"id":"GO:0090307","count":12},{"id":"GO:0070269","count":12}]},{"hash":"399795913411954271","title":"Endosome trafficking and mitosis","description":"The cluster features GO terms centered on endosomal transport and recycling (early to late endosome, endosome to lysosome), along with mitotic processes (mitotic cell cycle, mitotic cytokinesis) and phosphoinositide- and GTPase-regulated signaling. This points to proteins coordinating membrane trafficking with cell division, often via Rab/Rho GTPases and phosphoinositide signaling. A few outliers (ascospore membrane formation, osteoblast fate) may reflect broader membrane remodeling roles or annotation noise. Overall, a coherent theme of endocytic trafficking linked to mitotic regulation.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:1990126","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0045022","count":3}]},{"hash":"113494304192210775","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0048702","count":14},{"id":"GO:0006068","count":14},{"id":"GO:0009812","count":14},{"id":"GO:0030205","count":14},{"id":"GO:0050427","count":14}]},{"hash":"1476983619698243500","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":5,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":5},{"id":"GO:0043123","count":4},{"id":"GO:0061158","count":3},{"id":"GO:2000637","count":3},{"id":"GO:0033280","count":3}]},{"hash":"1013856361161383775","title":"Nucleolar RNA processing and ribosome biogenesis","description":"This cluster is enriched for ribosome biogenesis and RNA processing terms, including 90S preribosome assembly, rRNA processing, and various transcription/ RNA metabolism activities, suggesting a nucleolar RNA-processing hub centered on ribosome assembly.","confidence":"High","size":15,"edges":76,"triangles":238,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006367","count":3},{"id":"GO:0034463","count":3},{"id":"GO:0042797","count":3},{"id":"GO:0001172","count":3},{"id":"GO:0042254","count":3}]},{"hash":"448541925694300311","title":"Unknown","description":"The GO terms span muscle differentiation, nervous system development, sarcomere organization, spindle midzone localization, and other developmental processes, with no single shared pathway or cellular function tying all proteins together, so a cohesive label cannot be assigned.","confidence":"","size":15,"edges":25,"triangles":14,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051096","count":2},{"id":"GO:0035914","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0035853","count":2},{"id":"GO:0045214","count":2}]},{"hash":"2175839049526644437","title":"Cochlear hair cell morphogenesis and auditory perception","description":"The top GO terms center on hearing-related processes: sensory perception of sound, cochlea morphogenesis, and auditory receptor cell stereocilium organization. These points converge on inner-ear hair cell development and function, supporting a label that highlights cochlear hair cell morphogenesis and auditory perception. A few terms (heart development, endothelial barrier) are less directly related but do not overwhelm the clear ear-related theme. Overall, the cluster appears to group proteins involved in auditory sensory biology.","confidence":"High","size":15,"edges":60,"triangles":99,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0051612","count":3},{"id":"GO:0090103","count":3},{"id":"GO:0007507","count":2},{"id":"GO:0060088","count":2}]},{"hash":"32750043285034149","title":"Chromatin Remodeling and Heterochromatin Maintenance","description":"Dominant terms center on chromatin organization: nucleosome density and positioning, chromatin remodeling, and heterochromatin formation in rDNA and subtelomeric regions. The presence of a spindle assembly term suggests coordination with mitosis, linking chromatin state to chromosome segregation. A chloroplast import term appears but does not dominate the set. Together, these terms point to nuclear chromatin dynamics and maintenance of heterochromatin as the core function of this cluster. ","confidence":"High","size":15,"edges":91,"triangles":308,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060303","count":8},{"id":"GO:0016584","count":8},{"id":"GO:0051225","count":6},{"id":"GO:0061188","count":6},{"id":"GO:0006348","count":5}]},{"hash":"2159426797685286490","title":"GTPase-driven developmental signaling","description":"The cluster is enriched for small GTPase signaling terms (positive regulation of GTPase activity; small GTPase-mediated signal transduction) and development/growth terms (forebrain development, multicellular organism growth, growth hormone receptor signaling, TGF-beta response, transcription). This suggests proteins coordinating developmental signaling via GTPase pathways, with some related stress and apoptotic signals as broader context.","confidence":"High","size":15,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0035264","count":2},{"id":"GO:0030900","count":2},{"id":"GO:0071560","count":2}]},{"hash":"797280925242044550","title":"Innate Immune Signaling via NOD2 and TLR","description":"The Top GO terms point to innate immune recognition and signaling, including NOD2 signaling, TLR10 signaling, and broad innate immune response, with positive regulation of inflammatory mediators like IL-6 and IL-18, and involvement of NF-kappaB regulation. This pattern indicates a cohesive module of pathogen recognition leading to inflammatory signaling, despite no observed edges in the network. Some terms like RNA import and mechanical stimulus response appear ancillary. Overall, the cluster most plausibly reflects innate immune receptor signaling and cytokine regulation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070431","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0071260","count":3},{"id":"GO:0034166","count":2},{"id":"GO:0045087","count":2}]},{"hash":"563317027069104922","title":"Complement activation and developmental angiogenesis","description":"The GO terms show strong representation of complement pathways (classical, alternative, lectin) and membrane attack complex activation, together with developmental processes like embryonic development, cerebellar Purkinje cell layer development, and sprouting angiogenesis. This points to a cluster of proteins involved in immune activation within developmental contexts, including vascular and neural maturation, rather than a single isolated function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0007157","count":10},{"id":"GO:0090050","count":9},{"id":"GO:0001701","count":9},{"id":"GO:0001970","count":9},{"id":"GO:0006957","count":9}]},{"hash":"1945457232623794767","title":"Auditory/neuronal development and chromatin regulation","description":"Based on the mix of terms, the cluster centers on sensory/neuronal functions (sound perception, balance, dendritic spine morphogenesis) with accompanying transcriptional and epigenetic regulation (DNA-templated transcription, RNA Pol I regulation, histone acetylation). Brush border assembly is present but less central, suggesting the core theme is neural/sensory development tied to gene expression control.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:1904970","count":3},{"id":"GO:0050957","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0006351","count":3}]},{"hash":"531329930793276488","title":"Glycosylation and Sialic Acid Metabolism","description":"The top GO terms are dominated by glycan processing and glycosphingolipid pathways: N-acetylneuraminate metabolism, glycosylceramide metabolism, ganglioside biosynthesis, protein sialylation, and N-glycan processing. These point to a cohesive theme of glycan/glycolipid biosynthesis and modification, even though a few terms (e.g., pollen/germination, endothelial proliferation) are less aligned and may reflect broader annotations or cross-species data. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001935","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0006054","count":1},{"id":"GO:0009860","count":1},{"id":"GO:0006677","count":1}]},{"hash":"1321400464635048554","title":"Ubiquitin\u2011MVB Trafficking in Cell Division","description":"Several top GO terms point to multivesicular body assembly and the ubiquitin\u2011dependent sorting pathway into exosomes, along with protein ubiquitination and Golgi retention, indicating a role in regulated protein trafficking and turnover. Additional terms emphasize mitotic progression (exit from mitosis, sister chromatid separation) and mRNA export, suggesting the cluster reflects coupling of vesicle\u2011mediated sorting with cell\u2011cycle control. Some items like DNA integration are less tightly connected, but overall the motif is ubiquitin\u2011driven protein sorting during mitosis.","confidence":"Medium","size":15,"edges":35,"triangles":29,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0036258","count":4},{"id":"GO:0006406","count":3},{"id":"GO:0043162","count":3}]},{"hash":"1582667213874225369","title":"Amino acid, vitamin, and porphyrin biosynthesis","description":"This cluster is dominated by GO terms for biosynthetic processes spanning amino acids (proline, beta-alanine, alanine), a vitamin (biotin), and porphyrin/heme synthesis (protoporphyrinogen IX), with an additional note on antibiotic biosynthesis. These points together suggest a shared theme of diverse small-molecule biosynthesis. A couple of unrelated terms about stress responses appear incidental. Therefore the label reflects the core metabolic theme reasonably well.","confidence":"Medium","size":15,"edges":81,"triangles":266,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":6},{"id":"GO:0006782","count":6},{"id":"GO:0019878","count":6},{"id":"GO:0009447","count":5},{"id":"GO:0009413","count":5}]},{"hash":"1522989572362552742","title":"Sphingolipid GPCR signaling in brain and vasculature","description":"The top GO terms center on sphingolipid metabolism and signaling (sphingosine-1-phosphate receptor signaling, phytosphingosine metabolic process), combined with vascular and neural development (brain development, blood vessel development) and immune/modulatory signaling (NF-kappaB activity, IL-1\u03b2 production, smooth muscle contraction). This pattern suggests a cohesive theme around sphingolipid-mediated GPCR signaling coordinating neural and vascular development and related immune regulation. Confidence: Medium","confidence":"","size":15,"edges":22,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0001568","count":3},{"id":"GO:2000064","count":2}]},{"hash":"837042399485577860","title":"Nucleotide Metabolism and Phosphorylation","description":"The cluster is enriched for phosphorylation-related processes and nucleotide metabolism: AMP salvage, purine ribonucleotide interconversion, and biosynthesis of ADP, CDP, and ITP, suggesting a group of enzymes involved in nucleotide turnover and energy phosphate transfer. The brain and liver development terms may reflect tissue-specific expression rather than core activity. ","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0016310","count":8},{"id":"GO:0046939","count":7},{"id":"GO:0046940","count":7},{"id":"GO:0044209","count":6},{"id":"GO:0046041","count":6}]},{"hash":"1558952668272241786","title":"Redox Balance and Detoxification","description":"Top GO terms are dominated by oxidation-reduction processes and detoxification, indicating a cluster focused on cellular redox regulation. While other terms (thiamine biosynthesis, transcription, viral process, stem cell proliferation) appear, they are less representative of the main theme. Confidence: Medium","confidence":"","size":15,"edges":24,"triangles":11,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0045454","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0009228","count":3},{"id":"GO:0006351","count":3}]},{"hash":"2129075995407796407","title":"Neuronal Synaptic Signaling and Plasticity Regulators","description":"This cluster is dominated by GO terms related to neuronal signaling and plasticity: regulation of Rho and calcium signaling, synaptic vesicle exocytosis, neurotransmitter secretion, and long-term potentiation, all core to brain development and synaptic function.","confidence":"High","size":15,"edges":34,"triangles":29,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":14},{"id":"GO:2000300","count":13},{"id":"GO:0060291","count":12},{"id":"GO:0007420","count":12},{"id":"GO:0010796","count":12}]},{"hash":"570060706223170046","title":"Enterobacterial common antigen biosynthesis","description":"This cluster is strongly enriched for the enterobacterial common antigen biosynthetic process (GO:0009246), with 14 proteins tied to ECA production, suggesting a cohesive theme around assembly of this surface antigen in Enterobacteriaceae. The other listed terms reflect broader bacterial biosynthetic pathways (glutathione, cysteine, FAD, sulfate assimilation, hydrogen sulfide, methionine), which may be incidental or reflect interconnected metabolism, but the dominant ECA signal indicates the core function of the cluster is ECA biosynthesis.","confidence":"Medium","size":15,"edges":7,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009246","count":14},{"id":"GO:0009086","count":1},{"id":"GO:0006750","count":1},{"id":"GO:0019379","count":1},{"id":"GO:0070814","count":1}]},{"hash":"1926842131376804902","title":"Brown adipose tissue development and adipocyte differentiation","description":"This cluster shows a cohesive emphasis on adipose biology, with brown fat cell differentiation and adipose tissue development as core terms, suggesting involvement in adipocyte formation and fat-t tissue development; transcription-related terms indicate regulatory processes during this development. Some terms (segmental identity, copper detox, phytochelatin biosynthesis) appear incidental noise rather than core drivers in this cluster.","confidence":"Medium","size":15,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":1},{"id":"GO:0035563","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0050873","count":1},{"id":"GO:0035291","count":1}]},{"hash":"1035558344790448335","title":"Bone and Extracellular Matrix Development","description":"Top GO terms point to collagen fibril organization and bone development, indicating ECM remodeling and skeletal tissue formation. The presence of neural development terms (axonogenesis, synapse assembly) alongside angiogenesis regulation suggests broader developmental signaling, while immune-related terms imply tissue defense involvement. Overall, the proteins appear to cluster around bone/ECM development with related signaling processes.","confidence":"Medium","size":15,"edges":25,"triangles":9,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019800","count":14},{"id":"GO:0016525","count":13},{"id":"GO:0051965","count":13},{"id":"GO:0060348","count":13},{"id":"GO:0030199","count":13}]},{"hash":"888600072525624740","title":"RNA Methylation and mRNA Capping","description":"The top GO terms cluster around RNA modification and processing: guanine-N7 methylation, arginine methylation, tRNA wobble uridine modification, and 7-methylguanosine cap formation, suggesting a common role in RNA maturation/translation. Other terms like nodulation or stress responses are present but likely peripheral.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0046690","count":13},{"id":"GO:0036265","count":13},{"id":"GO:0019919","count":13},{"id":"GO:0002098","count":13},{"id":"GO:0006370","count":13}]},{"hash":"1426714543751911594","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"This cluster is dominated by GO terms for the biosynthesis and metabolic processing of proteoglycans and glycosaminoglycans (heparan sulfate, chondroitin/dermatan sulfate). These terms suggest enzymes and pathways that assemble, modify, and turnover proteoglycans, which are key extracellular matrix components influencing signaling and development. The inclusion of developmental terms such as ureteric bud formation and chondrocyte development supports a proteoglycan-linked role in morphogenesis. Overall, the group appears to reflect proteoglycan/GAG biosynthesis and metabolism, with a minor outlier term. ","confidence":"High","size":15,"edges":29,"triangles":20,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0015015","count":2},{"id":"GO:0030206","count":2},{"id":"GO:0060676","count":1},{"id":"GO:0002063","count":1},{"id":"GO:0015014","count":1}]},{"hash":"636954399799084396","title":"MyD88-dependent TLR NF-\u03baB inflammatory signaling","description":"The enriched GO terms center on innate immune activation: MyD88-dependent TLR signaling, NF-\u03baB\u2013driven transcription, inflammatory responses, and coordinated chemokine and cytokine production (e.g., CXCL2, IL-23) in response to peptidoglycan. This suggests a cohesive cluster of proteins involved in initiating and amplifying inflammation via the TLR-NF-\u03baB axis.","confidence":"High","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0090197","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0051092","count":2},{"id":"GO:2000341","count":2}]},{"hash":"621758552771852464","title":"Mitochondrial dynamics and cell cycle control","description":"This cluster is dominated by mitochondrial-related GO terms (mitochondrion targeting, inner membrane organization, morphogenesis, and inheritance) together with cell cycle, cell division, and apoptotic processes, suggesting a cohesive theme around mitochondrial dynamics coordinating cell proliferation and cell fate. A few outlier terms (osteoblast differentiation, bacterial-type motility) are present but do not override the core signal.","confidence":"High","size":15,"edges":67,"triangles":140,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006626","count":3},{"id":"GO:0007007","count":3},{"id":"GO:0070584","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0045053","count":2}]},{"hash":"688257931800679091","title":"Nuclear transport and meiotic cell cycle regulation","description":"The terms converge on nuclear import (NLS-bearing proteins, protein import into nucleus), and mitotic/meiosis-related processes (mitotic nuclear membrane reassembly, meiotic spindle elongation, regulation of meiotic cell cycle in oocyte maturation). There are also signals linked to post-translational modification and apoptotic pathways (desumoylation, serine dephosphorylation, extrinsic/apoptotic signaling). Together, these suggest a cluster of proteins coordinating nuclear transport, cell cycle progression through meiosis/mitosis, and related apoptotic regulation, likely in germline or meiotic contexts.","confidence":"Medium","size":15,"edges":66,"triangles":146,"max_degree":14,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000060","count":4},{"id":"GO:0060188","count":4},{"id":"GO:0070262","count":4},{"id":"GO:0007084","count":4}]},{"hash":"56822928104787998","title":"NF-kappaB-Regulated Adaptive Immune Signaling","description":"The dominant GO terms center on regulation of canonical NF-kappaB signaling, adaptive immune response, and spleen development, indicating the cluster's proteins likely function together in NF-kB\u2013driven immune signaling and lymphoid context; peripheral metabolism-related terms may be ancillary annotations.","confidence":"High","size":15,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010867","count":4},{"id":"GO:1900127","count":3},{"id":"GO:0051092","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0002250","count":2}]},{"hash":"1630704863425698532","title":"Bile acids and fatty acid metabolism","description":"The terms point to a lipid-focused module: bile acid biosynthesis and conjugation (including taurine conjugation) and multiple fatty acid metabolic pathways across chain lengths, suggesting coordinated bile acid production/conjugation with long-chain fatty acid processing. A single outlier term about negative regulation of cell proliferation is present but does not redefine the main metabolic theme. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008285","count":2},{"id":"GO:0002152","count":1},{"id":"GO:0006104","count":1},{"id":"GO:0035338","count":1},{"id":"GO:0006699","count":1}]},{"hash":"512531482836720850","title":"Cellular Stress Signaling","description":"The proteins are enriched for GO terms tied to responses to various stresses and signaling events, including inflammation and pain (bradykinin catabolic process, sensory perception of pain), metabolic/neurodegenerative stress (amyloid-beta metabolism), ion homeostasis (magnesium), environmental and mechanical stress (UV-B, mechanical stimulus), and growth/immune signaling (IGF stimulus, innate immune response). While there isn\u2019t a single cohesive pathway, the common theme is sensing and transducing cellular stress signals. ","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010815","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0050435","count":4},{"id":"GO:0010961","count":4},{"id":"GO:0071260","count":3}]},{"hash":"1287726296860472515","title":"Organ and Tissue Morphogenesis","description":"This cluster centers on tissue and organ formation across multiple systems, including pericardium morphogenesis, vasculogenesis in coronary morphogenesis, branching morphogenesis of epithelial tubes, nephron/glomerular development, cerebellar neuron precursor proliferation, and various epithelial differentiations. While a few terms touch on signaling or immune responses, the dominant theme is developmental morphogenesis across diverse tissues. ","confidence":"High","size":15,"edges":91,"triangles":364,"max_degree":13,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0003344","count":14},{"id":"GO:0006590","count":14},{"id":"GO:0007262","count":14},{"id":"GO:0031104","count":14},{"id":"GO:0048754","count":14}]},{"hash":"179382586609808866","title":"Transcription Regulation and Multilineage Differentiation","description":"Top GO terms include transcription by RNA polymerase II and related regulation, plus differentiation across multiple lineages (muscle, dendritic cells, pancreas) and lineage commitment. This pattern suggests a cluster of proteins primarily involved in controlling gene expression to drive diverse differentiation programs.","confidence":"Medium","size":15,"edges":102,"triangles":419,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":6},{"id":"GO:0071353","count":6},{"id":"GO:0031018","count":6},{"id":"GO:0035914","count":6},{"id":"GO:0006351","count":5}]},{"hash":"1838113949284258421","title":"Cardiac electrical signaling and vascular development","description":"The top GO terms point to heart-specific electrical activity (SA node and cardiac action potential regulation, membrane depolarization) and blood vessel formation and barrier establishment, indicating a cardiovascular signaling and vascular development theme; other terms for immune regulation and neural receptors likely reflect broader network interactions but do not outweigh the core cardiovascular focus.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001569","count":3},{"id":"GO:0045083","count":2},{"id":"GO:0010650","count":2},{"id":"GO:1900827","count":2},{"id":"GO:0002268","count":2}]},{"hash":"96203865679104062","title":"Membrane Solute Transporters","description":"Most of the top GO terms point to transmembrane transport of ions and small molecules (potassium, phosphate, D-xylose, sialic acid, trehalose, urate, etc.) and related sugar metabolism. While a few terms are metabolic or biosynthetic, the prevailing theme is transport across membranes, suggesting a cohesive cluster of transporter-related proteins despite the absence of observed protein\u2013protein interactions in this set.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":8},{"id":"GO:0044381","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0015753","count":4},{"id":"GO:0015739","count":4}]},{"hash":"613563290518712934","title":"Developmental morphogenesis and transcription regulation","description":"This cluster centers on morphogenesis across multiple tissues (optic nerve, dendritic spine, keratinocytes, thyroid) and on gene expression control (DNA-templated transcription, nuclear transport regulation). The co-occurrence of differentiation and development-related GO terms, along with supporting signaling aspects (receptor clustering, redox homeostasis), suggests a common theme of developmental differentiation and tissue patterning.","confidence":"Medium","size":15,"edges":12,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046826","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0060997","count":4},{"id":"GO:0043113","count":4},{"id":"GO:0045454","count":4}]},{"hash":"127556578823011999","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":25,"triangles":33,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006223","count":3},{"id":"GO:0044205","count":3},{"id":"GO:0032259","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0009636","count":2}]},{"hash":"1205654435719990271","title":"Membrane Ion and Metabolite Transporters","description":"GO terms cluster around ion homeostasis and broad transmembrane transport of nutrients and metabolites, including Mg2+/Mn2+ homeostasis and transport of galactose, fucose, vitamins, nitrates/nitrites, phosphate, potassium, and related compounds. This suggests a cohesive group of transporter proteins involved in maintaining ion balance and importing/exporting small molecules across membranes.","confidence":"High","size":15,"edges":23,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0010960","count":2},{"id":"GO:0030026","count":2},{"id":"GO:0015757","count":1},{"id":"GO:0035461","count":1},{"id":"GO:1900754","count":1}]},{"hash":"2248630284127363062","title":"Apoptosis Regulation and Stress Response","description":"The top GO terms are dominated by apoptotic processes and regulation (intrinsic apoptotic signaling in response to oxidative stress; negative regulation of execution phase of apoptosis; hepatocyte apoptotic process; related cysteine protease regulation), indicating a cluster centered on cell death signaling and cellular stress responses. Endocytosis and glycosphingolipid metabolism may relate to membrane remodeling linked to apoptosis, while some developmental terms could be annotation spillover. Overall, a cohesive theme around apoptosis control under stress with ancillary membrane dynamics fits best.","confidence":"Medium","size":15,"edges":62,"triangles":125,"max_degree":12,"top_function":"cytokinesis","top_go_terms":[{"id":"GO:0097284","count":4},{"id":"GO:1900118","count":3},{"id":"GO:0008631","count":3},{"id":"GO:0006897","count":3},{"id":"GO:0008584","count":3}]},{"hash":"3757169760803106","title":"Embryonic neural development and organ morphogenesis","description":"The top GO terms point to multiple developmental and morphogenetic events (optic vesicle formation, limb bud formation, facial and glossopharyngeal nerve morphogenesis, branchiomotor axon guidance, and salivary gland branching). Although some terms are general (proteolysis, carbohydrate metabolism), the strongest signal is embryonic development with neural patterning and organ formation, suggesting a cluster of proteins associated with early developmental processes rather than a single pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":1},{"id":"GO:0003403","count":1},{"id":"GO:0060666","count":1},{"id":"GO:0035563","count":1},{"id":"GO:0021793","count":1}]},{"hash":"1286916818256579125","title":"Complement Activation and Coagulation","description":"Top terms are dominated by complement activation (lectin and classical pathways) and blood coagulation, pointing to innate immune and hemostatic functions as the core theme of this cluster. While there are ancillary terms related to development and signaling, the strongest shared function among the proteins appears to be involvement in complement- and coagulation-related processes.","confidence":"High","size":15,"edges":5,"triangles":1,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001867","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0030514","count":4},{"id":"GO:0007160","count":4},{"id":"GO:0034392","count":4}]},{"hash":"573028818283837538","title":"Neural development and synaptic wiring","description":"The top GO terms are strongly skewed toward nervous system development and neuronal connectivity\u2014dendrite self-avoidance, synapse assembly regulation, ROBO signaling, cell adhesion, and ion-channel clustering\u2014indicating a neural development/wiring theme. While heart development, angiogenesis, and ossification appear, the neural terms dominate, supporting the proposed label.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0007399","count":6},{"id":"GO:0045163","count":5},{"id":"GO:0035385","count":4},{"id":"GO:0001525","count":4}]},{"hash":"666253459755871247","title":"Cardiac morphogenesis and TGF-beta signaling","description":"The top GO terms cluster around heart development, including atrioventricular canal morphogenesis, heart trabecula morphogenesis, and endocardial cushion EMT, all associated with TGF-beta signaling (receptor complex assembly and SMAD phosphorylation). While some terms touch on blood vessel and other developmental processes, the strongest theme is cardiac morphogenesis driven by TGF-beta pathways, supporting a label focused on heart development and signaling. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048845","count":3},{"id":"GO:0042102","count":3},{"id":"GO:0072218","count":2},{"id":"GO:0061384","count":2},{"id":"GO:0007181","count":2}]},{"hash":"1045836971130669821","title":"Cardiac pacemaker signaling and mechanotransduction","description":"The top GO terms cluster around heart electrical activity and mechanical signaling, notably SA node cell action potential regulation, SA node to atrial cardiac muscle cell communication, and cellular response to mechanical stimulus. Supporting terms for extracellular matrix (heparin proteoglycan biosynthetic process) fit with cardiac tissue remodeling, while immune/ apoptotic terms appear less central but possible in broader cardiac contexts. Overall, the cluster seems to represent cardiac conduction and mechanical response pathways.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030210","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0045083","count":2},{"id":"GO:0002268","count":2},{"id":"GO:0098907","count":2}]},{"hash":"501245393518582774","title":"Innate Immunity and Ubiquitin Signaling","description":"The dominant terms point to innate immune response and inflammatory signaling (innate immune response; regulation of NF-kappaB activity), with signals of ubiquitin-mediated protein turnover (autoubiquitination and negative regulation of ubiquitin-dependent proteolysis). Some terms reference broad regulatory processes (lipopolysaccharide signaling, SMAD phosphorylation) and a few plant/developmental terms, but the core pattern supports a cluster centered on immune signaling modulated by ubiquitination.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":15},{"id":"GO:0007182","count":15},{"id":"GO:0045087","count":15},{"id":"GO:0046598","count":15},{"id":"GO:2000059","count":15}]},{"hash":"2035487994696015651","title":"Cell Polarity and Actin Cytoskeleton Dynamics","description":"Top terms cluster around establishment of cell polarity, actin filament organization, and endocytosis, with related cell-shape and polarity maintenance terms. This pattern suggests proteins that coordinate cytoskeletal remodeling with cell polarity and membrane trafficking, rather than a single isolated pathway.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0030010","count":1},{"id":"GO:0006897","count":1},{"id":"GO:0007253","count":1},{"id":"GO:0071963","count":1}]},{"hash":"1690260863239296251","title":"Inflammation and coagulation signaling","description":"Top GO terms indicate strong enrichment for inflammatory response, blood coagulation, and response to LPS, with accompanying vascular tone regulation and pain perception signals. This pattern supports a cohesive theme of immune-vascular remodeling during inflammatory events; some obscure development terms may be incidental annotations but do not negate the primary inflammatory/coagulation focus.","confidence":"High","size":15,"edges":12,"triangles":2,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":8},{"id":"GO:0007596","count":7},{"id":"GO:0032496","count":7},{"id":"GO:0045907","count":7},{"id":"GO:0045986","count":7}]},{"hash":"41320573157939131","title":"Embryonic neural and limb morphogenesis","description":"The top GO terms point to an embryonic development program, especially neural differentiation (dopaminergic neuron differentiation, visceral motor neuron differentiation, ventral spinal cord interneuron specification, cerebral cortex regionalization) and limb morphogenesis (forelimb morphogenesis, digit morphogenesis), with additional heart and skeletal system development signals. This suggests a cohesive set of genes coordinating early organogenesis, particularly neural and limb patterning. ","confidence":"High","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048706","count":5},{"id":"GO:0021796","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0060021","count":4},{"id":"GO:0021524","count":4}]},{"hash":"477936857300693715","title":"TLR-MyD88 NF-\u03baB Innate Signaling","description":"The top GO terms cluster around Toll-like receptors (TLR1/2/8), MyD88-dependent TLR signaling, NF-\u03baB activation, and downstream cytokine production (IL-18, IFN-\u03b1). The combination of TLR signaling pathways and interferon/inflammatory responses indicates a cohesive theme of TLR-mediated innate immune activation. The inclusion of non-canonical NF-\u03baB signaling further supports this innate-immune signaling core, with chloroquine response likely linked to endosomal TLR regulation. Therefore, this cluster most plausibly represents proteins involved in TLR-triggered innate immune signaling.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032741","count":15},{"id":"GO:0050830","count":15},{"id":"GO:0034130","count":15},{"id":"GO:0042346","count":15},{"id":"GO:0034134","count":15}]},{"hash":"2077191554883796440","title":"Endothelial Innate Immunity and Angiogenesis","description":"The cluster is enriched for innate immune and complement-related terms (classical and lectin pathway activation) and sprouting angiogenesis, with supporting signals from cell-matrix adhesion and vascular-associated metabolism and blood pressure regulation. This points to a cohesive theme of vascular/endothelial immune activity and angiogenic remodeling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":8},{"id":"GO:0007160","count":4},{"id":"GO:0034392","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0001867","count":4}]},{"hash":"277193920389528414","title":"Diverse Membrane Transporters","description":"This cluster is dominated by GO terms related to membrane transport across a variety of substrates (glucose, D-xylose, trehalose, lactose-associated processes, phosphate, urate, selenite) and an accompanying osmotic stress response, suggesting a shared role in transport and osmoregulation. The presence of one outlier term related to replicative senescence doesn\u2019t override the broad transport theme. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":1},{"id":"GO:0015753","count":1},{"id":"GO:0005989","count":1},{"id":"GO:0015771","count":1},{"id":"GO:0006817","count":1}]},{"hash":"709286502676177897","title":"AGP Glycosylation and Plant Cell Wall Formation","description":"Most terms center on arabinogalactan protein (AGP) metabolism and related glycosylation of hydroxyproline-rich cell-wall proteins, plus seed coat mucilage and root hair development. The common theme is plant cell-wall glycoprotein biosynthesis and modification. A few insect-related terms appear but do not define the cluster\u2019s main function.","confidence":"High","size":15,"edges":86,"triangles":264,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":9},{"id":"GO:0080147","count":8},{"id":"GO:0042248","count":6},{"id":"GO:0010405","count":6},{"id":"GO:0048354","count":6}]},{"hash":"1789814973400364384","title":"Placental and Embryonic Development","description":"The GO terms are dominated by embryogenesis-related processes (trophoblast differentiation, placental/endocardial-related EMT, left-right patterning, organogenesis, palate and cartilage morphogenesis, endocrine system development), indicating a cohesive theme of placental and embryonic tissue development and organ formation. Minor terms like GABA signaling and vitamin D regulation do not override this core theme, making the label representative of the cluster\u2019s function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":6},{"id":"GO:0003198","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060806","count":6}]},{"hash":"474916790108762154","title":"RNA Methylation and Processing Enzymes","description":"The top GO terms cluster around RNA methylation and capping (guanine-N7 methylation, tRNA wobble uridine modification, and 7-methylguanosine mRNA capping) and extend to protein arginine methylation, suggesting a family of methyltransferases involved in RNA maturation and related modifications. Stress-related terms are present but secondary, aligning with a core theme of RNA modification/processing. ","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0046690","count":11},{"id":"GO:0036265","count":11},{"id":"GO:0019919","count":11},{"id":"GO:0002098","count":11},{"id":"GO:0006370","count":11}]},{"hash":"1848328902279315374","title":"Oxidative Stress Response and Redox Homeostasis","description":"This cluster is defined by strong representation of oxidative stress and redox-related processes: oxidation-reduction activity, cellular response to oxidative stress, and detoxification of oxidants, indicating a cohesive redox/homeostasis role for these proteins. Some obsolete or unrelated terms (e.g., Wnt/dorsal-ventral axis, morphogenesis) appear but do not define the core function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0006979","count":3},{"id":"GO:0098869","count":3},{"id":"GO:0044332","count":2},{"id":"GO:0033563","count":2}]},{"hash":"1040458362875696774","title":"Cholesterol Homeostasis and Lipid Modification","description":"This cluster centers on cholesterol storage and lipoprotein regulation, i.e., cholesterol homeostasis, and on lipid-protein modifications such as N-palmitoylation and octanoylation. Additional terms link to lipids in APP processing and Hedgehog signaling, which are known to be influenced by cholesterol-rich membranes and lipid modifications, as well as foam cell differentiation in lipid-loaded macrophages. A few terms (e.g., alginic acid biosynthesis) seem less connected and may reflect annotation noise. Overall, the dominant theme is lipid metabolism and signaling modulated by protein lipidation.","confidence":"Medium","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0018009","count":6},{"id":"GO:0097006","count":6},{"id":"GO:0042121","count":6},{"id":"GO:0007224","count":6},{"id":"GO:0010742","count":6}]},{"hash":"1544884355295000009","title":"Fish fatty acid biosynthesis and pheromone signaling","description":"Most top GO terms point to fatty acid elongation and various fatty acid biosynthetic processes, with added hints of pheromone metabolism and courtship behavior, suggesting a fish-specific lipid signaling role; vesicle transport terms imply secretory trafficking of lipid-derived signals.","confidence":"High","size":15,"edges":81,"triangles":235,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006892","count":4},{"id":"GO:0019367","count":4},{"id":"GO:0035338","count":4},{"id":"GO:0042761","count":4},{"id":"GO:0042810","count":4}]},{"hash":"2273419729615685398","title":"Embryonic Development and Complement Activation","description":"This cluster shows strong representation of embryonic development terms (in utero embryonic development; ventral spinal cord development) alongside complement system activation terms (classical and alternative pathways; membrane attack complex activation). While a few terms are obsolete, the recurring themes suggest a link between developmental processes and innate immunity, possibly reflecting developmental regulators with immune-related functions or immune components active during development.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0044332","count":12},{"id":"GO:0021517","count":11},{"id":"GO:0006957","count":11},{"id":"GO:0001970","count":11},{"id":"GO:0006958","count":11}]},{"hash":"48217460027534944","title":"Neural and vascular development signaling","description":"This cluster shows terms tied to both vascular development (endothelial differentiation, fluid shear stress) and neural development/axon guidance (spinal cord development, dorsal/ventral axon guidance), with a background of developmental signaling (Wnt pathway). While some terms are more general (endocytosis, redox), the common theme appears to be signaling involved in neural and vascular development. Confidence: Medium","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045602","count":2},{"id":"GO:0071318","count":2},{"id":"GO:0044332","count":1},{"id":"GO:0021510","count":1},{"id":"GO:0033563","count":1}]},{"hash":"1418697609313641016","title":"Synapse Adhesion and Neural ECM Remodeling","description":"Based on the top GO terms, the cluster centers on neural connectivity and extracellular matrix support: multiple terms emphasize synapse maintenance, cell adhesion, and positive regulation of synapse assembly, while collagen fibril organization and collagen biosynthetic processes point to ECM remodeling that underpins synaptic structure. The presence of motor learning and phototaxis hints at neural-function outcomes, and fatty acid biosynthesis could reflect membrane lipid needs in neurons. A minor note is complement activation, which can relate to CNS immune signaling but is not central to the main theme. Overall, the cohesive theme is synapse organization with supporting neural extracellular matrix remodeling.","confidence":"Medium","size":15,"edges":13,"triangles":7,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0099558","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0061743","count":4}]},{"hash":"1565763148540797098","title":"Neural development and axon organization","description":"The top GO terms concentrate on nervous system development, neurogenesis, dendrite self-avoidance, and axonal protein localization, indicating the cluster centers on neuronal development and axon patterning; a few terms about organ development are present but secondary. ","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070593","count":10},{"id":"GO:0007399","count":10},{"id":"GO:0045663","count":9},{"id":"GO:0022008","count":9},{"id":"GO:0007507","count":9}]},{"hash":"504398884621686223","title":"Neural development and signaling","description":"The top GO terms lean toward nervous system development and signaling (central nervous system development, innervation, glial cell-derived neurotrophic factor receptor signaling pathway) with some related tissue morphogenesis (glomerular basement membrane development, colon epithelial cell migration). A few terms (lipoteichoic acid biosynthetic process, choline biosynthetic process) appear to be outliers, but the dominant theme is developmental processes and neural signaling, so this label best captures the cluster\u2019s shared function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":2},{"id":"GO:0060686","count":2},{"id":"GO:0040037","count":2},{"id":"GO:0014846","count":2},{"id":"GO:0042425","count":2}]},{"hash":"615646759137790763","title":"Neural signaling and sensory ion transport","description":"The GO terms cluster around neuronal communication and sensory processing: regulation of synaptic activity, sodium ion transmembrane transport, mechanosensory behavior, detection of mechanical stimuli related to pain, and sensory perception of salty taste, plus negative regulation of neurotransmitter secretion. Together these point to functions in neural signaling and mechanosensory transduction, with ion transport at the core of synaptic activity. A few terms about water homeostasis and tracheal system clearance suggest broader organismal physiology, but the dominant theme is neuronal signaling and sensory perception mediated by ion transport.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060025","count":4},{"id":"GO:0035725","count":4},{"id":"GO:1905792","count":3},{"id":"GO:0071467","count":3},{"id":"GO:0035179","count":3}]},{"hash":"799595808776324608","title":"Calcium- and ERK-mediated signaling, secretion, and coagulation","description":"The dominant GO terms include blood coagulation, positive regulation of hormone secretion, and the ERK1/ERK2 cascade, together with release of sequestered calcium ions. This points to a core theme of calcium-activated, kinase-driven signaling that regulates secretion and coagulation. Other terms such as response to lipopolysaccharide and various transport processes appear as ancillary links within broader signaling networks, but do not contradict the central pattern.","confidence":"High","size":15,"edges":22,"triangles":9,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":6},{"id":"GO:0046887","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0051281","count":5},{"id":"GO:0032496","count":5}]},{"hash":"50441807632903077","title":"Neuronal signaling and cardiovascular regulation","description":"The top GO terms cluster around neural communication (dopamine receptor signaling, endocannabinoid signaling) and vascular/cardiac control (vasoconstriction, regulation of cardiac muscle contraction), suggesting a neurovascular signaling theme. Some terms (gastric acid secretion, cell wall catabolic process, osmotic-stress\u2013related apoptosis, IL-1\u03b2 production) are less clearly connected, likely reflecting broader annotations or multi-function proteins. Overall, the cluster points to neurovascular signaling with moderate confidence.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":14},{"id":"GO:0035106","count":14},{"id":"GO:0055117","count":14},{"id":"GO:0031649","count":14},{"id":"GO:1902239","count":14}]},{"hash":"1447218970129890720","title":"Glycoside/Glycosphingolipid Catabolism with Autophagy","description":"This cluster centers on glycoside and glycosphingolipid catabolism (including fucose and glucosylceramide metabolism) and autophagy-related processes (autophagosome organization, unfolded protein response), implying lysosome-autophagy and protein homeostasis functions. Immune regulation and host-cell entry terms suggest linked pathways but are secondary; a minority of terms on neuronal signaling may reflect annotation breadth.","confidence":"Medium","size":15,"edges":59,"triangles":114,"max_degree":14,"top_function":"mitochondrion organization","top_go_terms":[{"id":"GO:0016139","count":5},{"id":"GO:2000535","count":5},{"id":"GO:0006004","count":5},{"id":"GO:0050728","count":4},{"id":"GO:0033561","count":3}]},{"hash":"1648396400399642496","title":"Cell stress response, apoptosis, and polarity cues","description":"The top GO terms point to cellular stress responses (heat, mechanical stimulus) combined with apoptosis in specific cell types (hepatocytes, myeloid cells) and aspects of cell organization (epithelial cell polarity, cell migration). This suggests a theme where stress signaling interfaces with cell fate decisions and tissue architecture, rather than a single tight pathway. The single edge and mixed terms imply a broad, high-level functional cluster rather than a tightly connected module.","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":7},{"id":"GO:2000171","count":6},{"id":"GO:0090162","count":6},{"id":"GO:0097284","count":6},{"id":"GO:0033028","count":6}]},{"hash":"1751340915560667504","title":"Neurodevelopment, inflammation, and complement signaling","description":"GO terms here blend immune/inflammatory processes (inflammatory response; complement activation via classical and alternative pathways; membrane attack complex) with neural development (in utero embryonic development; synapse assembly; vocalization behavior) and BMP signaling regulation, plus an angiogenesis-related term. This points to a broad theme of neurodevelopment intertwined with immune signaling, rather than a single cohesive pathway. The lack of observed edges within the cluster tempers certainty, so a cautious, high-level label is warranted.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090050","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0006954","count":4},{"id":"GO:2001241","count":3},{"id":"GO:0006957","count":3}]},{"hash":"2105201480757050326","title":"Innate immune signaling and leukocyte recruitment","description":"The top GO terms point to complement activation (lectin pathway), Fc-gamma receptor signaling, leukocyte tethering/rolling, and regulation of inflammatory mediators like arachidonate, all highlighting innate immune activation and leukocyte trafficking. Some kidney development terms are present, likely reflecting tissue context or pleiotropy, but the core theme across the cluster is immune signaling and adhesion processes.","confidence":"High","size":15,"edges":39,"triangles":42,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":14},{"id":"GO:0072218","count":14},{"id":"GO:0072237","count":14},{"id":"GO:0060355","count":14},{"id":"GO:0090238","count":14}]},{"hash":"1303410144617619870","title":"Neuromodulatory signaling and cardiovascular regulation","description":"The top GO terms point to neural signaling (dopamine receptor signaling, endocannabinoid signaling) and cardiovascular regulation (vasoconstriction, cardiac contraction), with related systemic responses (histamine-induced secretion, thermogenesis, cytokine production). Some terms may be annotation noise (e.g., cell wall catabolic process), but the dominant theme is signaling across neural, vascular, and immune/homeostatic processes.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":15},{"id":"GO:0035106","count":15},{"id":"GO:0055117","count":15},{"id":"GO:0031649","count":15},{"id":"GO:1902239","count":15}]},{"hash":"1312109232559097195","title":"DNA Damage Response and Repair","description":"The top GO terms are dominated by DNA repair and damage response processes (double-strand break repair, interstrand cross-link repair, DNA damage checkpoint signaling, and maintenance of DNA repeats) and p53-mediated apoptotic signaling in response to DNA damage. Embryonic and germ cell development terms, plus gene conversion at mating-type locus, may reflect meiosis-associated genome maintenance in germ cells, but the core cluster centers on genomic integrity maintenance and damage-response pathways.","confidence":"High","size":14,"edges":27,"triangles":21,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0001701","count":5},{"id":"GO:0007281","count":4},{"id":"GO:0048304","count":4},{"id":"GO:0036297","count":4}]},{"hash":"1504544244634101120","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":54,"triangles":92,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042274","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0048026","count":2},{"id":"GO:0006260","count":2}]},{"hash":"2199843361449387838","title":"Stress response signaling and DNA repair","description":"This cluster centers on stress-related signaling pathways (PI dephosphorylation, cAMP/hormone signaling, xenobiotic response) alongside redox homeostasis and gene expression regulation, with evidence for DNA maintenance via base-excision repair and cell-cycle control (G1/S). The combination suggests a coordinated response to cellular stress that links signaling to genome maintenance and replication readiness.","confidence":"Medium","size":14,"edges":13,"triangles":7,"max_degree":5,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0046856","count":7},{"id":"GO:0042493","count":7},{"id":"GO:0045454","count":7},{"id":"GO:0071320","count":7},{"id":"GO:0007568","count":7}]},{"hash":"2021337162208032965","title":"Ovarian Hormone Signaling and Ovulation","description":"The cluster is enriched for reproductive-related GO terms, especially ovulation (GO:0001542), prostaglandin biosynthesis (GO:0001516) and the cyclooxygenase pathway (GO:0019371), and response to estradiol (GO:0032355), indicating a core theme around ovarian hormone signaling and ovulatory processes. Additional terms point to transcriptional regulation and cellular stress responses (DNA repair, necroptosis-related assembly), suggesting these pathways are active in ovarian cells during follicle development or response to hormonal cues. Taken together, the terms coalesce around ovarian function complemented by stress-response and signaling processes, supporting the chosen label as representative. ","confidence":"Medium","size":14,"edges":36,"triangles":25,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:2000774","count":3},{"id":"GO:1901026","count":3},{"id":"GO:1900425","count":3},{"id":"GO:1990414","count":3}]},{"hash":"1247121909693820237","title":"Cellular metabolism and gene expression","description":"The GO terms point to mitochondrial translation, fatty acid catabolism, cholesterol biosynthesis, ER organization, and DNA-templated transcription, with additional links to proteasomal degradation. This suggests a cluster centered on core metabolic processes and the machinery of gene expression (translation and transcription). Some terms appear as outliers (nylon catabolic process, behavioral response to cocaine), indicating a mixed set but with an overarching theme in metabolism and expression. ","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070681","count":2},{"id":"GO:0019876","count":2},{"id":"GO:0007029","count":2},{"id":"GO:0009062","count":2},{"id":"GO:0032543","count":2}]},{"hash":"2171511020487476780","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010650","count":2},{"id":"GO:1900827","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0086070","count":2},{"id":"GO:0072660","count":2}]},{"hash":"1563674993034633739","title":"RNA processing and ribosome biogenesis","description":"The cluster shows a strong signal for RNA processing and spliceosome activity (mRNA splicing via spliceosome, RNA exon ligation, generation of catalytic spliceosome, spliceosome disassembly) together with ribosome biogenesis (maturation of SSU-rRNA and mitochondrial large ribosomal subunit assembly), suggesting these proteins participate in RNA maturation and ribosome assembly. Some terms related to dosage compensation and heterochromatin are present but appear peripheral to the dominant RNA processing/ribosome biogenesis theme.","confidence":"Medium","size":14,"edges":79,"triangles":249,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":2},{"id":"GO:0040022","count":1},{"id":"GO:0016457","count":1},{"id":"GO:0000390","count":1},{"id":"GO:1902775","count":1}]},{"hash":"314356406795727768","title":"TLR\u2013NF-\u03baB\u2013mediated apoptosis","description":"This cluster is driven by GO terms linking MyD88-dependent Toll-like receptor signaling, positive regulation of NF-\u03baB, type I interferon signaling, and apoptotic processes, including activation-induced T cell death and mitochondrial membrane regulation. The dominant theme is innate immune signaling via TLRs culminating in NF-\u03baB\u2013mediated transcription and apoptosis; a few development-related terms may be incidental. ","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":2},{"id":"GO:0060340","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0006924","count":2},{"id":"GO:0043123","count":2}]},{"hash":"2245378562159198039","title":"Mitochondrial and chloroplast energy metabolism","description":"This cluster is enriched for energy-related processes across organelles (mitochondrial translation, fatty acid catabolism) and chloroplast-associated pathways (oxidative photosynthetic carbon pathway). The hypoxia response and circadian terms hint at metabolic regulation under stress and temporal control. Some terms seem noisy or obsolete, but the core theme appears to be organelle energy production and related stress responses.","confidence":"Medium","size":14,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0001666","count":4},{"id":"GO:0070681","count":3},{"id":"GO:0019876","count":3},{"id":"GO:0007029","count":3}]},{"hash":"510198179647981225","title":"Viral DNA integration and chromatin remodeling","description":"The GO terms point to DNA integration and proviral latency, along with chromatin-related processes such as nucleosome assembly and histone modification regulation, suggesting a shared theme of viral genome integration and host chromatin remodeling. Some terms appear less directly connected (developmental or signaling terms), but the strongest signal remains viral integration and chromatin dynamics.","confidence":"Medium","size":14,"edges":82,"triangles":271,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":6},{"id":"GO:0075713","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0043972","count":2},{"id":"GO:0097536","count":2}]},{"hash":"320820148084328794","title":"Nuclear RNA Export and Cell Cycle Regulators","description":"The cluster has multiple GO terms tied to nuclear export of rRNA/ribosomal subunits and mRNA, as well as transcription regulation, and cell-cycle related processes like kinetochore localization and centrosome duplication. Some terms (heart development, xenobiotic response) appear less connected, likely representing annotation noise but not contradicting the main theme.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0000056","count":3},{"id":"GO:0007507","count":2},{"id":"GO:0042176","count":2},{"id":"GO:0034501","count":2},{"id":"GO:0000055","count":2}]},{"hash":"1174238907389283183","title":"T cell signaling and NF-kB/STAT activation","description":"The cluster is dominated by GO terms tied to T cell receptor signaling, activated T cell proliferation, NF-kappaB transcription factor regulation, and STAT tyrosine phosphorylation, indicating T cell\u2013mediated immune activation and downstream signaling. The presence of innate immune response supports a broader immune-active profile, though a few terms like actin remodeling or heart development are less central. Overall, the strongest theme is adaptive immune signaling via NF-kB and STAT pathways.","confidence":"High","size":14,"edges":25,"triangles":25,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":13},{"id":"GO:0010954","count":13},{"id":"GO:0042503","count":13},{"id":"GO:0050798","count":13},{"id":"GO:0031532","count":13}]},{"hash":"669676269186922188","title":"Neural development and synaptic signaling","description":"The top GO terms point to nervous system development (ventral spinal cord development; neuroblast division) and neural signaling (regulation of NMDA receptor activity), with related roles in cytoskeletal dynamics (actin crosslink formation) and intracellular transport (endosome trafficking). This combination suggests proteins involved in neural development and synaptic regulation rather than a single, unified pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":1},{"id":"GO:0006449","count":1},{"id":"GO:0016973","count":1},{"id":"GO:2000643","count":1},{"id":"GO:0051764","count":1}]},{"hash":"1858267691539243363","title":"TLR-MyD88 NF-\u03baB inflammatory signaling","description":"The GO terms point to lipopolysaccharide signaling and MyD88-dependent TLR pathways, NF-\u03baB transcriptional regulation, and inflammatory responses (TNF production, IL-12 regulation), with links to apoptosis. This suggests a coherent innate immune signaling module where TLR activation leads to NF-\u03baB\u2013driven transcription and inflammatory responses, alongside regulation of extrinsic apoptosis.","confidence":"High","size":14,"edges":29,"triangles":26,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0031663","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0071260","count":4},{"id":"GO:0006915","count":4}]},{"hash":"1467355499171662339","title":"RNA processing and ribosome biogenesis","description":"The top GO terms are dominated by mRNA splicing via spliceosome and ribosome biogenesis, with supporting terms for ribosomal export from the nucleus and cell division. This points to a cohort of proteins involved in gene expression machinery\u2014RNA processing and ribosome assembly/export\u2014with a few additional chromatin modification signals and development annotations likely reflecting broader roles or annotation noise. Overall, a cohesive theme around RNA processing and ribosome biogenesis best explains the cluster.","confidence":"Medium","size":14,"edges":34,"triangles":25,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0043984","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000747","count":2}]},{"hash":"1520632723934444347","title":"Multitissue Development and Inflammation","description":"The top GO terms span developmental processes across multiple tissues (spleen, atrial septum, salivary gland, pyramidal neurons) along with inflammatory response and regulation of extrinsic apoptotic signaling, suggesting a cluster of proteins involved in broad developmental signaling with immune and apoptosis regulation, plus some cardiac-related signaling events (calcium-regulated contraction and SA node activity) and membrane localization. Confidence is Medium.","confidence":"","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048536","count":3},{"id":"GO:0006954","count":3},{"id":"GO:2001240","count":3},{"id":"GO:0010881","count":3},{"id":"GO:0003283","count":3}]},{"hash":"400014354687726180","title":"Embryogenesis, DNA repair, and cell cycle regulation","description":"The top GO terms cluster around embryonic development processes (gastrulation, spinal cord and male gonad development) and growth signaling, together with DNA damage repair (double-strand break repair via homologous recombination) and cell cycle control (checkpoint regulation, sister chromatid cohesion). Epigenetic regulation is hinted by histone methylation terms, suggesting chromatin-level control during development. An outlier term about viral mRNA export is present but does not define the cluster\u2019s main theme. Overall, the proteins seem linked to developmental programs coordinated with genome maintenance and cell cycle regulation.","confidence":"High","size":14,"edges":78,"triangles":233,"max_degree":13,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0000724","count":4},{"id":"GO:0008284","count":4},{"id":"GO:0008584","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0007369","count":3}]},{"hash":"1256508706312660680","title":"Retroviral Entry, Replication, and Latency","description":"This cluster\u2019s top GO terms mainly map to the retroviral life cycle: entry into the host, reverse transcription (RNA-templated DNA biosynthesis), DNA integration, and establishment of integrated proviral latency, along with DNA replication/recombination and modulation of host RNAi defenses, indicating a cohesive virus\u2013host integration/latency theme.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006260","count":12},{"id":"GO:0006310","count":12},{"id":"GO:1903704","count":11},{"id":"GO:0046718","count":11},{"id":"GO:0006278","count":11}]},{"hash":"2272976483811534422","title":"Developmental Growth and Cell Cycle Regulation","description":"This cluster shows a theme of multicellular development (male gonad, brain, osteoblast differentiation, growth) together with core cell division processes (cell division, spindle orientation). It is further linked by regulatory layers such as K11-linked ubiquitination and histone H3 acetylation, suggesting coordinated gene expression and protein turnover during development; intraciliary retrograde transport can reflect cilia-related developmental roles. Overall, the terms point to a developmental program intertwined with cell-cycle control.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0035264","count":7},{"id":"GO:0000132","count":7},{"id":"GO:0070979","count":7}]},{"hash":"595062138646220130","title":"Metanephric kidney development and immune signaling","description":"The top GO terms strongly point to nephrogenesis, with multiple entries for metanephric kidney structures (ascending limb, proximal tubule, mesonephric duct development). There are additional immune-related and stress-response terms (complement activation via lectin pathway, response to fungal molecules, NK cell chemotaxis regulation, oxidative stress-induced senescence) that suggest concurrent immune/modulatory signaling linked to development. A label emphasizing kidney development with immune involvement captures the main theme of this cluster more than a single pathway would. ","confidence":"Medium","size":14,"edges":41,"triangles":65,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071226","count":9},{"id":"GO:0001502","count":9},{"id":"GO:0001867","count":8},{"id":"GO:0072218","count":8},{"id":"GO:0072237","count":8}]},{"hash":"1395941899852534677","title":"DNA Transposition and Proviral Integration","description":"The top GO terms cluster around DNA mobility and genome integration (DNA transposition, recombination, DNA integration, proviral latency), with supportive DNA repair (base-excision repair) and regulatory processes (mRNA stability, cell cycle). This pattern suggests a functional group of proteins involved in genome rearrangement and establishment of proviral latency, possibly viral or transposon-related factors interacting with host cells. ","confidence":"High","size":14,"edges":81,"triangles":263,"max_degree":13,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006313","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0006284","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0007568","count":3}]},{"hash":"1830162899210585160","title":"Neural development and cell-cycle coordination","description":"The top GO terms cluster around CNS development and neuron migration, with strong signals for cell cycle and cell division. Additional terms point to neural signaling and general cellular maintenance (ubiquitin-mediated proteolysis via MVB sorting, rRNA processing, phagocytosis), which can be linked to neural development contexts where cell proliferation and tissue remodeling occur. Overall, the cluster seems to reflect proteins involved in neural development coupled with cell-cycle regulation, though not exclusively, hence a medium confidence label focused on the neural-development and cell-cycle axis.","confidence":"Medium","size":14,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0001764","count":2},{"id":"GO:0006911","count":2},{"id":"GO:0043162","count":2}]},{"hash":"1714678139136264673","title":"Unknown","description":"The GO terms span several unrelated cellular processes (cofactor biosynthesis for molybdenum, clustering of neurotransmitter receptors, spliceosome assembly, and vesicle trafficking), with no clear, single unifying function linking all items. The cluster likely mixes motifs from distinct cellular pathways rather than a cohesive biological role.","confidence":"","size":14,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1904431","count":2},{"id":"GO:0006777","count":1},{"id":"GO:0032324","count":1},{"id":"GO:0097112","count":1},{"id":"GO:0018315","count":1}]},{"hash":"1757468924500885149","title":"mRNA Translation Regulation & Processing","description":"The top GO terms cluster around mRNA metabolism and control of protein synthesis, including regulation of translational initiation, eIF4F complex assembly, preinitiation complex formation, translation reinitiation, stress-related mRNA stability, and miRNA-mediated translational silencing, as well as mRNA modification and splice-site recognition. This points to a cohesive group of proteins involved in both processing mRNA and regulating translation.","confidence":"High","size":14,"edges":40,"triangles":73,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":10},{"id":"GO:0006446","count":9},{"id":"GO:0016556","count":9},{"id":"GO:0097010","count":9},{"id":"GO:0006376","count":9}]},{"hash":"10010447779827601","title":"TRAIL-induced apoptosis and NF-kB regulation","description":"This cluster is dominated by apoptotic signaling terms, especially TRAIL-activated apoptotic signaling and activation-induced T cell death, with additional terms pointing to hepatocyte apoptosis. NF-kB regulation terms appear alongside, suggesting these proteins participate in death receptor\u2013mediated apoptosis coupled with NF-kB signaling. Some membrane localization terms fit with signaling at the plasma membrane, supporting a signaling-centered cluster. Overall, the main theme is TRAIL-mediated apoptosis with NF-kB involvement.","confidence":"High","size":14,"edges":13,"triangles":6,"max_degree":4,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0032088","count":5},{"id":"GO:0006924","count":3},{"id":"GO:0072661","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0051092","count":2}]},{"hash":"2235177942308829730","title":"Rho/Actin Dynamics and Cell Junctions","description":"The top GO terms cluster around Rho/small GTPase signaling and actin cytoskeleton organization, including actin filament organization, indicating cytoskeleton dynamics driven by Rho/Src pathways. Additional terms like apical junction assembly and Golgi localization point to cell polarity and vesicle trafficking processes that connect cytoskeleton remodeling with cell\u2013cell adhesion and trafficking. This combination suggests a coherent theme of cytoskeletal regulation governing cell junctions and polarity.","confidence":"High","size":14,"edges":80,"triangles":287,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0030036","count":4},{"id":"GO:0090334","count":3},{"id":"GO:0051683","count":3},{"id":"GO:0043314","count":3}]},{"hash":"1832124246649288545","title":"RNA Pol II/III Transcription Regulation","description":"Based on the top GO terms, the proteins cluster around DNA-templated transcription and regulation of transcription by RNA polymerase II, as well as RNA polymerase III preinitiation complex assembly, suggesting a cohesive group involved in transcription initiation and control. A few terms related to insulin signaling and cerebellar structure are present but less central, so the dominant theme is transcription regulation machinery.","confidence":"High","size":14,"edges":84,"triangles":288,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0006349","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0008286","count":3}]},{"hash":"1561576145991640830","title":"Retroviral entry and proviral integration","description":"The cluster\u2019s GO terms converge on steps of a retroviral life cycle\u2014reverse transcription (RNA-templated DNA biosynthesis), entry into the host nucleus, DNA integration, and establishment of proviral latency\u2014suggesting a cohesive theme of viral infection and genome integration. Some terms about symbiont entry and host apoptosis may reflect similar host-microbe interaction processes.","confidence":"Medium","size":14,"edges":30,"triangles":19,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006278","count":2},{"id":"GO:0075732","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0046718","count":2}]},{"hash":"957743543862575667","title":"NF-\u03baB signaling and ubiquitination in immune regulation","description":"The cluster is dominated by GO terms linking NF-\u03baB pathway regulation (positive regulation of NF-\u03baB activity and I\u03baB phosphorylation) with ubiquitin-related processes (protein polyubiquitination, ubiquitin-dependent ERAD, actin ubiquitination), pointing to a common theme of ubiquitin-mediated control of immune signaling pathways, including T follicular helper differentiation and antiviral transcription regulation. While a few terms touch broader cellular signaling (synaptic vesicle transport, vitamin D response), the core signal centers on NF-\u03baB regulation via ubiquitination in immune contexts.","confidence":"Medium","size":14,"edges":25,"triangles":10,"max_degree":8,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:1903721","count":6},{"id":"GO:0097039","count":6},{"id":"GO:0061470","count":6},{"id":"GO:0007026","count":6}]},{"hash":"1456884813802500794","title":"Cilium Assembly and Cell Cycle Regulation","description":"The cluster is dominated by GO terms for ciliogenesis (cilium assembly) and core cell cycle processes (mitotic cell cycle, cell division), suggesting proteins that coordinate cilia function with proliferation. Additional terms point to broader regulatory roles in GTPase signaling, Ran-mediated transport, Hippo pathway, and endosome size, implying a broader trafficking and growth-regulation context. One outlier term (tRNA wobble uridine modification) is present but does not override the main ciliogenesis/cell-cycle theme, supporting a label focused on cilium and division regulation.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0060271","count":10},{"id":"GO:0051301","count":10},{"id":"GO:1905608","count":9}]},{"hash":"1953730706348182506","title":"Motor Neuron Development and Axon Fasciculation","description":"This cluster is dominated by neural development terms, especially motor neuron differentiation and axon fasciculation, suggesting roles in motor neuron formation and axon wiring. Supporting cytoskeletal terms like actin bundle and lamellipodium assembly point to cytoskeletal remodeling needed for neurite outgrowth and pathfinding. A few embryonic development terms are present but do not override the motor neuron signal. Medium","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0021524","count":2},{"id":"GO:0097156","count":2},{"id":"GO:0014028","count":2},{"id":"GO:0060044","count":2}]},{"hash":"760717653107260415","title":"Unknown","description":"The top GO terms cover diverse processes (innate immune signaling via NOD2 and IL-12 regulation, GPCR signaling, lipid metabolism, mRNA stability, and general cell growth/cycle) with no single unifying theme, and several terms are marked obsolete, indicating no cohesive function for the cluster. ","confidence":"","size":14,"edges":12,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":9},{"id":"GO:0046475","count":8},{"id":"GO:1901594","count":8},{"id":"GO:0070431","count":8},{"id":"GO:0043488","count":8}]},{"hash":"462249642660696849","title":"Actin cytoskeleton remodeling and cell motility","description":"This cluster centers on lamellipodium and filopodium assembly, actin filament organization, and Rho GTPase signaling, pointing to actin-driven cytoskeletal remodeling and cell movement. Positive regulation of cell spreading and membrane tubulation further support protrusion and adhesion dynamics, indicating a cohesive theme of actin dynamics governing motility.","confidence":"High","size":14,"edges":86,"triangles":307,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":5},{"id":"GO:0043314","count":4},{"id":"GO:0060313","count":4},{"id":"GO:1900026","count":4},{"id":"GO:0046847","count":4}]},{"hash":"1793652091181224622","title":"Ubiquitin-Proteasome Regulation of NF-\u03baB","description":"Based on the dominant GO terms, these proteins are tied to ubiquitination processes (autoubiquitination, K6-linked ubiquitination, ubiquitin-dependent proteolysis) and to regulation of NF-\u03baB signaling (I\u03baB phosphorylation, TNF-mediated pathways). This suggests a cohesive module controlling inflammatory signaling through ubiquitin-mediated proteasomal turnover and NF-\u03baB activation, with some related chromatin remodeling connections.","confidence":"High","size":14,"edges":13,"triangles":5,"max_degree":8,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051865","count":8},{"id":"GO:1903265","count":8},{"id":"GO:0085020","count":8},{"id":"GO:0036205","count":8},{"id":"GO:0042787","count":8}]},{"hash":"1204755663507914260","title":"Skeletal muscle development and sarcomere organization","description":"The dominant GO terms point to muscle biology: sarcomere organization, skeletal muscle cell differentiation, skeletal muscle fiber development, and skeletal muscle tissue regeneration, indicating a cluster centered on muscle formation and maintenance. Ubiquitin-dependent protein catabolic process suggests turnover during remodeling, and vitamin D response aligns with muscle physiology. Some terms appear less related (e.g., plant signaling), likely annotation noise, but the core theme remains skeletal muscle development and sarcomere assembly.","confidence":"High","size":14,"edges":37,"triangles":28,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0035914","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0009742","count":3}]},{"hash":"837853090947845579","title":"Unknown","description":"The cluster\u2019s top GO terms are highly heterogeneous, spanning DNA integration, sarcomere organization, regulation of T cell proliferation, proviral latency, mRNA processing, cell delamination, trophoblast migration, and tracheal development. There is no single, coherent biological theme that ties these terms together, suggesting either functionally diverse proteins or broad, non-specific annotations. Because of this lack of a unifying function, a concise, concrete label is not appropriate.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0045214","count":2},{"id":"GO:0046007","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0006397","count":2}]},{"hash":"1458849892206594706","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":38,"triangles":38,"max_degree":10,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006281","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0070671","count":3}]},{"hash":"1043218620921979407","title":"Mitotic Spindle and Cell Division","description":"This cluster is dominated by mitotic and microtubule-related functions: mitotic spindle pole body duplication, microtubule nucleation, cell cycle progression, and mitotic cytokinesis. A few terms about neuronal differentiation and interleukin-4 response appear, but the core signal is assembly and segregation of chromosomes during cell division.","confidence":"High","size":14,"edges":42,"triangles":61,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:1903087","count":7},{"id":"GO:0007049","count":7},{"id":"GO:0007020","count":7},{"id":"GO:0051301","count":7},{"id":"GO:1905792","count":6}]},{"hash":"367128609948987666","title":"Ubiquitination-regulated NF-kB and T cell signaling","description":"The set centers on ubiquitination processes (polyubiquitination, ubiquitin-dependent ERAD, actin ubiquitination) and NF-kB pathway control (I-kappaB phosphorylation, NF-kappaB activity) as well as T cell\u2013related functions (negative regulation of T cell proliferation, T follicular helper cell differentiation). This suggests a cohesive theme where ubiquitin signaling modulates NF-kB\u2013mediated immune responses and T cell differentiation, with some additional cytoskeletal transport aspects that may reflect related regulatory layers.","confidence":"High","size":14,"edges":24,"triangles":10,"max_degree":10,"top_function":"autophagy","top_go_terms":[{"id":"GO:0046007","count":13},{"id":"GO:0051092","count":12},{"id":"GO:1903721","count":12},{"id":"GO:0097039","count":12},{"id":"GO:0061470","count":12}]},{"hash":"311197183991722910","title":"DNA Damage Response and Repair","description":"The top GO terms cluster around genome maintenance: nonhomologous end joining, double-strand break repair, ligase activity regulation, and telomere-related protection, with an additional signal of response to X-ray. While there are a few development-related terms (heart/kidney morphogenesis), the predominant theme is DNA damage response and repair. ","confidence":"Medium","size":14,"edges":14,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0072218","count":2},{"id":"GO:0061819","count":1},{"id":"GO:0051351","count":1},{"id":"GO:0051103","count":1},{"id":"GO:0010165","count":1}]},{"hash":"996889151441152232","title":"Neuronal mitochondrial dynamics and trafficking","description":"The top GO terms cluster around mitochondrial inheritance and intracellular distribution, strongly pointing to mitochondrial dynamics. Added terms for GABAergic synaptic transmission and locomotory behavior (substantia nigra development) suggest neuronal function and development, while endocytic recycling and Golgi retention reflect broader trafficking context within neurons. Taken together, the dominant theme is mitochondrial trafficking/dynamics in neurons with related developmental and behavioral roles.","confidence":"Medium","size":14,"edges":9,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":3},{"id":"GO:0051932","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0048312","count":3},{"id":"GO:0032456","count":3}]},{"hash":"1160428832976867983","title":"Innate Immunity and Pyroptotic Cell Death","description":"The cluster is dominated by terms for innate immune response, pyroptotic inflammatory response, and apoptotic process, with ubiquitination and related regulatory processes, suggesting a cohesive role in host defense signaling and inflammatory cell death; some terms are obsolete, but the core theme remains immune activation and cell death pathways.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":13},{"id":"GO:0016567","count":13},{"id":"GO:1990001","count":13},{"id":"GO:0090307","count":13},{"id":"GO:0070269","count":13}]},{"hash":"1035931697982701150","title":"Plant stress responses and cell cycle regulation","description":"These proteins consistently map to plant stress responses (cadmium/salt stress, hypersensitive response) and to regulation of the mitotic cell cycle via ubiquitin-protein ligase activity, implying a coordinated plant stress signaling and cell cycle control cluster.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":14},{"id":"GO:0051437","count":14},{"id":"GO:0061418","count":14},{"id":"GO:0006521","count":14},{"id":"GO:0043488","count":14}]},{"hash":"718033388617695359","title":"GPCR Signaling Regulators","description":"The dominant GO terms point to GPCR-driven signal transduction and its regulation (ERK cascade modulation, GPCR internalization, phototransduction, and adenylate cyclase signaling), with ubiquitination as a common regulator of signaling; other terms fit within broader signaling regulation contexts. This suggests the cluster reflects regulators of GPCR signaling pathways.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0048709","count":2}]},{"hash":"1175687839898247053","title":"Actin Cytoskeleton Remodeling and Signaling","description":"The top GO term is actin filament bundle assembly, implying cytoskeletal roles, while accompanying terms point to diverse signaling pathways (GPCR signaling, NOD2, IL-12 regulation), cell cycle, and RNA stability. This suggests a cluster of proteins involved in cytoskeletal dynamics linked to broader signaling and regulatory processes.","confidence":"Medium","size":14,"edges":16,"triangles":2,"max_degree":5,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0051017","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0046475","count":5},{"id":"GO:1901594","count":5},{"id":"GO:0070431","count":5}]},{"hash":"188948860942459664","title":"Integrin-Mediated Adhesion and ECM Remodeling","description":"The top GO terms coalesce around cell adhesion to the extracellular matrix, integrin signaling, and processes that drive cell migration and matrix remodeling (e.g., substrate-dependent migration, hyaluronan metabolism, and metallopeptidase activity). Although a couple terms relate to tissue-specific contexts (dendrite regeneration, stamen formation), the prevailing theme is adhesion-mediated signaling guiding attachment, movement, and ECM turnover. This makes the label a representative and specific summary of the cluster\u2019s core functions.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007161","count":2},{"id":"GO:0034113","count":2},{"id":"GO:0031104","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0006929","count":2}]},{"hash":"429004526904410546","title":"Unknown","description":"The GO terms among the 14 proteins cover translation regulation, metabolism, diverse developmental events (seed morphogenesis, heart and pancreatic cell development, ectoderm formation, nephron differentiation) and even fungal cell wall synthesis, across different organisms. There is no coherent shared function or pathway tying these terms together, so a single interpretable label is not possible.","confidence":"","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006450","count":1},{"id":"GO:0006530","count":1},{"id":"GO:0048317","count":1},{"id":"GO:0055011","count":1},{"id":"GO:0001705","count":1}]},{"hash":"558065198730031946","title":"Sterol Biosynthesis and Lipid Transport","description":"The cluster is dominated by sterol-related biosynthetic terms (ergosterol, cholesterol, brassinosteroid) and lipid transport (retinol and vitamin transport; phosphatidylserine biosynthesis), indicating a cohesive focus on lipid metabolism. A few peripheral terms (defense response to fungus, apoptotic processes, ectodermal/fate determination, T cell regulation) may reflect broader annotation noise or cross-species annotations, but do not override the lipid/metabolic theme.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006696","count":2},{"id":"GO:0016132","count":1},{"id":"GO:0050832","count":1},{"id":"GO:0006695","count":1},{"id":"GO:0033081","count":1}]},{"hash":"223597193983162304","title":"Neurodevelopment and Epigenetic Regulation","description":"The top terms point to neuronal development (neuron projection development, neuron maturation, gastrulation) coupled with epigenetic regulation (chromatin binding, histone methylation regulation, 2-oxoglutarate\u2013dependent processes). Although a few terms are metabolism or other developmental cues, the strongest signal is the combination of neurodevelopment and chromatin-based control, suggesting a cluster of proteins involved in guiding neuron formation through epigenetic regulation.","confidence":"Medium","size":14,"edges":48,"triangles":84,"max_degree":12,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0043046","count":12},{"id":"GO:0009228","count":12},{"id":"GO:0051573","count":11},{"id":"GO:0046886","count":11},{"id":"GO:0007369","count":11}]},{"hash":"347214465925429472","title":"Reproductive and Germ Cell Development","description":"This cluster centers on GO terms related to reproductive tissue development and germ cell processes, including uterus and placenta development, germ cell migration, oocyte growth, spermatogenesis, and female meiosis chromosome segregation, suggesting a common theme of germline and reproductive system development. Some terms (inner ear development, mRNA deadenylation, synaptic regulation) are less directly related, indicating broader or mixed roles for these proteins; overall, the core theme appears reproductive/germ cell related, with a few outliers. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0001890","count":2},{"id":"GO:0008354","count":1}]},{"hash":"1245311771304426347","title":"Platelet and vascular signaling","description":"The proteins clustered here are dominated by platelet activation, regulation of vasoconstriction, endothelial cell migration, calcium release, and ERK signaling, indicating a shared role in platelet-driven vascular responses and hemostasis. A secondary presence of adaptive immune terms suggests broader vascular-immune interactions, but the core theme remains platelet- and vessel-focused signaling.","confidence":"High","size":14,"edges":7,"triangles":1,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0045907","count":5},{"id":"GO:0030168","count":5},{"id":"GO:0051209","count":4},{"id":"GO:0043278","count":4}]},{"hash":"1210205440108463252","title":"Neural signaling, sensory development, and circadian regulation","description":"The terms cluster around nervous system signaling and sensory maturation\u2014transmission of nerve impulses, norepinephrine regulation, sensory processing, and cochlea development\u2014with extensions into neuroendocrine control of rhythms (circadian and ovulation). The inclusion of walking behavior and skeletal muscle growth suggests neuromuscular development, while ethanol response and amyloid-beta regulation point to neural stress or disease-related processes. Overall, the dominant theme is neural-sensory development with circadian regulation.","confidence":"High","size":14,"edges":37,"triangles":84,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0071361","count":9},{"id":"GO:1902004","count":9},{"id":"GO:0045188","count":9},{"id":"GO:0060112","count":9},{"id":"GO:0007628","count":9}]},{"hash":"687443604851560970","title":"Oxidative stress response and immune signaling proteins","description":"Most top GO terms point to cellular responses to stress (oxidative stress, protein repair/modification) and immune signaling (complement activation, apoptotic pathways). While a few terms relate to development or neural traits (retina morphogenesis, vocalization), the dominant theme across the cluster is stress-induced modification/repair and activation of innate immune pathways, with some associated signaling components.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060059","count":3},{"id":"GO:0070207","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0030091","count":2},{"id":"GO:0006979","count":2}]},{"hash":"2106438313689622177","title":"Isoprenoid metabolism and cofactor turnover","description":"The cluster shows strong signals for isoprenoid biosynthesis: IPP/DMAPP and farnesyl diphosphate biosynthetic processes, which point to terpenoid metabolism as a core theme. Additionally, several catabolic processes for cofactors (NAD+, CoA) and nucleotides (diadenosine pentaphosphate) suggest broader turnover of energy-related molecules. Some terms like DNA repair and snoRNA catabolism are less directly connected but do not outweigh the dominant metabolite-processing pattern. Overall, the label reflects the primary functional axis of the cluster.","confidence":"Medium","size":14,"edges":72,"triangles":197,"max_degree":13,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071544","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0046709","count":3},{"id":"GO:0045337","count":3},{"id":"GO:0050992","count":3}]},{"hash":"2181602875050192399","title":"Unknown","description":"The terms cover signaling (ERBB2, calcium), metabolism (glucose), development (dendrite extension), plant physiology (stomatal closure), cell-cycle processes (nuclear membrane reassembly), and immune regulation, with several items marked obsolete and no clear common pathway. This suggests a heterogeneous or noisy set rather than a cohesive function, so a single representative label isn\u2019t justifiable.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038128","count":1},{"id":"GO:0071277","count":1},{"id":"GO:0060548","count":1},{"id":"GO:1903861","count":1},{"id":"GO:0090332","count":1}]},{"hash":"1845811584164948118","title":"Neural development and myelination","description":"This cluster centers on CNS development and connectivity, highlighted by terms for corpus callosum development, myelination, and synapse assembly, with an additional CNS immune component (innate immune response). The mix of neural development, synaptic maturation, and myelin-related processes suggests a cohesive CNS-focused theme, though some terms are obsolete and direct interactions aren\u2019t evident from the edges, so the confidence is Medium.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902948","count":2},{"id":"GO:1902997","count":2},{"id":"GO:1902771","count":2},{"id":"GO:1902955","count":2},{"id":"GO:1902960","count":2}]},{"hash":"1263264254740229727","title":"ER stress-induced mitochondrial apoptosis","description":"The top GO terms cluster around mitochondrial function and stress- and apoptosis-related processes: intrinsic apoptotic signaling in response to ER stress, regulation of mitochondrial membrane potential and permeability, glutathione catabolism (redox balance), and ubiquinone biosynthesis (mitochondrial electron transport). A couple of terms about development (face morphogenesis, mammary duct growth) may be incidental. Overall, the dominant theme is mitochondria-mediated responses to cellular stress leading to apoptosis, justifying the name.","confidence":"Medium","size":14,"edges":17,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006751","count":2},{"id":"GO:0045746","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0006744","count":1},{"id":"GO:0010940","count":1}]},{"hash":"560274136284063279","title":"Cytoskeletal dynamics and mechanical signaling","description":"Most terms cluster around actin filament bundle assembly, cellular response to mechanical stimulus, spindle assembly, and related protein localization, pointing to cytoskeletal remodeling and mechanotransduction as the unifying theme. Some terms (NOD2 signaling, SA node-related terms, and obsolete transcription term) appear as less representative outliers. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000083","count":7},{"id":"GO:0000209","count":5},{"id":"GO:0070431","count":4},{"id":"GO:0098907","count":4},{"id":"GO:0051017","count":4}]},{"hash":"105696248145801567","title":"Neuronal development and migration","description":"This cluster is dominated by GO terms tied to neural development and cortical/hippocampal organization, including hippocampus development, layer formation in the cerebral cortex, neuron migration, dendrite development, and ephrin signaling (axonal guidance). While there are apoptotic signaling terms (intrinsic/extrinsic) and other outliers (e.g., DNA integration), the strongest common theme is neuronal development and maturation. Confidence: High","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048013","count":2},{"id":"GO:0071158","count":2},{"id":"GO:0070059","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0021819","count":2}]},{"hash":"604792941334123091","title":"Unknown","description":"The top terms include potassium ion transmembrane transport, oligodendrocyte differentiation, cellular responses to amino acid and mechanical stimuli, microtubule nucleation and organization, DNA-templated transcription, and a clozapine response. The functions are too diverse to reveal a single cohesive theme linking all proteins, so a specific, representative label cannot be confidently assigned. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":2},{"id":"GO:0048709","count":2},{"id":"GO:0071230","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0007020","count":1}]},{"hash":"767413917781826986","title":"NF-kappaB\u2013driven cytokine production and neutrophil recruitment","description":"The frequent GO terms point to inflammatory signaling: positive regulation of chemokine and interleukin-1 pathways, cytokine production in immune response, and neutrophil extravasation. Together they indicate a cluster centered on NF-kappaB\u2013dependent cytokine signaling and neutrophil recruitment, with a few unrelated terms likely contributing noise.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0090197","count":2},{"id":"GO:2000661","count":2},{"id":"GO:0002374","count":2},{"id":"GO:2000391","count":2}]},{"hash":"540607687922860158","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0018146","count":6},{"id":"GO:0048702","count":5},{"id":"GO:0006068","count":5},{"id":"GO:0009812","count":5},{"id":"GO:0030205","count":5}]},{"hash":"197903041752483906","title":"Axon guidance and neural development","description":"The dominant GO terms cluster around neural development, axon guidance, nerve projection, and synapse formation, including axonal fasciculation, sympathetic neuron projection guidance/extension, neural crest migration, and semaphorin-plexin signaling, suggesting a cohesive neural-development function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007413","count":7},{"id":"GO:0090197","count":6},{"id":"GO:0014068","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0001501","count":6}]},{"hash":"1927013545051242024","title":"Unknown","description":"The terms are highly heterogeneous (ion and chemical stimulus responses, signaling regulation, adhesion, metabolism, and development) with no clear, single function tying the proteins together; there isn't a cohesive theme to support a specific label.","confidence":"","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:2000469","count":14},{"id":"GO:0032930","count":14},{"id":"GO:0071285","count":14},{"id":"GO:0010804","count":14},{"id":"GO:0010044","count":14}]},{"hash":"1037684800624449949","title":"Coagulation and fibrinolysis with complement activation","description":"This cluster is dominated by GO terms for activating and regulating the coagulation cascade (classical and lectin pathways, Factor XII), regulating fibrinogen levels, and promoting plasminogen activation and fibrinolysis, pointing to a cohesive coagulation/fibrinolysis module. The presence of complement activation terms and a lipopolysaccharide response suggests immune-coagulation cross-talk, common in inflammatory settings.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":12},{"id":"GO:0006958","count":12},{"id":"GO:0044537","count":11},{"id":"GO:0030194","count":11},{"id":"GO:0031639","count":11}]},{"hash":"1467896784837760743","title":"Inflammation and vascular regulation","description":"Top GO terms are dominated by inflammatory response, blood coagulation, and response to lipopolysaccharide, along with regulation of vascular tone (vasoconstriction and smooth muscle contraction). Pain perception also features, consistent with inflammatory signaling. A subset of terms relates to mammary, lung, and kidney tissue development and synapse assembly, which may reflect broader roles in tissue remodeling during inflammation. Overall, the cluster appears to reflect inflammatory and vascular-regulatory processes, with possible secondary developmental context.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":10},{"id":"GO:0007596","count":9},{"id":"GO:0032496","count":9},{"id":"GO:0045907","count":9},{"id":"GO:0045986","count":9}]},{"hash":"723794252872085500","title":"Plant Cell Wall Biosynthesis and Remodeling","description":"Top terms indicate strong enrichment for rhamnogalacturonan II biosynthesis and cell wall organization, plus root hair cell development, pointing to roles in plant cell wall formation and remodeling. Other terms suggest broader plant metabolism (stilbene and chlorophyll catabolism, P450 pathways), but the dominant signal centers on cell wall\u2013related processes, making this label a reasonable, specific cluster description.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010306","count":2},{"id":"GO:0071555","count":2},{"id":"GO:0080147","count":2},{"id":"GO:0019373","count":2},{"id":"GO:0046839","count":2}]},{"hash":"1512823049127498812","title":"Unknown","description":"Top terms are highly heterogeneous, spanning molting/cuticle formation, multiple complement pathways, neural development (Purkinje cell layer, synapse maturation), embryonic development, fertilization, and PKC signaling regulation. There is no single shared function or pathway tying these proteins together, and the edge structure shows no internal connectivity to support a cohesive label. Therefore, this cluster is Unknown with no representative function.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018996","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0021680","count":3},{"id":"GO:0090036","count":3},{"id":"GO:0007338","count":3}]},{"hash":"1408481931616829605","title":"Heart development and angiogenesis signaling","description":"This cluster centers on cardiovascular development and related signaling pathways, with strong representations of heart development, angiogenesis, and ERK1/2 cascade regulation, alongside associated processes like smooth muscle proliferation and myoblast differentiation, suggesting a cohesive role in heart and vascular development signaling.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0051092","count":3},{"id":"GO:0045663","count":3}]},{"hash":"236144727962465476","title":"Neural development and NMDA receptor\u2013regulated synapses","description":"This cluster is dominated by GO terms tied to neural development (cerebral cortex migration, spinal cord development/patterning, neuron migration) and synaptic maturation, including dendritic spine morphogenesis, NMDA receptor clustering, and regulation of NMDA receptor activity, as well as glutamatergic synaptic transmission. The common theme is assembly and regulation of glutamatergic synapses during neural development.","confidence":"High","size":14,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0061003","count":4},{"id":"GO:0021800","count":3},{"id":"GO:0021517","count":3},{"id":"GO:2000310","count":3},{"id":"GO:0048265","count":3}]},{"hash":"144166779930217629","title":"Zinc transport and homeostasis","description":"The cluster\u2019s terms are heavily dominated by zinc-related processes: intracellular zinc ion homeostasis, zinc ion import across membranes, detoxification of zinc, and cellular responses to zinc ion fluctuations, plus cadmium ion transport (a related metal). A few terms (dolichol-linked oligosaccharide biosynthesis and limb development) appear ancillary or incidental. Overall, the recurring zinc transport and homeostasis signals best describe this group.","confidence":"Medium","size":14,"edges":8,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006488","count":2},{"id":"GO:0006882","count":1},{"id":"GO:0070574","count":1},{"id":"GO:0034224","count":1},{"id":"GO:0006830","count":1}]},{"hash":"1559152717027680438","title":"Transmembrane Nutrient and Ion Transport","description":"Based on the GO terms, the cluster is dominated by transmembrane transport activities for a variety of substrates (galactose, riboflavin, vitamins, phosphate, potassium, nitrate, 4-hydroxyphenylacetate) and nitrate assimilation, indicating a group of transporter proteins that move nutrients and ions across membranes. A few outlier terms (sensory perception of sound, cellular response to heat) are present but do not define the core theme. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0034605","count":2},{"id":"GO:0032218","count":2},{"id":"GO:0015757","count":2}]},{"hash":"726215611425596781","title":"Transmembrane Solute Transport","description":"This cluster is dominated by diverse transmembrane transport GO terms for many substrates (galactose, vitamins, phenylacetate, phosphates, ions, nitrate/nitrite, sialic acid, xenobiotics) plus related metabolic context, indicating a cohesive theme of solute movement across membranes. The broad, substrate-spanning transport signature suggests a set of membrane transporters or related activities rather than a single substrate, supporting the label.","confidence":"High","size":14,"edges":90,"triangles":352,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":14},{"id":"GO:0035461","count":14},{"id":"GO:1900754","count":14},{"id":"GO:0035435","count":14},{"id":"GO:0071805","count":14}]},{"hash":"2034608186386538390","title":"Diverse Transmembrane Transporters","description":"The top GO terms are heavily focused on transmembrane transport across a wide array of substrates (sugars, vitamins, ions, metabolites, and xenobiotics), indicating this cluster represents membrane transporter proteins with broad substrate specificity. The presence of transport-related terms alongside metabolism (fucose metabolic process) reinforces a transport-metabolism module, while the network metrics (Edges and Triangles) suggest a tightly interconnected transporter group. Therefore, a concise label capturing broad transporter function is most representative.","confidence":"High","size":14,"edges":76,"triangles":211,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":14},{"id":"GO:0035461","count":14},{"id":"GO:1900754","count":14},{"id":"GO:0035435","count":14},{"id":"GO:0071805","count":14}]},{"hash":"2042459189318556687","title":"Broad Substrate Transmembrane Transport","description":"The top GO terms indicate transmembrane transport for a wide range of substrates (galactose, vitamins, ions, nitrite/nitrate, sialic acid, xenobiotics) and a related carbohydrate metabolism process. This points to a cluster of membrane transporters with broad substrate specificity rather than a single substrate, making \"Broad Substrate Transmembrane Transport\" a concise and representative label.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":14},{"id":"GO:0035461","count":14},{"id":"GO:1900754","count":14},{"id":"GO:0035435","count":14},{"id":"GO:0071805","count":14}]},{"hash":"18685970381084371","title":"Neurovascular signaling","description":"This cluster centers on signaling pathways that coordinate neural activity and autonomic/vascular functions, as seen in dopamine receptor and endocannabinoid signaling, operant conditioning, and regulation of cardiac muscle contraction and vasoconstriction. Additional terms like histamine-induced gastric secretion and heat generation fit into broader physiological signaling. An outlier term about cell wall catabolic process introduces some noise, but the dominant theme is neurovascular signaling. ","confidence":"Medium","size":14,"edges":33,"triangles":22,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":14},{"id":"GO:0035106","count":14},{"id":"GO:0055117","count":14},{"id":"GO:0031649","count":14},{"id":"GO:1902239","count":14}]},{"hash":"1700874661060701216","title":"Planar polarity and neural axon guidance","description":"The top GO terms cluster around planar polarity establishment, hair orientation, and cell adhesion, plus multiple axon guidance terms for dopaminergic and serotonergic neurons, as well as branching morphogenesis in the lung. This points to a cohesive theme of proteins involved in planar polarity signaling and guidance of neural and organ morphogenesis, with synapse assembly as a downstream process. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090251","count":7},{"id":"GO:0048105","count":7},{"id":"GO:0007156","count":7},{"id":"GO:0051965","count":7},{"id":"GO:1904938","count":7}]},{"hash":"893836399469799069","title":"Mitosis and Chromosome Segregation","description":"The cluster is strongly enriched for mitotic and chromosome-dynamics terms such as cell division, mitotic sister chromatid cohesion, segregation, and microtubule severing, indicating a core association with mitotic machinery. Additional terms cover broader nuclear processes (DNA-templated transcription) and ribosome biogenesis, which may reflect housekeeping functions in proliferating cells rather than core mitotic roles.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0051301","count":6},{"id":"GO:0007064","count":5},{"id":"GO:0051013","count":5},{"id":"GO:0002188","count":5}]},{"hash":"991928754117359276","title":"Cell signaling and developmental regulation","description":"The GO terms in this cluster span multiple signaling pathways (TGF-beta, IL-2, serotonin, cAMP), developmental processes (oocyte and retinal cone development), and cell-state transitions (DNA replication and cell division), suggesting a broad regulatory role in signaling that influences development across tissues. While there are also xenobiotic response terms, the common thread appears to be regulation of signaling and developmental processes rather than a single enzymatic function. Therefore the label focuses on the cluster\u2019s core theme of signaling and developmental regulation.","confidence":"Medium","size":13,"edges":38,"triangles":39,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0035690","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0060282","count":3},{"id":"GO:0055119","count":3}]},{"hash":"1196791782589174351","title":"Actin Remodeling and Neuronal Morphogenesis","description":"The cluster is dominated by GO terms for actin cytoskeleton organization, actin filament polymerization, lamellipodium assembly, and dendritic spine morphogenesis, with Rac signaling also prominent. This points to a shared function of dynamic actin remodeling driving neuronal shape changes, spine formation, and membrane ruffle activity; neural development terms like floor plate and oligodendrocyte development fit within the broader neural context but do not override the core actin remodeling theme.","confidence":"High","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030036","count":5},{"id":"GO:0030041","count":5},{"id":"GO:0060997","count":5},{"id":"GO:0030032","count":5},{"id":"GO:0033504","count":4}]},{"hash":"1535950325491117014","title":"Unknown","description":"The top GO terms span diverse processes\u2014neural precursor proliferation, innate immunity, proteasome assembly, signaling regulation, lipid mediator secretion, and melanin biosynthesis\u2014without a clear, shared function or pathway linking the cluster\u2019s proteins. This heterogeneity makes a cohesive single-label assignment unlikely.","confidence":"","size":13,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021930","count":1},{"id":"GO:0080129","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0070207","count":1},{"id":"GO:0010629","count":1}]},{"hash":"672083382397027002","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":61,"triangles":149,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006278","count":2},{"id":"GO:0075732","count":2},{"id":"GO:1903704","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0075713","count":2}]},{"hash":"944072053597909468","title":"Chromatin modification and developmental transcription regulation","description":"The cluster features histone H3 methylation terms (K79, K4, K27) alongside DNA-templated transcription and developmental processes (spinal cord development, gastrulation, male gonad development), suggesting a core function in chromatin-mediated control of gene expression during development. Additional terms for chromatid cohesion and homologous recombination hint at broader chromosomal maintenance roles typical of chromatin regulators. Despite some obsolete GO terms, the overarching theme is epigenetic regulation related to development, supporting this label with Medium confidence.","confidence":"Medium","size":13,"edges":28,"triangles":25,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034729","count":11},{"id":"GO:0043547","count":11},{"id":"GO:0006351","count":11},{"id":"GO:0051568","count":11},{"id":"GO:0008584","count":10}]},{"hash":"1446348590089851753","title":"Plant Photosynthesis and Primary Metabolism","description":"The cluster\u2019s top GO terms are dominated by plant-centric metabolic and energy-related processes, including oxidative photosynthetic carbon pathway, photorespiration, isoprenoid biosynthesis, fatty acid alpha-oxidation, and purine nucleobase metabolism, suggesting proteins involved in core plant metabolism and photosynthetic pathways. A couple of terms like retina development and lymphocyte proliferation appear as outliers, likely due to cross-species annotations and not representative of the cluster\u2019s core function. Overall, the data point to a plant metabolism-focused cluster rather than a non-specific mix, yielding a medium level of confidence.","confidence":"Medium","size":13,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0009854","count":6},{"id":"GO:0018924","count":6},{"id":"GO:0006144","count":6},{"id":"GO:0019516","count":6},{"id":"GO:0046651","count":6}]},{"hash":"579753263795047980","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":10},{"id":"GO:0000390","count":9},{"id":"GO:1903241","count":9},{"id":"GO:0071038","count":9},{"id":"GO:0016973","count":9}]},{"hash":"1162170114821364661","title":"Spliceosome-driven mRNA processing and export","description":"The proteins are enriched for spliceosome-mediated splicing (cis and alternative), mRNA export, and post-transcriptional regulation (translation initiation, siRNA/ncRNA\u2013mediated silencing), suggesting a cohesive module of mRNA processing and export governed by the spliceosome.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:1900363","count":4},{"id":"GO:0045292","count":4},{"id":"GO:0006406","count":4},{"id":"GO:0006446","count":3},{"id":"GO:0031047","count":3}]},{"hash":"1495543322281448639","title":"Mitochondrial Apoptosis Regulation","description":"The cluster is dominated by GO terms about apoptosis and regulation of mitochondrial membrane permeability, indicating a shared role in controlling programmed cell death via mitochondrial pathways. While a few terms touch on embryonic development or immune signaling, the strongest signal remains mitochondrial-mediated apoptotic regulation.","confidence":"High","size":13,"edges":27,"triangles":21,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1902108","count":2},{"id":"GO:0046011","count":2},{"id":"GO:0007427","count":2},{"id":"GO:0035289","count":2},{"id":"GO:0006915","count":2}]},{"hash":"2131394075248759112","title":"DNA replication and RNA processing","description":"This cluster strongly groups proteins involved in both DNA replication/damage response (DNA replication, viral genome replication, SOS response) and RNA metabolism (prespliceosome assembly, spliceosome dynamics, tRNA surveillance, mRNA export). The convergence of splicing machinery and RNA quality control with replication-related terms suggests a coordinated nucleic acid metabolism module, not a single isolated pathway.","confidence":"High","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":13},{"id":"GO:0019079","count":13},{"id":"GO:0009432","count":13},{"id":"GO:0000390","count":12},{"id":"GO:1900050","count":12}]},{"hash":"2092628156680647303","title":"Innate Immunity and Cell Death via Ubiquitination","description":"The cluster is dominated by GO terms for innate immune response, pyroptosis, and apoptosis, all tied to ubiquitin-mediated regulation, suggesting a cohesive module linking immune signaling with programmed cell death and post-translational control. The occasional developmental terms are likely incidental. ","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":11},{"id":"GO:0045087","count":10},{"id":"GO:0016567","count":10},{"id":"GO:0070269","count":10},{"id":"GO:1990001","count":10}]},{"hash":"675974518102272870","title":"Chromatin Remodeling and Transcription Regulation","description":"Top GO terms indicate a core focus on DNA-templated transcription, chromatin remodeling, and NF-kappaB signaling, with additional links to DNA replication, mRNA stabilization, and development/immune processes. This suggests a cluster of proteins involved in regulating gene expression through chromatin dynamics, with concurrent ties to immune signaling and developmental pathways.","confidence":"Medium","size":13,"edges":21,"triangles":11,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0051092","count":4},{"id":"GO:0070934","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0043044","count":3}]},{"hash":"836760822034301750","title":"Collagen ECM remodeling and angiogenesis","description":"This cluster centers on collagen fibril organization and sprouting angiogenesis, signaling extracellular matrix remodeling and blood vessel growth. Other terms (endocytosis, innate immunity, plasminogen regulation, and pregnancy) suggest supporting processes in tissue remodeling and reproductive contexts, reinforcing the ECM-angiogenesis theme.","confidence":"Medium","size":13,"edges":25,"triangles":20,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0002040","count":4},{"id":"GO:0006898","count":4},{"id":"GO:0007565","count":4},{"id":"GO:0010756","count":3}]},{"hash":"1171685148307333724","title":"Unknown","description":"The top GO terms span stress/protein quality control (unfolded protein response, regulation of inclusion body assembly), nuclear localization, membrane targeting, iron-sulfur cluster assembly, and even DNA replication or karyogamy. They do not point to a single cohesive function or common pathway for this protein set, making a specific, representative label unreliable. Therefore, I cannot assign a meaningful cluster name beyond Unknown.","confidence":"","size":13,"edges":30,"triangles":42,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042517","count":1},{"id":"GO:0051457","count":1},{"id":"GO:0090084","count":1},{"id":"GO:0006880","count":1},{"id":"GO:0031204","count":1}]},{"hash":"51592411268635765","title":"Immune Activation and Drug Response","description":"This cluster is enriched for immune-related GO terms, including T cell receptor signaling, positive regulation of interferon production, and responses to antineoplastic agents, suggesting a core theme of immune activation with drug/chemical response. A few terms related to development or cell adhesion appear, but the dominant signal ties to immune signaling and xenobiotic/drug response.","confidence":"Medium","size":13,"edges":48,"triangles":81,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":11},{"id":"GO:0010738","count":11},{"id":"GO:1903206","count":11},{"id":"GO:0035690","count":11},{"id":"GO:0032729","count":11}]},{"hash":"245920284089779355","title":"Neural and Sensory System Development","description":"Top GO terms indicate neural and sensory development, including CNS development, retinal ganglion cell axon guidance, and axonogenesis, as well as semicircular canal morphogenesis and related behaviors. While some terms (heart development, formaldehyde catabolic process) are less central, the strongest signal centers on neural and sensory system formation and axon pathfinding, justifying a neural/sensory development label.","confidence":"Medium","size":13,"edges":10,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046294","count":3},{"id":"GO:0050772","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007417","count":3},{"id":"GO:0031290","count":3}]},{"hash":"842170903333286222","title":"RNA and protein methyltransferases","description":"This cluster is dominated by GO terms for methylation activities across both RNA (tRNA, rRNA, guanine-N7, wobble uridine) and proteins (peptidyl-arginine/lysine dimethylation), with additional contextual links to biosynthetic methyltransferases in cobalamin and antibiotic biosynthesis. The shared function appears to be methyltransferase-driven modification of nucleic acids and proteins.","confidence":"High","size":13,"edges":42,"triangles":58,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0019919","count":5},{"id":"GO:0030488","count":5},{"id":"GO:0009236","count":5},{"id":"GO:0017000","count":4},{"id":"GO:0036265","count":4}]},{"hash":"34920945782765910","title":"Ribosome biogenesis and translation","description":"The cluster shows strong enrichment for translation-related GO terms (including general translation and mitochondrial translation) and ribosomal large subunit biogenesis, with additional signals for transcription elongation regulation. This points to a cohesive theme around protein synthesis machinery and ribosome assembly, with some associated transcriptional processes, but the dominant function is ribosome biogenesis and translation.","confidence":"High","size":13,"edges":68,"triangles":213,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0032543","count":1},{"id":"GO:0031564","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0006354","count":1}]},{"hash":"1799826324618987856","title":"Organ Development and Neurovascular Barrier Establishment","description":"This cluster is driven by strong organogenesis signals (liver, brain, skeletal development) and a specific emphasis on establishing the endothelial blood-brain barrier, complemented by vesicle trafficking and signaling processes (ER-Golgi transport, GTPase regulation) typical of developing tissues and neurovascular interfaces.","confidence":"High","size":13,"edges":42,"triangles":88,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":12},{"id":"GO:0010255","count":9},{"id":"GO:0007420","count":9},{"id":"GO:0051301","count":9},{"id":"GO:0043547","count":9}]},{"hash":"1257818479600084116","title":"Intracellular signaling and vesicle trafficking","description":"The top GO terms point to endomembrane dynamics (endosomal vesicle fusion, ER tubular network formation, Golgi retention) alongside signaling pathways (TGF-beta receptor signaling, Rho signaling, TLR4 signaling), suggesting a functional theme that couples signal transduction with vesicle trafficking rather than a single isolated process.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045599","count":3},{"id":"GO:0016246","count":3},{"id":"GO:0021987","count":3},{"id":"GO:0034058","count":1},{"id":"GO:0035023","count":1}]},{"hash":"1366195053797990856","title":"Actin remodeling in morphogenesis and cell migration","description":"The top GO terms cluster around actin cytoskeleton organization and remodeling (actin cortical patch organization, stress fiber assembly, mitotic contractile ring actin bundling) and regulation of GTPase activity, alongside several morphogenesis processes (histoblast morphogenesis, larval salivary gland morphogenesis, ovarian nurse cell transport) and epithelial cell migration. This suggests a coherent theme of actin-driven shape changes and cell movement during development. Confidence: High","confidence":"","size":13,"edges":57,"triangles":120,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030845","count":3},{"id":"GO:0007488","count":3},{"id":"GO:2000300","count":3},{"id":"GO:0044396","count":3},{"id":"GO:0051496","count":3}]},{"hash":"765560454220803984","title":"Intracellular transport and organelle dynamics","description":"The top GO terms cluster around movement and organization of cellular components, including cilium assembly and intraciliary transport, synaptic vesicle exocytosis and long-term potentiation, Golgi ribbon formation, and regulation of protein targeting to vacuolar membranes. Although a few cell cycle-related terms appear, the dominant theme is intracellular trafficking and organelle regulation, suggesting the proteins in this cluster participate broadly in transport and organelle dynamics rather than a single pathway.","confidence":"Medium","size":13,"edges":51,"triangles":105,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":1},{"id":"GO:0035721","count":1},{"id":"GO:0034087","count":1},{"id":"GO:1990022","count":1},{"id":"GO:0007064","count":1}]},{"hash":"913540781721508620","title":"Innate Immune Signaling and Macrophage Activation","description":"The cluster includes GO terms for innate immune response, regulation of macrophage activation, cell surface receptor signaling, and MAP kinase activity, plus inflammatory processes such as arachidonate secretion, suggesting a cohesive theme of innate immune signaling and macrophage activation, with some peripheral terms like melanin biosynthesis.","confidence":"Medium","size":13,"edges":20,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":1},{"id":"GO:0070207","count":1},{"id":"GO:0010629","count":1},{"id":"GO:0043030","count":1},{"id":"GO:0043406","count":1}]},{"hash":"1807421679198479134","title":"Cardiovascular development and cell migration","description":"This cluster is dominated by terms tied to heart development and cell movement, including heart development, cellular response to VEGF stimulus, and general cell migration. Additional terms point to processes that influence cell fate and signaling in cardiovascular contexts, such as mitochondrial fission and apoptosis execution, GPCR signaling modulation, and fibroblast migration. While there are outliers (immune signaling, insulin-related processes), the core theme aligns with cardiovascular morphogenesis and migration, making this a sensible label with moderate confidence. ","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097194","count":4},{"id":"GO:2001275","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0000266","count":3},{"id":"GO:0007507","count":3}]},{"hash":"27934034356624700","title":"Exopolysaccharide and cell wall biosynthesis","description":"Top GO terms are dominated by polysaccharide biosynthesis and cell envelope processes, including exopolysaccharide/slime layer biosynthesis, extracellular polysaccharide formation, cell wall organization, and sugar nucleotide biosynthesis (UDP-Glucose, UDP-GlcNAc). This suggests a cohesive function in constructing the cell surface and extracellular matrix, with multiple sugar synthesis pathways feeding into exopolysaccharide production and cell wall assembly.","confidence":"High","size":13,"edges":65,"triangles":168,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":7},{"id":"GO:0071555","count":6},{"id":"GO:0006048","count":6},{"id":"GO:0006011","count":6},{"id":"GO:0005989","count":4}]},{"hash":"1954281718022825471","title":"Innate Immune Response and Pyroptosis","description":"The cluster shows strong representation of innate immune response, pyroptotic inflammatory response, and apoptotic process, together with ubiquitination, suggesting a coherent theme of ubiquitin-driven innate immune signaling and inflammatory cell death. Some auxiliary terms related to transcription and cell division appear less central, but do not outweigh the core immune/death pattern.","confidence":"High","size":13,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":12},{"id":"GO:0016567","count":12},{"id":"GO:0090307","count":12},{"id":"GO:0070269","count":12},{"id":"GO:1990001","count":12}]},{"hash":"212784532623274801","title":"Viral replication cycle and host interactions","description":"The top GO terms cluster around viral life cycle steps (host-mediated activation of viral genome replication, virion assembly, uncoating, RNA-templated DNA biosynthesis) and associated host processes (protein folding, cellular response to UV-A, secretion). Some terms appear as noise (e.g., sepals formation), but the dominant theme ties viral replication to host interaction, justifying this label.","confidence":"High","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":"protein folding","top_go_terms":[{"id":"GO:0044829","count":13},{"id":"GO:0050714","count":13},{"id":"GO:2000276","count":13},{"id":"GO:0048453","count":13},{"id":"GO:0019068","count":13}]},{"hash":"1801980870615400124","title":"Inflammatory lipid mediator biosynthesis","description":"This cluster is dominated by lipid-derived inflammatory signaling: leukotriene biosynthesis and the lipoxygenase pathway, supported by interleukin-2 production and calcium signaling, together with lipid hydroperoxide responses. While some terms (ethanol metabolism, mitochondrial ribosome assembly) are broader, the shared theme points to lipid-mediated inflammation. ","confidence":"Medium","size":13,"edges":69,"triangles":203,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0032623","count":2},{"id":"GO:0006067","count":2},{"id":"GO:0061668","count":2},{"id":"GO:0019370","count":2},{"id":"GO:0071277","count":2}]},{"hash":"1901780178676597549","title":"Drosophila development and mitochondrial apoptosis regulation","description":"The top GO terms mix mitochondria-related apoptosis (regulation and permeability of the mitochondrial membrane, apoptotic process) with several Drosophila-specific developmental processes (oskar mRNA translation, segmentation, tracheal system). This suggests a theme where mitochondrial apoptosis mechanisms intersect with developmental regulation in Drosophila, justifying a label that combines both aspects.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902108","count":2},{"id":"GO:0046011","count":2},{"id":"GO:0007427","count":2},{"id":"GO:0035289","count":2},{"id":"GO:0006915","count":2}]},{"hash":"816554894589103500","title":"Telomere maintenance and telomerase regulation","description":"Reason: The top GO terms are dominated by telomere-related processes: positive/negative regulation of telomere maintenance via lengthening, telomere capping, telomerase regulation, and localization to telomeres, suggesting a shared function in telomere biology. While a few terms touch GPCR signaling or cell migration, the core signal is telomere maintenance.","confidence":"High","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":7},{"id":"GO:1904743","count":6},{"id":"GO:0070213","count":6},{"id":"GO:1901187","count":6},{"id":"GO:1904357","count":6}]},{"hash":"1710404950179341436","title":"Proliferation and innate immune signaling","description":"The cluster is dominated by GO terms tied to cell proliferation, the cell cycle, and mitosis, alongside innate immune response and chemokine production, suggesting a core theme of proliferation-linked signaling with immune activity. Additional terms about cell adhesion and neuronal paranode localization indicate supporting roles in cell interactions and specialized neural structures, but the prevailing signal centers on division and innate immune processes.","confidence":"Medium","size":13,"edges":34,"triangles":26,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008283","count":5},{"id":"GO:0007155","count":4},{"id":"GO:1904209","count":4},{"id":"GO:0071307","count":4},{"id":"GO:0051301","count":4}]},{"hash":"750504930796300436","title":"Neuronal synaptic vesicle cycling","description":"The top GO terms are dominated by regulation of synaptic vesicle endocytosis/exocytosis and excitatory postsynaptic potential, plus substantia nigra development, which together point to a neuronal synaptic trafficking/differentiation theme. Some terms (bone ossification/resorption, ribosomal export, mitotic cell cycle) are broader or indicate secondary functions or annotation noise rather than a cohesive non-neuronal module. Overall, the cluster appears to group proteins involved in synaptic vesicle cycling and neuronal development.","confidence":"High","size":13,"edges":28,"triangles":38,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900242","count":8},{"id":"GO:0043931","count":8},{"id":"GO:0060079","count":8},{"id":"GO:0035690","count":8},{"id":"GO:0021762","count":8}]},{"hash":"1702836315800561998","title":"Nuclear RNA Processing and rRNA Maturation","description":"This cluster is dominated by GO terms related to nuclear RNA processing, mRNA surveillance and decapping, and ribosomal RNA maturation (including 5.8S and LSU rRNA) as well as transcription termination linked to poly(A) processing. An outlier term about germ-line cyst formation is present, but the core signal centers on nuclear RNA processing and ribosome biogenesis, justifying this label.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030846","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0030717","count":1},{"id":"GO:0031087","count":1}]},{"hash":"304187741539367324","title":"Neuronal development and axon guidance","description":"Based on GO terms, the strongest signals are neural development and axon guidance (dorsal/ventral axon guidance, neuronal signal transduction, brain development). While other terms reflect broader cellular processes (proteolysis, transcription regulation, glycosylation, immune differentiation, vitamin D response, zinc homeostasis), the repeated neural-related terms suggest the cluster centers on neuronal development and signaling rather than a non-neural function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033563","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0030224","count":2},{"id":"GO:0033280","count":2}]},{"hash":"1999093548600349812","title":"Neuronal Filopodium Formation and GTPase Signaling","description":"Based on the GO terms, the cluster centers on actin-driven protrusions and cytoskeletal remodeling (filopodium assembly, regulation of filopodium assembly, cell spreading) coordinated by small GTPases (Rho family signaling), with additional context in synaptic transmission (GABAergic) and development (heart). This suggests a cohesive theme of GTPase-regulated cytoskeletal dynamics that underpin neurite outgrowth, filopodium formation, and synapse establishment, even though some terms reflect broader developmental contexts.","confidence":"Medium","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046847","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0051932","count":8},{"id":"GO:0007264","count":8},{"id":"GO:1900026","count":8}]},{"hash":"2235213028312839617","title":"Rho/Rac-mediated cytoskeletal dynamics in heart and neural development","description":"This cluster is enriched for Rho and Rac signaling, cytoskeletal remodeling (filopodium assembly), and GPCR pathways, together with heart and spinal cord development terms. The common theme ties actin dynamics and cell migration to development of cardiac and neural tissues.","confidence":"Medium","size":13,"edges":22,"triangles":11,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0016477","count":4},{"id":"GO:0021510","count":3},{"id":"GO:0035023","count":3},{"id":"GO:2001275","count":3}]},{"hash":"623455132954784562","title":"Developmental Signaling and Morphogenesis","description":"The top GO terms cluster around developmental processes (heart development, midbrain morphogenesis, endothelial barrier formation) and multiple signaling pathways (PI3K/AKT, Rho, Ral, GPCR, thrombin receptor). This points to proteins that participate in broad developmental signaling and tissue morphogenesis across multiple systems, rather than a single, narrow function. Some immune signaling is present (T cell activation), but the dominant theme is developmental signal transduction. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0032485","count":4},{"id":"GO:0007205","count":3},{"id":"GO:0090557","count":3},{"id":"GO:0043491","count":3}]},{"hash":"2112342084068779982","title":"Innate Immunity and Coagulation Signaling","description":"The cluster centers on innate immune processes (innate immune response, response to LPS, engulfment of apoptotic cells) and coagulation pathways (blood coagulation, PDGF receptor signaling), plus growth factor signaling interactions. A few terms like grooming behavior and mechanical stimulus are present but less representative, making innate defense and hemostasis the core theme.","confidence":"Medium","size":13,"edges":41,"triangles":56,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:2000821","count":5},{"id":"GO:0043652","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0071260","count":4},{"id":"GO:0051968","count":4}]},{"hash":"1891055781230035833","title":"Apoptosis Regulation and Signaling Modulation","description":"The cluster centers on regulation of programmed cell death (apoptosis) with supporting roles in ubiquitination and multiple signaling pathways (ERK/MAPK, adrenergic signaling) and immune regulation, suggesting a cohesive theme of cell fate control and signal modulation, albeit with some pleiotropic terms like symbiont entry and nervous system development.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0016567","count":3},{"id":"GO:0043154","count":3},{"id":"GO:0032695","count":3},{"id":"GO:0032088","count":3}]},{"hash":"1005174985163588235","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms point to ubiquitination (including autoubiquitination and K48-linked ubiquitination) and regulation of protein catabolic processes, indicating a proteostasis/ubiquitin-proteasome system\u2013driven cluster. Some terms appear unrelated or obsolete, but the core signal centers on protein turnover via ubiquitination.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033160","count":1},{"id":"GO:0019089","count":1},{"id":"GO:0032443","count":1},{"id":"GO:0051865","count":1},{"id":"GO:0070936","count":1}]},{"hash":"364532814282269803","title":"Lipid remodeling and macrophage activation","description":"The proteins cluster around lipid remodeling and metabolism (lipoprotein particle remodeling, lipid and phospholipid acyl-chain remodeling, lipid biosynthesis/catabolism) and macrophage-related immune functions (regulation of macrophage activation, foam cell differentiation) with inflammatory signaling (ERK cascade and leukotriene biosynthesis) and mucosal innate immunity, suggesting a coordinated lipid-inflammatory program in macrophages.","confidence":"High","size":13,"edges":56,"triangles":128,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0034374","count":7},{"id":"GO:0019370","count":7},{"id":"GO:0044240","count":7},{"id":"GO:0070374","count":7},{"id":"GO:0002227","count":7}]},{"hash":"1453243718697696160","title":"Unknown","description":"These proteins have GO terms spanning immune signaling (Fc-epsilon receptor), lysosomal trafficking and localization, neuronal dendrite development and Purkinje cell differentiation, plus insulin processing and angiotensin regulation. The mix points to multiple, unrelated functions rather than a single shared role, so there isn\u2019t a coherent theme to label this cluster.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":2},{"id":"GO:0007040","count":1},{"id":"GO:0048813","count":1},{"id":"GO:0007041","count":1},{"id":"GO:0032418","count":1}]},{"hash":"2044534125219271626","title":"Embryonic organogenesis and patterning","description":"The most represented terms point to embryonic development and organogenesis (heart EMT in endocardial cushion formation, cartilage morphogenesis, left-right patterning, endocrine system development including pancreatic and placental lineages). This suggests a cluster of proteins involved in early tissue formation and body axis patterning; a few terms relate to general RNA processing, which may reflect broader cellular roles but do not define the cluster's primary function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003198","count":8},{"id":"GO:0060536","count":8},{"id":"GO:0060972","count":8},{"id":"GO:0035270","count":8},{"id":"GO:0000055","count":8}]},{"hash":"2017333663059807193","title":"Embryonic Development and Cell Migration","description":"Based on the GO terms, this cluster centers on embryonic development and tissue formation, with repeated emphasis on cell movement (neural crest migration, sprouting angiogenesis, axonal fasciculation, EMT) and morphogenesis (cartilage morphogenesis, left-right patterning, placental development). The terms together suggest proteins that coordinate developmental processes rather than a single pathway, making this a cohesive developmental migration/morphogenesis cluster.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048668","count":2},{"id":"GO:0002042","count":2},{"id":"GO:0001755","count":2},{"id":"GO:0007413","count":2},{"id":"GO:0060707","count":2}]},{"hash":"2286793781514431225","title":"Innate Immunity and Organ Development Signals","description":"This cluster is characterized by strong innate immune terms: response to lipopolysaccharide, response to xenobiotic stimulus, complement activation (lectin pathway), and innate immune response, indicating a primary defense-related function. The presence of several development-related terms (heart, spinal cord, and metanephric/kidney development) suggests pleiotropic proteins or context-dependent roles in organ development or tissue remodeling. Overall, the dominant theme is innate immunity with auxiliary developmental associations.","confidence":"Medium","size":13,"edges":15,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0001867","count":2},{"id":"GO:0072218","count":2}]},{"hash":"2164674534176826752","title":"Amino Acid Biosynthesis and Metal Ion Import","description":"Top GO terms indicate several amino acid biosynthetic processes (proline, tyrosine, isoleucine) and metal ion import (copper, iron), along with assorted related metabolic processes. This suggests a general metabolic cluster focused on amino acid production and metal uptake rather than a single specific pathway, hence the label highlighting both biosynthesis and ion transport.","confidence":"Medium","size":13,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0055129","count":3},{"id":"GO:1903206","count":3},{"id":"GO:0015677","count":2},{"id":"GO:0098706","count":2}]},{"hash":"504918110316623998","title":"Mitochondrial energy metabolism and dynamics","description":"These terms point to mitochondrial function: assembly of the ATP synthase complex, regulation of cellular respiration, mitophagy, and mitochondrial fusion, with accompanying lipid biosynthesis that supports mitochondrial membranes. The cluster appears to reflect mitochondrial energy production and organelle dynamics rather than a single narrow pathway.","confidence":"High","size":13,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008203","count":2},{"id":"GO:0033615","count":2},{"id":"GO:0043457","count":1},{"id":"GO:0000422","count":1},{"id":"GO:0010259","count":1}]},{"hash":"1171977160817069609","title":"TGF-\u03b2\u2013driven heart and kidney morphogenesis","description":"The cluster centers on developmental processes in heart and kidney, with strong signals for TGF-\u03b2 signaling and EMT: atrioventricular canal morphogenesis, heart trabecula morphogenesis, EMT involved in endocardial cushion formation, and metanephric kidney development terms, plus TGF-\u03b2 receptor complex assembly and SMAD phosphorylation. This suggests a coherent theme of TGF-\u03b2\u2013regulated morphogenesis in cardiac and renal tissues, though a few terms (oocyte development, hypersensitivity) are peripheral outliers.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072218","count":2},{"id":"GO:0061384","count":2},{"id":"GO:0007181","count":2},{"id":"GO:1905222","count":2},{"id":"GO:0072233","count":2}]},{"hash":"1996360092207009470","title":"Neural adhesion and synapse organization","description":"The top GO terms cluster around adhesion and extracellular matrix in a neural context (homophilic cell-cell adhesion, collagen fibril organization, paranode axon localization, synapse assembly, and potassium channel clustering), suggesting roles in neural connectivity and synaptic architecture. While heart development appears, the dominant signal is neural development and synapse organization, with a few outliers being less informative.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007156","count":8},{"id":"GO:0030199","count":8},{"id":"GO:0007507","count":7},{"id":"GO:0045163","count":7},{"id":"GO:0006958","count":7}]},{"hash":"2282887977100324599","title":"Amino acid transport across plasma membrane","description":"The cluster is enriched for transport of several amino acids (methionine, arginine, ornithine, lysine, D-alanine) and GABA across the plasma membrane, plus arginine catabolism and NO-related signaling. This points to a coherent theme of amino acid import and related metabolic regulation at the cell surface.","confidence":"High","size":13,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0044690","count":11},{"id":"GO:0097638","count":11},{"id":"GO:0097640","count":11},{"id":"GO:0015812","count":11},{"id":"GO:0097639","count":11}]},{"hash":"377855323764946013","title":"Axon Guidance and Neuronal Development","description":"The terms are dominated by neuronal development and axon pathfinding, including axonogenesis, dorsal/ventral axon guidance, and negative regulation of axon extension, with Roundabout signaling as a key guidance pathway. While a couple of terms touch on angiogenesis or immune responses, the strongest recurring theme is neural development and axon guidance, suggesting the cluster reflects proteins involved in neuronal wiring rather than immune or vascular processes.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002042","count":1},{"id":"GO:0032741","count":1},{"id":"GO:0033563","count":1},{"id":"GO:0006963","count":1},{"id":"GO:0051901","count":1}]},{"hash":"14293029183135871","title":"Multisystem Developmental Signaling","description":"The cluster centers on broad developmental processes across multiple tissues\u2014heart and kidney organogenesis, angiogenesis, neurogenesis and synapse formation, plus muscle differentiation and ROBO signaling\u2014pointing to a general theme of developmental signaling across systems.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0001525","count":5},{"id":"GO:0048671","count":5}]},{"hash":"1185858082692954224","title":"Epoxygenase P450\u2013driven lipid and xenobiotic metabolism","description":"The dominant GO terms cluster around epoxygenase P450 activity and oxylipin biosynthesis, pointing to P450-mediated lipid signaling and metabolism. Supporting terms involve retinoic acid biosynthesis and xenobiotic/alkaloid metabolism (insecticides, vancomycin biosynthesis), with hormone-related regulation (androgen metabolism, aldosterone) suggesting broader metabolic roles. Overall, the cluster appears tied to CYP450\u2013driven metabolism of lipids and xenobiotics.","confidence":"High","size":13,"edges":67,"triangles":192,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":13},{"id":"GO:0019373","count":13},{"id":"GO:0031408","count":13},{"id":"GO:1900087","count":13},{"id":"GO:0017143","count":13}]},{"hash":"1576493819417030014","title":"Mitochondrial Stress and Dynamics","description":"This cluster shows GO terms centered on mitochondria under stress, including stress-induced mitochondrial fusion, regulation of mitochondrial membrane potential, and inner mitochondrial membrane organization, suggesting a module focused on mitochondrial dynamics and stress responses. A few other terms (excretion, podocyte development, IL-2 production) are present but likely represent annotation noise or broader signaling context, not the core theme. ","confidence":"Medium","size":13,"edges":35,"triangles":30,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1990046","count":1},{"id":"GO:0010918","count":1},{"id":"GO:0007588","count":1},{"id":"GO:0072249","count":1},{"id":"GO:0032623","count":1}]},{"hash":"312342138874417264","title":"Unknown","description":"The GO terms span calcium signaling, muscle contraction and vasoconstriction, hormone secretion, inflammation, neuronal signaling, and even plant cell wall breakdown, indicating a highly heterogeneous set with no clear shared function. This makes it hard to assign a coherent, specific label to the cluster.","confidence":"","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":12},{"id":"GO:0001697","count":11},{"id":"GO:0035106","count":11},{"id":"GO:0055117","count":11},{"id":"GO:0031649","count":11}]},{"hash":"1077335755879421944","title":"GPCR-cAMP Signaling and Hormonal Regulation","description":"The top GO terms point to G protein-coupled receptor signaling that activates adenylate cyclase and produces cAMP, along with hormone secretion (corticotropin) and blood pressure regulation. This suggests a coherent theme of GPCR-mediated cAMP signaling influencing endocrine/hormonal control, even though an electron transport chain term appears in the mix, which may reflect background mitochondrial annotations or dual-function proteins. Development-related terms (seminiferous tubule and lung morphogenesis) further indicate a broader role in endocrine-driven developmental processes. ","confidence":"Medium","size":13,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0022900","count":13},{"id":"GO:0010579","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0051867","count":11},{"id":"GO:0051458","count":11}]},{"hash":"1444168808113387139","title":"Unknown","description":"The top GO terms span diverse processes including blood coagulation, vasoconstriction, cardiac contraction regulation, histamine-driven gastric secretion, immune signaling (IL-1\u03b2), dopaminergic GPCR signaling, and stress responses, with even cellular catabolic and heat generation terms. There is no single cohesive biological function linking these terms, so a specific, representative label cannot be confidently assigned.","confidence":"","size":13,"edges":14,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":12},{"id":"GO:0001697","count":11},{"id":"GO:0035106","count":11},{"id":"GO:0055117","count":11},{"id":"GO:0031649","count":11}]},{"hash":"847968370364728713","title":"Diverse Substrate Transmembrane Transport","description":"The top GO terms cluster around transmembrane transport of a wide range of substrates (sugars, vitamins, ions, nitrate/nitrite, fucose, sialic acid, xenobiotics). This points to a group of diverse membrane transporters rather than a single substrate-specific function. Therefore, the label \u201cDiverse Substrate Transmembrane Transport\u201d best fits.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":8},{"id":"GO:0035461","count":8},{"id":"GO:1900754","count":8},{"id":"GO:0035435","count":8},{"id":"GO:0071805","count":8}]},{"hash":"294852516063220141","title":"Virus-host RNA processing and replication","description":"The cluster\u2019s GO terms cluster around host RNA processing and translation (splicing regulation, splice site recognition, transcription termination, translation, poly(A) tail regulation) while also including viral lifecycle processes (virion assembly, viral release, proviral latency, symbiont entry). This mix suggests proteins involved in how viruses manipulate host gene expression and replication pathways, rather than a single canonical cellular pathway.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":4},{"id":"GO:0006376","count":3},{"id":"GO:0019068","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006353","count":2}]},{"hash":"1768468364415843923","title":"Proviral integration and DNA transposition","description":"GO terms point to viral entry, proviral latency, DNA integration, RNA-templated DNA synthesis, recombination, and transposition, reflecting genome mobility and host-virus interaction; this justifies the name.","confidence":"High","size":12,"edges":28,"triangles":25,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0075732","count":11},{"id":"GO:0075713","count":11},{"id":"GO:0046718","count":11},{"id":"GO:0039651","count":11},{"id":"GO:0015074","count":11}]},{"hash":"817234416557563411","title":"Developmental Fate Specification and Chromatin Remodeling","description":"The cluster centers on developmental cell fate decisions (neural plate, endodermal and glial lineages, root development) and transcriptional control via chromatin remodeling, plus signaling modulation (Wnt-related negative regulation of apoptosis). A few DNA damage response and microtubule regulation terms are present but less dominant, so Developmental Fate Specification and Chromatin Remodeling best captures the core theme.","confidence":"Medium","size":12,"edges":43,"triangles":60,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006974","count":3},{"id":"GO:0007084","count":2},{"id":"GO:0050790","count":2},{"id":"GO:0048096","count":2},{"id":"GO:0001840","count":2}]},{"hash":"2134818094735053427","title":"Developmental ECM remodeling and cell clearance","description":"The dominant terms point to extracellular matrix organization (collagen fibril organization) and developmental processes (embryonic morphogenesis, myoblast differentiation), with apoptotic cell clearance and plasminogen activation indicating tissue remodeling and cleanup during development. Additional terms touching on neural and endocrine signaling fit within broader developmental context, supporting a theme of developmental remodeling rather than a single signaling pathway. ","confidence":"Medium","size":12,"edges":26,"triangles":14,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0043277","count":8},{"id":"GO:0030199","count":8},{"id":"GO:0002175","count":6},{"id":"GO:0010172","count":6},{"id":"GO:0010756","count":5}]},{"hash":"856429297279735598","title":"Translation and transcription machinery in development","description":"The cluster centers on core gene expression processes (translation initiation and transcription) with supporting chromatin modification and signaling components, plus cytoskeletal dynamics and development-related processes (lens differentiation, neural tube closure), suggesting a broad role in gene expression linked to development.","confidence":"Medium","size":12,"edges":50,"triangles":102,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0030042","count":2}]},{"hash":"314792333745014380","title":"RNA splicing and translation initiation regulation","description":"Most top GO terms cluster around RNA processing and post-transcriptional gene expression control: regulation of alternative splicing via the spliceosome, mRNA splicing, mRNA export from the nucleus, various RNA modifications, and assembly of the eIF4F translation initiation complex, with links to stress granule localization. While DNA replication and viral genome replication appear among terms, the dominant signal is RNA processing and regulation of translation initiation. ","confidence":"High","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":7},{"id":"GO:0048026","count":7},{"id":"GO:1903608","count":5},{"id":"GO:0000381","count":5},{"id":"GO:0006406","count":5}]},{"hash":"928883305185323407","title":"Endocytosis and Immune Activation","description":"The terms point to receptor-mediated endocytosis and internalization (GO:0006898, GO:0031623) and transferrin transport (GO:0033572), combined with immune signaling functions such as positive regulation of T and B cell proliferation and isotype switching, suggesting proteins involved in endocytic trafficking that interfaces with adaptive immunity. Some terms reflect lysosomal/vacuolar protein catabolism and osteoclast differentiation, which fit endocytic pathways, while a plant-specific term about inflorescence meristem growth appears as an outlier, likely annotation noise. Overall, the cluster seems to reflect endocytic processes linked to immune activation.","confidence":"Medium","size":12,"edges":15,"triangles":12,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006898","count":6},{"id":"GO:0031623","count":6},{"id":"GO:0033572","count":6},{"id":"GO:0010081","count":6},{"id":"GO:0042135","count":6}]},{"hash":"1911346497551571997","title":"RNA processing and mRNA stability regulation","description":"The strongest, most frequent GO terms point to RNA metabolism, especially mRNA processing (GO:0006397) and regulation of mRNA stability (GO:0043488), suggesting these proteins cluster around post-transcriptional gene expression control. Other terms are more heterogeneous and less cohesive, but the dominant signal is clearly RNA processing and stability regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000083","count":6},{"id":"GO:0006397","count":5},{"id":"GO:0046475","count":4},{"id":"GO:1901594","count":4},{"id":"GO:0070431","count":4}]},{"hash":"1876666208991978895","title":"RNA processing and translational control","description":"This cluster links multiple RNA-centric processes: regulation of mRNA splicing via the spliceosome, mRNA modification and splice-site recognition, and several steps of translation initiation and reinitiation, plus ncRNA/miRNA\u2013mediated gene silencing. The shared theme is RNA metabolism with tight control of gene expression at the splicing and translational levels.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048025","count":6},{"id":"GO:0006446","count":3},{"id":"GO:0016556","count":3},{"id":"GO:0097010","count":3},{"id":"GO:0006376","count":3}]},{"hash":"2065084142773947331","title":"NF-kappaB Signaling and Ubiquitination","description":"The top GO terms are dominated by NF-kappaB activation and signaling, including canonical NF-kappaB transduction, IKK activation, and TNF-mediated signaling, along with innate immune response and ubiquitination processes (K63-linked and autoubiquitination). This suggests a cohesive module of proteins regulating NF-kappaB activity through ubiquitination in innate immunity.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051092","count":9},{"id":"GO:1903721","count":9},{"id":"GO:0043123","count":9},{"id":"GO:0033209","count":9},{"id":"GO:0045087","count":9}]},{"hash":"1288428691707726849","title":"Developmental Regulation and Chromatin Remodeling","description":"The cluster includes proteins linked to diverse developmental processes (gonad development, oogenesis, vitellogenesis, brain development, osteoblast differentiation) alongside chromatin-related activities (pericentric heterochromatin formation, histone H3-K27 methylation) and signaling/migration/immune terms, suggesting a broad role in development tied to chromatin state rather than a single specific pathway.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0031508","count":12},{"id":"GO:0007296","count":12},{"id":"GO:0008584","count":12},{"id":"GO:0061086","count":12},{"id":"GO:0002227","count":12}]},{"hash":"1118491572719334592","title":"Diverse small-molecule biosynthesis","description":"The top GO terms point to biosynthetic and metabolic processes across a range of small molecules (menaquinone, lipoteichoic acid, fatty acids, bile acids, phenylpropanoids) plus related catabolic/fermentation pathways, indicating a cluster of proteins involved in general small-molecule biosynthesis and metabolism rather than a single specific pathway.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":12},{"id":"GO:0019427","count":12},{"id":"GO:0070395","count":12},{"id":"GO:0009698","count":12},{"id":"GO:0019654","count":12}]},{"hash":"2093259186916299170","title":"Regulation of cell growth, differentiation, and chromatin state","description":"The top GO terms point to broad regulatory roles in growth and differentiation (stem cell proliferation, neuron projection development, granulocyte differentiation) as well as chromatin/epigenetic regulation (histone methylation, chromatin binding), with some additional stress-response signals. This indicates a general cluster of regulators affecting development and gene expression rather than a single precise pathway.","confidence":"Medium","size":12,"edges":57,"triangles":154,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0051573","count":12},{"id":"GO:0046886","count":12},{"id":"GO:0045793","count":12},{"id":"GO:0035563","count":12},{"id":"GO:0010044","count":12}]},{"hash":"2021240048293048307","title":"Organelle protein import and processing","description":"Top GO terms show protein movement and maturation across organelles (mitochondrial intermembrane space import, peroxisomal matrix import, Golgi retention, SNARE complex disassembly, ER polarization, ERAD). There are also general terms for protein processing and trafficking. While a couple terms relate to cell division and transcription, the strongest signal is intracellular protein trafficking and maturation across organelles, pointing to a cluster of proteins involved in delivering and processing proteins within the secretory and endomembrane system and related import pathways.","confidence":"High","size":12,"edges":10,"triangles":2,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035494","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0061166","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0045041","count":3}]},{"hash":"1952976598336801871","title":"Cellular stress signaling and protein turnover","description":"The top GO terms cluster around regulation of stress-induced pathways (ER stress-activated apoptotic signaling, mitophagy), anti-apoptotic regulation, and protein homeostasis via ubiquitination and signaling cascades (TNF-mediated signaling). Some terms are peripheral or cross-species, but the dominant theme ties to how cells sense, regulate stress, and maintain protein quality, aligning with a cohesive functional cluster.","confidence":"Medium","size":12,"edges":23,"triangles":15,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1902236","count":7},{"id":"GO:0090394","count":6},{"id":"GO:0007612","count":6},{"id":"GO:0051865","count":5},{"id":"GO:1903265","count":5}]},{"hash":"2094139423312191910","title":"Unknown","description":"The GO terms in this cluster are diverse and sparse, spanning lipid biosynthesis, general metabolism, membrane transport, RNA methylation, and some unrelated terms, with no clear single function unifying the proteins. This suggests no cohesive, definable theme for a meaningful label.","confidence":"","size":12,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016126","count":2},{"id":"GO:0008152","count":1},{"id":"GO:1902475","count":1},{"id":"GO:0030961","count":1},{"id":"GO:0046690","count":1}]},{"hash":"1572833653517233434","title":"Chromatin regulation and chromosome segregation","description":"The GO terms cluster around chromatin state control (desumoylation, deneddylation, regulation of chromatin binding, methylation) plus processes tied to DNA replication/mitosis (endoreduplication and kinetochore assembly), suggesting a common theme of chromatin regulation and chromosome segregation. Some developmental terms appear, but the chromatin- and cell-cycle-related signals are the strongest driver of this cluster\u2019s function.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010724","count":2},{"id":"GO:0016926","count":2},{"id":"GO:0032875","count":2},{"id":"GO:1904333","count":2},{"id":"GO:0090234","count":2}]},{"hash":"332497696243604637","title":"Platelet Activation Signaling","description":"The cluster centers on GO terms tied to platelet activation and adhesion, including regulation of integrin activation, thrombin-activated receptor signaling, and filopodium assembly, along with GPCR signaling pathways. These collectively point to a cohesive module governing platelet activation and cytoskeletal remodeling, with some broader cardiovascular signaling context suggested by heart development terms.","confidence":"Medium","size":12,"edges":16,"triangles":5,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006924","count":3},{"id":"GO:0007213","count":3},{"id":"GO:0010572","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0033623","count":3}]},{"hash":"437887046557001336","title":"Signaling pathways and endocytic trafficking","description":"This cluster shows enrichment for multiple signaling pathways (ephrin receptor signaling, T cell receptor signaling, Wnt signaling) alongside endocytic processes (endocytosis, endocytic recycling) and aspects of polarity and mechanotransduction, suggesting a coherent theme of membrane-initiated signaling linked to receptor trafficking. ","confidence":"Medium","size":12,"edges":29,"triangles":29,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048013","count":5},{"id":"GO:0050852","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0090162","count":4},{"id":"GO:0043552","count":4}]},{"hash":"1919970766982101581","title":"Endosome and vesicle trafficking","description":"The terms cluster around intracellular transport, endosome/vacuolar trafficking, and secretory pathway functions (dense core granules, macropinocytosis, presynaptic organization), suggesting a cohesive role in vesicle trafficking and endosomal dynamics, with some mitosis-related terms likely reflecting shared cellular machinery rather than a dedicated mitotic function.","confidence":"Medium","size":12,"edges":40,"triangles":63,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:0000278","count":2},{"id":"GO:1990502","count":2},{"id":"GO:0044351","count":1},{"id":"GO:1990709","count":1}]},{"hash":"188276011000923127","title":"Cytoskeleton Organization and Cell Division","description":"These terms cluster around cytoskeletal organization and cell division processes: actin filament bundle assembly, sarcomere organization, mitotic cytokinesis, and meiotic chromosome movement, plus establishment or maintenance of cell polarity. A few chromatin-related terms (subtelomeric heterochromatin formation, histone acetylation/exchange) and retina homeostasis appear as secondary associations, possibly reflecting broader nuclear roles or tissue-specific expression. Overall, the proteins likely participate in organizing the cytoskeleton and coordinating division and cell shape.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000281","count":12},{"id":"GO:0071963","count":12},{"id":"GO:0006348","count":12},{"id":"GO:0016344","count":12},{"id":"GO:0051017","count":12}]},{"hash":"233380656765605353","title":"Unknown","description":"The GO terms span neural development and cardiac function, apoptosis regulation, amyloid formation, and membrane localization, with no single cohesive biological theme dominating the cluster; as a result there isn't a clear, representative label.","confidence":"","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0031642","count":3},{"id":"GO:2001240","count":2},{"id":"GO:0010881","count":2},{"id":"GO:0003283","count":2},{"id":"GO:0098907","count":2}]},{"hash":"1090997995525639550","title":"Quinone biosynthesis and central metabolism","description":"Most represented GO terms point to quinone biosynthesis (menaquinone and phylloquinone) and core energy pathways (TCA cycle, beta-oxidation, various catabolic processes). A few terms touch on membrane trafficking and cytoskeleton dynamics, but the dominant theme is quinone-related metabolism and energy production. ","confidence":"Medium","size":12,"edges":17,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0006635","count":3},{"id":"GO:0017000","count":3}]},{"hash":"753814769100897002","title":"Redox signaling and DNA repair","description":"The top GO terms emphasize oxidative stress and redox biology (positive regulation of ROS metabolism, hydrogen peroxide metabolism) along with inflammatory regulation and DNA repair/ transcription, suggesting a cellular response to oxidative damage and genome maintenance. A couple terms point to secretory pathway roles (signal peptide processing, SRP-dependent targeting), but redox signaling and DNA damage response appear to be the dominant theme. ","confidence":"Medium","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006465","count":2},{"id":"GO:0006614","count":1},{"id":"GO:0015031","count":1},{"id":"GO:2000379","count":1},{"id":"GO:0050727","count":1}]},{"hash":"1546188219309714013","title":"Oxidative Stress and Hypoxia Response","description":"The cluster centers on GO terms for reactive oxygen species production (hydrogen peroxide biosynthesis, superoxide generation) and cellular responses to hypoxia, along with downstream effects on apoptosis, platelet function, and blood pressure regulation. While some terms (memory, specific developmental process) are less directly tied to redox biology, the dominant pattern points to redox signaling and stress responses affecting cardiovascular and cellular pathways. Therefore, this label is representative, with Medium confidence.","confidence":"Medium","size":12,"edges":32,"triangles":32,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050665","count":6},{"id":"GO:0001975","count":6},{"id":"GO:0042554","count":6},{"id":"GO:0002576","count":6},{"id":"GO:0008217","count":4}]},{"hash":"1198307057942213058","title":"mRNA splicing and translation initiation regulation","description":"The Top Terms cluster around mRNA processing and translational control: spliceosome-mediated splicing, splice-site recognition, translation initiation and preinitiation complex formation, translation reinitiation, and mRNA modification/stability. This suggests the proteins function primarily in post-transcriptional gene expression regulation, coordinating splicing with initiation of translation. Given the co-occurrence of splicing- and initiation-related terms, the label captures the cluster's central theme.","confidence":"High","size":12,"edges":63,"triangles":193,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":6},{"id":"GO:0045292","count":5},{"id":"GO:0006446","count":4},{"id":"GO:0016556","count":4},{"id":"GO:0097010","count":4}]},{"hash":"1372474773980815863","title":"Embryonic Development and Angiogenesis with Complement Activation","description":"Top GO terms cluster around complement activation (classical and alternative) and MAC activation, together with angiogenesis signaling (VEGF receptor pathway, positive regulation of angiogenesis) and embryonic/multicellular development. Although a few terms (synapse assembly, molting cycle) seem less cohesive, the dominant theme ties immune complement activity to developmental and vascular processes during embryogenesis.","confidence":"High","size":12,"edges":28,"triangles":21,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":5},{"id":"GO:0045766","count":4},{"id":"GO:0006957","count":4},{"id":"GO:0001970","count":4},{"id":"GO:0001701","count":4}]},{"hash":"1176437138441659460","title":"Muscle development and tissue morphogenesis","description":"The cluster\u2019s dominant signals include positive regulation of myoblast differentiation and striated muscle myosin thick filament assembly, plus collagen fibril organization, all pointing to muscle formation and ECM remodeling in development. Other terms (salivary gland boundary specification, urogenital system development, Roundabout signaling, prolactin signaling) reflect broader developmental and signaling contexts, suggesting a cohesive theme around muscle-related morphogenesis rather than a single narrow function.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007432","count":8},{"id":"GO:0006915","count":8},{"id":"GO:0043277","count":7},{"id":"GO:0030199","count":7},{"id":"GO:0055072","count":6}]},{"hash":"1138315960677162899","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":29,"triangles":37,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000467","count":5},{"id":"GO:0071035","count":5},{"id":"GO:0070651","count":5},{"id":"GO:0000962","count":5},{"id":"GO:2000627","count":5}]},{"hash":"1272864298051736595","title":"Synaptic trafficking and presynapse assembly regulators","description":"The top GO terms emphasize presynaptic assembly, receptor recycling, and endosome size regulation, pointing to roles in neuronal vesicle trafficking and synaptic organization. Additional terms for GTPase activity regulation and Ran signaling suggest broader intracellular signaling and transport connections that fit with vesicle cycling and receptor turnover. Some terms (mitotic cell cycle, tRNA wobble modification) are less clearly connected, but the dominant theme is neuronal trafficking and presynaptic assembly.","confidence":"Medium","size":12,"edges":9,"triangles":1,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1905608","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0051036","count":10},{"id":"GO:0035330","count":10},{"id":"GO:1905490","count":10}]},{"hash":"1868735821815670187","title":"Developmental signaling and cell adhesion","description":"Based on the prominent GO terms, the cluster centers on developmental signaling pathways (BMP and Wnt) and related developmental processes (ventral spinal cord development) along with cell adhesion (cell-matrix and heterophilic adhesion). These together suggest a cohesive theme of embryonic development and cell interactions. Some terms (lipid clearance, complement activation, thyroid hormone generation) are peripheral to this core, but the BMP/Wnt and adhesion signals provide the primary theme.","confidence":"Medium","size":12,"edges":35,"triangles":77,"max_degree":8,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0006590","count":10},{"id":"GO:0007160","count":10},{"id":"GO:0030509","count":10},{"id":"GO:0010899","count":10},{"id":"GO:0007157","count":10}]},{"hash":"1404488293903482989","title":"Cell division and cytoskeleton organization","description":"This cluster centers on mitotic cytokinesis, chromosome movement, actin filament bundle assembly, and sarcomere organization, pointing to cytoskeletal dynamics during cell division and cell shape maintenance. While there are a few chromatin-related terms, the dominant theme is cytoskeletal organization in division and morphology.","confidence":"Medium","size":12,"edges":62,"triangles":184,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000281","count":9},{"id":"GO:0071963","count":9},{"id":"GO:0006348","count":9},{"id":"GO:0016344","count":9},{"id":"GO:0051017","count":9}]},{"hash":"1026338134165336958","title":"Neuronal synaptogenesis and connectivity","description":"The cluster shows a strong enrichment for neuronal development and synaptic function, with GO terms including positive regulation of synapse assembly, trans-synaptic signaling, long-term synaptic plasticity, and axon guidance, pointing to roles in establishing neural circuits such as corpus callosum and retinal pathways. Some non-neural terms appear, but the dominant signal is synaptic formation and connectivity.","confidence":"High","size":12,"edges":24,"triangles":27,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":5},{"id":"GO:0099557","count":4},{"id":"GO:0034446","count":4},{"id":"GO:0072178","count":4},{"id":"GO:0022038","count":4}]},{"hash":"944487966868191306","title":"Cardiac morphogenesis and ECM remodeling","description":"The top GO terms point to heart development processes (endocardial cushion formation, pericardium morphogenesis) and regulation of extracellular matrix assembly, plus VEGF signaling, all suggesting a cluster of proteins involved in cardiac morphogenesis and ECM remodeling. Some terms (NMDA receptor clustering, gland development, self proteolysis) are less connected but may reflect broader developmental roles; overall, the cardiac/ECM theme appears strongest.","confidence":"Medium","size":12,"edges":65,"triangles":210,"max_degree":11,"top_function":"wound healing","top_go_terms":[{"id":"GO:0003198","count":12},{"id":"GO:0030949","count":12},{"id":"GO:0043154","count":12},{"id":"GO:1901201","count":12},{"id":"GO:0003344","count":12}]},{"hash":"522890113208752994","title":"Sarcomere organization and signaling","description":"Top terms center on muscle-related structures (M-band localization, stress fiber assembly) and cardiac muscle activity, with supporting signaling roles in PI3K/AKT and TOR pathways; while there are some terms related to lysosome localization or apoptosis, the dominant theme links muscle cytoskeleton organization with regulatory signaling.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036309","count":2},{"id":"GO:0051496","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0051897","count":2},{"id":"GO:1902043","count":1}]},{"hash":"930845368521503342","title":"Complement-Driven Innate Immunity","description":"This cluster is dominated by GO terms for innate immune response and complement activation (classical pathway), with additional terms pointing to inflammatory cytokine production, endocytosis, and clearance of apoptotic cells. Together these suggest a group of proteins involved in initiating and propagating innate immune responses, particularly via the complement system and debris clearance, even though some terms (lipoprotein transport, spinal cord development) are less directly aligned. The overall theme is innate immune activation and inflammatory signaling.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0045087","count":8},{"id":"GO:0021510","count":8},{"id":"GO:0070207","count":8},{"id":"GO:0042953","count":8}]},{"hash":"2245620800897394158","title":"Signaling and Cell Cycle Regulation","description":"The proteins in this cluster appear involved in diverse signaling pathways (NF-kappaB regulation and IL-2 signaling), chemotaxis, and key cell-cycle processes (meiotic cell cycle, spindle\u2013kinetochore attachment), along with regulation of nuclear transport and nucleotide signaling. Collectively, these terms point to a broader theme of signaling integration and cell-cycle control rather than a single, narrow function, making \"Signaling and Cell Cycle Regulation\" a concise and representative label.","confidence":"Medium","size":12,"edges":39,"triangles":80,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":12},{"id":"GO:0035376","count":12},{"id":"GO:0006935","count":12},{"id":"GO:0051436","count":12},{"id":"GO:0046826","count":12}]},{"hash":"149669359418399961","title":"Unknown","description":"The top terms span transcriptional regulation, development, transport, signaling, and metabolism with no clear shared pathway or cellular context, and there are no edges connecting the proteins, suggesting divergent roles rather than a single cohesive function. Therefore a meaningful label cannot be assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0048752","count":2},{"id":"GO:0006886","count":2},{"id":"GO:1904179","count":2},{"id":"GO:0048015","count":2}]},{"hash":"291297549902665727","title":"Eye development and retinal signaling","description":"The top GO terms include visual perception and retina vasculature development, pointing to an eye-related developmental/programmatic function. Additional terms on cell morphogenesis and PDGF/ERK signaling support a broader tissue-growth and signaling role that could apply to retinal development. Some terms (lysosome localization, fatty acid oxidation) appear peripheral but reflect supporting metabolic processes. Overall, the dominant signal centers on eye development and retinal signaling, with secondary ties to growth signaling.","confidence":"Medium","size":12,"edges":45,"triangles":81,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0061462","count":6},{"id":"GO:0071404","count":6},{"id":"GO:0007601","count":5},{"id":"GO:0006348","count":5},{"id":"GO:0001561","count":5}]},{"hash":"1891678972364070939","title":"Tissue regeneration and transcriptional regulation","description":"GO terms emphasize tissue regeneration (liver, vascular, skeletal muscle) and muscle-related repair, together with transcriptional regulation (RNA Pol II transcription, DNA-templated transcription, elongation control). The mix of regeneration signals and transcription control suggests a cohesive theme of regeneration coupled with transcriptional regulation, though there are a few broader developmental terms (gliogenesis, prostate epithelial maturation) that broaden the scope to development.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097421","count":2},{"id":"GO:0006366","count":2},{"id":"GO:0035470","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0060743","count":2}]},{"hash":"1300358738053577192","title":"Immune signaling and RNA regulation","description":"The cluster includes terms tied to immune signaling (NOD-like receptor pathway, negative regulation of IL-12 production) and post-transcriptional control (regulation of mRNA stability), suggesting a core theme around signaling and gene expression regulation. While other terms touch on cell growth and lipid metabolism, the strongest cohesion points to immune signaling interplay with RNA-level regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046475","count":10},{"id":"GO:1901594","count":10},{"id":"GO:0070431","count":10},{"id":"GO:0043488","count":10},{"id":"GO:0007049","count":10}]},{"hash":"448449905480289055","title":"Unknown","description":"The Top Terms span apoptosis, embryonic development, meiotic recombination, DNA repair, hormone response, and metabolism with no clear shared function or pathway, and there are no interactions among proteins, suggesting a heterogeneous or artifact cluster rather than a coherent biological group.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902108","count":1},{"id":"GO:0046011","count":1},{"id":"GO:0007427","count":1},{"id":"GO:0035289","count":1},{"id":"GO:0006915","count":1}]},{"hash":"1669816123826411436","title":"Slit-Robo Neural Development","description":"Dominant signals point to Slit-Robo\u2013mediated neural development: Roundabout signaling, neurogenesis, axonogenesis, and Slit\u2013Robo guidance. Some outliers (prolactin signaling, myogenesis, iron homeostasis) likely reflect annotation noise. Overall, the cluster aligns best with Slit-Robo axon guidance and neural development.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055072","count":1},{"id":"GO:0038161","count":1},{"id":"GO:0045663","count":1},{"id":"GO:0071688","count":1},{"id":"GO:0035385","count":1}]},{"hash":"2154889532639610351","title":"Unknown","description":"The GO terms are highly diverse, including endothelial proliferation, spinal cord development, innate immune response, lipoprotein transport, DNA transposition, and a few mitochondrial energy-related processes. There isn\u2019t a single coherent function or pathway that ties these terms together, so a generic Unknown label is most appropriate.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001935","count":2},{"id":"GO:0006313","count":1},{"id":"GO:1902600","count":1},{"id":"GO:0009060","count":1},{"id":"GO:0006122","count":1}]},{"hash":"1055829976243768365","title":"ECM Adhesion and Basement Membrane Development","description":"Most top GO terms point to extracellular matrix interactions (cell-matrix adhesion; basement membrane development; smooth septate junction assembly) and signaling for tissue development (BMP pathway). These suggest a cluster centered on ECM organization and basement membrane formation, with some immune/coagulation terms likely reflecting vascular/inflammatory context rather than core function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0007157","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0007596","count":3}]},{"hash":"1103265501321230236","title":"Neuro-muscular development","description":"This cluster centers on neural development processes (axonal fasciculation, synapse assembly, neurogenesis, and myelination) and muscle differentiation (myoblast differentiation, thick filament assembly), with heart development also represented. Immune signaling terms are present but appear less central, suggesting the core theme is coordinated neural and muscular development with some immune modulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007413","count":6},{"id":"GO:0051965","count":5},{"id":"GO:0042552","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0045663","count":4}]},{"hash":"1931828322013797179","title":"B cell receptor and Fc receptor signaling","description":"The cluster shows enrichment for B cell\u2013related signaling terms, notably the B cell receptor signaling pathway and Fc receptor signaling pathway, plus related terms like positive regulation of B cell tolerance and signal complex assembly, which together point to immune receptor signal transduction as the core function. There are a couple of VEGF-related terms present, but the B cell\u2013centered GO terms are the strongest and most specific signal for this cluster, with obsolete terms largely irrelevant to the core function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048010","count":2},{"id":"GO:0050853","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0051092","count":1},{"id":"GO:0010954","count":1}]},{"hash":"466270495205499064","title":"Macrophage Lipid Handling and Innate Immunity","description":"This cluster is dominated by terms tied to macrophage function: innate immune response, receptor-mediated endocytosis, apoptotic cell clearance, cytokine production in inflammation, lipoprotein transport, and positive regulation of cholesterol storage and foam cell differentiation. Together these point to macrophage-driven lipid uptake and inflammatory signaling, i.e., foam cell formation and lipid handling within the innate immune context. The spinal cord development term appears as an outlier, possibly due to annotation overlap, but does not override the dominant macrophage-lipid-immunity theme.","confidence":"Medium","size":12,"edges":44,"triangles":77,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":12},{"id":"GO:0021510","count":12},{"id":"GO:0070207","count":12},{"id":"GO:0042953","count":12},{"id":"GO:0006898","count":12}]},{"hash":"171010526517098532","title":"Schwann Cell Dynamics and Neuromuscular Function","description":"Top terms point to Schwann cell migration, neuromuscular signaling, neurofilament organization, and ECM/collagen biosynthesis, with supporting ceramide biosynthesis and protein turnover, indicating a theme of peripheral nerve maintenance and neuromuscular interaction rather than a single metabolic pathway.","confidence":"Medium","size":12,"edges":64,"triangles":201,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:1900148","count":2},{"id":"GO:0002238","count":2},{"id":"GO:0050881","count":2},{"id":"GO:0060052","count":2},{"id":"GO:0044257","count":2}]},{"hash":"1359501173031396147","title":"Complement and Fc receptor\u2013mediated immune signaling","description":"The top terms are dominated by immune-related processes: complement activation (lectin pathway), Fc-gamma receptor signaling, and leukocyte adhesion/rolling, plus regulation of NK cell chemotaxis. While there are a couple of kidney-development terms present, the prevailing pattern supports an immune signaling/activation theme rather than a renal developmental program. ","confidence":"High","size":12,"edges":25,"triangles":13,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":12},{"id":"GO:0072218","count":12},{"id":"GO:0072237","count":12},{"id":"GO:0060355","count":12},{"id":"GO:0090238","count":12}]},{"hash":"2137803099788279588","title":"GPCR signaling and metal ion transport","description":"The cluster's terms cluster around G protein-coupled receptor signaling and pheromone response, suggesting a receptor-mediated signaling theme. Concurrent copper ion transport/homeostasis terms and xenobiotic transport point to membrane transport and metal handling, with cisplatin response and cholesterol biosynthesis hinting at membrane-associated metabolism. Together they indicate a cohesive theme of membrane signaling and transport with metal homeostasis.","confidence":"Medium","size":12,"edges":25,"triangles":14,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0019236","count":1},{"id":"GO:0007186","count":1},{"id":"GO:1902311","count":1},{"id":"GO:0006878","count":1},{"id":"GO:0098705","count":1}]},{"hash":"2044830353138739095","title":"Unknown","description":"The top GO terms are highly diverse, spanning UV-B response, sensory and motor-related processes, muscle homeostasis, reproductive development, and stress responses. There is no clear shared pathway or tissue-specific function linking the proteins, and the network has no edges, suggesting no cohesive biological theme. Therefore a reliable, intuitive label cannot be assigned.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071493","count":2},{"id":"GO:0060088","count":1},{"id":"GO:0060087","count":1},{"id":"GO:0001975","count":1},{"id":"GO:0032930","count":1}]},{"hash":"575147504408796688","title":"Transmembrane Solute Transporters","description":"The proteins are enriched in GO terms for transmembrane transport of a wide range of substrates (galactose, vitamins, ions, nitrite/nitrate, sialic acid, xenobiotics), with a related metabolic term (fucose). This consistent theme points to a shared role as membrane transporters handling diverse solutes, rather than a single substrate pathway. Hence the label Transmembrane Solute Transporters is appropriate and representative.","confidence":"High","size":12,"edges":17,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":11},{"id":"GO:0035461","count":11},{"id":"GO:1900754","count":11},{"id":"GO:0035435","count":11},{"id":"GO:0071805","count":11}]},{"hash":"2276367574837874913","title":"Unknown","description":"The top GO terms span nervous signaling (dopamine receptor signaling, endocannabinoid signaling, operant conditioning), cardiovascular processes (regulation of cardiac muscle contraction, vasoconstriction), gastrointestinal/hormonal (histamine-induced gastric acid secretion), immune/inflammatory regulation (IL-1 beta production), cellular stress and apoptosis (osmotic stress\u2013related p53-mediated pathway), heat generation, and even a cell wall macromolecule catabolic process, indicating no single cohesive function linking all proteins. ","confidence":"","size":12,"edges":19,"triangles":7,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":12},{"id":"GO:0035106","count":12},{"id":"GO:0055117","count":12},{"id":"GO:0031649","count":12},{"id":"GO:1902239","count":12}]},{"hash":"626848391099495889","title":"Transcriptional Regulation and Cell Cycle Control","description":"The cluster centers on nuclear functions: transcriptional regulation (DNA-templated transcription, elongation control), chromatin dynamics (heterochromatin formation), DNA replication initiation, and mitotic checkpoint signaling. These collectively define a transcription-and-cell-cycle regulatory program, with RNA localization and a few tissue-specific annotations as minor outliers.","confidence":"High","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009190","count":5},{"id":"GO:0006351","count":5},{"id":"GO:1903468","count":4},{"id":"GO:0051237","count":4},{"id":"GO:0034244","count":4}]},{"hash":"2236676784184558150","title":"Fatty acid metabolism and lipid development","description":"The cluster features fatty acid biosynthesis (medium/short/elongation) and beta-oxidation, along with a starvation response, pointing to energy metabolism and lipid processing. Tissue-development terms for adipose, liver, and brain, plus lipid transport, suggest coordinated lipid handling across organs. The antibiotic biosynthetic term appears to be an outlier/annotation noise, but the dominant signal is lipid metabolism and related development.","confidence":"Medium","size":11,"edges":44,"triangles":100,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":5},{"id":"GO:0006635","count":4},{"id":"GO:0051792","count":4},{"id":"GO:0042594","count":4},{"id":"GO:0051790","count":4}]},{"hash":"457298414377793516","title":"Translation Initiation Regulation and mRNA Processing","description":"This cluster is enriched for GO terms governing translation initiation and its regulation (regulation of translational initiation, eIF4F complex assembly, formation of translation preinitiation complex, translation reinitiation) together with RNA processing and silencing activities (mRNA splice site recognition, mRNA modification, polyadenylation-related regulation, and miRNA/ncRNA-mediated translational silencing), indicating a coordinated set of proteins that modulate translation at initiation and post-transcriptional RNA processing.","confidence":"High","size":11,"edges":48,"triangles":123,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006446","count":9},{"id":"GO:0016556","count":9},{"id":"GO:0097010","count":9},{"id":"GO:0006376","count":9},{"id":"GO:0002188","count":9}]},{"hash":"518793819476980733","title":"DNA Replication and Mitosis Cluster","description":"The cluster's top GO terms cluster around nuclear DNA processes\u2014DNA-templated transcription, DNA replication, mitotic cell cycle, and mitotic sister chromatid cohesion\u2014indicating a core role in chromosome maintenance and segregation during cell division. Other terms point to stress and signaling contexts (ER stress, TGF-beta) that can modulate these core processes, but the dominant theme is replication and mitosis.","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070059","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0071560","count":3}]},{"hash":"1528847265300839331","title":"Peroxisomal Fatty Acid Oxidation and Carnitine Metabolism","description":"The terms cluster around beta-oxidation of fatty acids (including peroxisomal enzymes), carnitine biosynthesis/metabolism, and related energy-yielding processes, with starvation response and gluconeogenesis regulation as supporting themes; these together suggest a lipid-energy metabolism module, with liver development appearing as a supplementary note rather than the primary function. ","confidence":"High","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0033540","count":9},{"id":"GO:0019254","count":9},{"id":"GO:0019439","count":9},{"id":"GO:0006574","count":9},{"id":"GO:0042594","count":9}]},{"hash":"1811404456560642904","title":"DNA replication, repair, and transcription initiation","description":"The cluster consistently shows core DNA metabolism and transcription regulation terms, including DNA replication, nucleotide-excision repair, and RNA Pol II transcription initiation, with some related stress and developmental terms (hypoxia, viral replication, hair cell development) that may reflect broader roles in development or stress responses. Overall, the dominant theme is DNA maintenance and transcription control.","confidence":"High","size":11,"edges":46,"triangles":104,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0001111","count":4},{"id":"GO:0006367","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0001666","count":4}]},{"hash":"1935500668520406293","title":"Germ cell and gonad development with chromatin remodeling","description":"The cluster\u2019s top GO terms cluster around germ cell/gonad development (oogenesis, vitellogenesis, male gonad development) and chromatin dynamics (DNA replication-dependent chromatin assembly, pericentric heterochromatin formation, histone methylation regulation, heterochromatin formation). This suggests a coherent theme of development of germ cells/gonads together with chromatin remodeling processes. Some terms like brain development and innate immune mucosa may reflect broader expression patterns and are less central to the core theme. ","confidence":"Medium","size":11,"edges":47,"triangles":108,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0030466","count":3},{"id":"GO:0006335","count":3},{"id":"GO:0031508","count":2},{"id":"GO:0007296","count":2}]},{"hash":"1124661268543404100","title":"Unknown","description":"The GO terms cover ERAD regulation, chromatin remodeling, NF-kappaB signaling, mitochondrial fission, nuclear membrane reassembly, lipid droplet organization, and chromatid biorientation. The set is too heterogeneous to define a single cohesive function or pathway, so a clear cluster label is not justifiable.","confidence":"","size":11,"edges":15,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0043044","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0090141","count":2},{"id":"GO:0090073","count":2}]},{"hash":"469372738962558295","title":"Mitotic Chromosome Segregation and Chromatin Modification","description":"The top terms emphasize mitosis (spindle assembly, cohesion), DNA repair via homologous recombination, and chromatin regulation (histone methylation), suggesting a cohesive role in chromosome segregation and genome maintenance, with developmental processes reflecting broader cell-division needs.","confidence":"Medium","size":11,"edges":25,"triangles":17,"max_degree":7,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0008584","count":3},{"id":"GO:0021510","count":3}]},{"hash":"65408596995879582","title":"Chromatin remodeling and Pol II transcription control","description":"The cluster is enriched for GO terms about RNA polymerase II\u2013mediated transcription regulation and chromatin dynamics, including transcription initiation-coupled chromatin remodeling, DNA replication\u2013dependent chromatin assembly, rDNA heterochromatin formation, and histone modification. This suggests a cohesive role in modulating chromatin state to regulate transcription, particularly by Pol II, with ancillary links to preinitiation complex assembly. ","confidence":"High","size":11,"edges":51,"triangles":135,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0045815","count":11},{"id":"GO:0051290","count":11},{"id":"GO:0000183","count":11},{"id":"GO:0006335","count":11}]},{"hash":"584662691053536330","title":"Hormone- and stress-response with DNA repair","description":"The Top Terms cluster around hormone responses (estradiol, glucocorticoid stimuli), oxidative stress regulation (peroxidase activity, superoxide generation), DNA repair (NER), and inflammatory signaling control (TNF/IL-1\u03b2). This combination suggests a cohesive theme of cellular stress and hormonal signaling coordinating genome maintenance and inflammatory regulation.","confidence":"Medium","size":11,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0032355","count":10},{"id":"GO:2000469","count":10},{"id":"GO:0071385","count":10},{"id":"GO:0006289","count":10},{"id":"GO:0032930","count":10}]},{"hash":"859102210966717719","title":"Epithelial polarity and cytoskeleton organization","description":"The top GO terms cluster around epithelial cell structure and dynamics: focal adhesion assembly, protein localization to the plasma membrane, actin crosslink formation, and establishment/maintenance of cell polarity regulating cell shape, plus terminal web assembly\u2014all hallmarks of epithelial polarity and cytoskeletal organization. Some terms like intestinal glucose absorption and negative thymic T cell selection are more tangential, but the dominant theme is cytoskeleton-driven polarity and membrane\u2013adhesion organization in epithelial cells, suggesting proteins that coordinate apico-basal polarity and actin networks.","confidence":"Medium","size":11,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048041","count":2},{"id":"GO:0072661","count":2},{"id":"GO:0045060","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0007182","count":1}]},{"hash":"1081728005554079736","title":"Mitotic spindle assembly and chromatid cohesion","description":"The strongest terms cluster around mitosis: spindle assembly, cell cycle, and negative regulation of mitotic sister chromatid cohesion, suggesting these proteins primarily function in mitotic chromosome separation; other terms like lipid catabolism and immune signaling likely reflect ancillary annotations or secondary roles.","confidence":"High","size":11,"edges":44,"triangles":93,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":4},{"id":"GO:1904908","count":4},{"id":"GO:0046475","count":3},{"id":"GO:1901594","count":3},{"id":"GO:0070431","count":3}]},{"hash":"86130282739327727","title":"Endothelial adhesion and coagulation","description":"The top GO terms cluster around endothelial biology and hemostasis (cell-matrix adhesion, blood coagulation, endothelial activation/differentiation), indicating a vascular/epithelial maintenance function. A few terms like BMP signaling regulation and GI epithelium maintenance may reflect broader tissue homeostasis, but the dominant theme is endothelial adhesion and coagulation.","confidence":"Medium","size":11,"edges":39,"triangles":69,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":8},{"id":"GO:0007596","count":8},{"id":"GO:0010951","count":7},{"id":"GO:0042118","count":6},{"id":"GO:0045446","count":5}]},{"hash":"1724011840856492684","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":16,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1903779","count":3},{"id":"GO:0009749","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0042098","count":2},{"id":"GO:0007179","count":2}]},{"hash":"400194025211282801","title":"Unknown","description":"The top terms span ER stress response, cell cycle/division, transcription, endocytosis, protein modification, and neuronal development, with no single dominant function tying all 11 proteins together. This diversity makes it hard to assign a specific, representative label, so Unknown is the most appropriate. ","confidence":"","size":11,"edges":17,"triangles":11,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034976","count":4},{"id":"GO:0007049","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006897","count":3}]},{"hash":"430858289022535636","title":"Hormone signaling and steroid metabolism","description":"The top GO terms point to responses to luteinizing and growth hormones and to steroid-related processes (progesterone biosynthesis, glucocorticoid metabolism, bile acid biosynthesis, cholesterol esterification), suggesting a cohesive theme around hormone signaling and steroid metabolism. Some other terms (circadian rhythm, heart morphogenesis) reflect broader developmental regulation that can be influenced by hormonal cues, but the core signal is hormone response and steroid pathways.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071373","count":1},{"id":"GO:0070859","count":1},{"id":"GO:0010072","count":1},{"id":"GO:0071378","count":1},{"id":"GO:0006701","count":1}]},{"hash":"1780323816759924064","title":"Unknown","description":"The cluster\u2019s top GO terms are diverse across species and biology (spermatid development, leaf morphogenesis/vascular patterning, bone resorption, mitochondrial signaling, synaptic vesicle exocytosis, endosome-to-Golgi transport, and CAMKK-AMPK regulation), with no single cohesive function tying them together. This suggests no clear unified theme for the protein cluster.","confidence":"","size":11,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":4},{"id":"GO:0009965","count":3},{"id":"GO:1905289","count":3},{"id":"GO:1903217","count":3},{"id":"GO:0090394","count":3}]},{"hash":"1454039581923506904","title":"Chromatin modification and transcription in development","description":"This cluster is characterized by GO terms for DNA-templated transcription and nucleosome assembly, along with histone modification processes (H3K4/H3K27 methylation and acetylation). These point to chromatin regulation and transcription control as the core function. The presence of developmental terms (antennal and photoreceptor development) suggests involvement in developmental gene expression, consistent with chromatin remodeling roles in development. Some terms are historical/obsolete, but the overall theme remains chromatin-mediated transcription regulation during development.","confidence":"High","size":11,"edges":9,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006334","count":2},{"id":"GO:2001040","count":2},{"id":"GO:0044648","count":2},{"id":"GO:0098532","count":2}]},{"hash":"1750641147851067127","title":"Cardiac Muscle Assembly and Contraction","description":"These proteins cluster around cardiac-specific processes: heart development, myofibril and myosin II filament assembly, cardiac muscle contraction, and hypertrophy, with supporting signals for muscle fiber type switching and muscle cell fate specification. A few terms (e.g., peripheral myelination or muramyl dipeptide response) appear as outliers, but the dominant theme is cardiac muscle structure and function.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055003","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0031036","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0022011","count":2}]},{"hash":"793465196135833854","title":"Apoptosis and Innate Immune Signaling","description":"Dominant terms point to regulated cell death (apoptosis, pyroptosis) and innate immune signaling, with ubiquitination as a key regulatory process. A few outliers (development, hyaluronan synthesis, angiogenesis) may reflect broader roles or annotation noise, but the central theme remains cell death and immune response.","confidence":"Medium","size":11,"edges":49,"triangles":126,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":5},{"id":"GO:0006915","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0016567","count":4},{"id":"GO:1990001","count":4}]},{"hash":"69258418830080768","title":"Innate Immune Signaling and Defense","description":"The top GO terms point to innate immunity: regulation of IL-18 production, antibacterial peptide biosynthesis, Toll-like receptor 1 signaling, and defense against Gram-positive bacteria, as well as NF-kappaB signaling involvement. While some terms touch on development and trafficking, the core theme across the cluster is innate immune signaling and host defense, with some pleiotropic annotations likely contributing to the broader functional landscape.","confidence":"Medium","size":11,"edges":41,"triangles":76,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0032741","count":2},{"id":"GO:0006963","count":2},{"id":"GO:0051901","count":2},{"id":"GO:1905279","count":2},{"id":"GO:0007409","count":2}]},{"hash":"2224848869234924372","title":"Nucleotide salvage pathways","description":"This cluster is dominated by GO terms for salvaging nucleosides and nucleobases (guanosine, uridine, cytidine, inosine, nicotinate nucleotide salvage, NAD salvage) and for interconversions among nucleobases, nucleosides, and nucleotides, plus related pyrimidine/purine metabolism. A minor connection to the TCA cycle is present, but the core theme is nucleotide salvage and catabolism.","confidence":"High","size":11,"edges":48,"triangles":112,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006179","count":4},{"id":"GO:0006218","count":4},{"id":"GO:0015949","count":4},{"id":"GO:0006152","count":4},{"id":"GO:0006216","count":4}]},{"hash":"1849107372487798246","title":"Endocytosis and ECM remodeling","description":"The cluster's top GO terms center on receptor internalization, endocytosis, extracellular matrix (ECM) disassembly and collagen catabolic regulation, and integrin-mediated adhesion with endothelial migration, indicating a cohesive theme of cell-surface trafficking and ECM remodeling. Some terms (antibiotic biosynthetic process, nicotine catabolic process, behavioral fear response) seem unrelated, likely representing annotation noise or distant associations.","confidence":"Medium","size":11,"edges":19,"triangles":11,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0001662","count":3},{"id":"GO:0010716","count":3},{"id":"GO:0010710","count":3}]},{"hash":"902676600664099029","title":"Cytokinesis and Cell Division Proteins","description":"This cluster is dominated by GO terms related to cytokinesis and cell division (FtsZ-dependent cytokinesis, cell cycle, mitotic/ cytokinesis, mitotic spindle pole body duplication, division site positioning, and septum assembly), suggesting a cohesive group of proteins involved in the machinery of cell division. A couple of terms concern neuronal or immune responses, which seem incidental noise relative to the main theme.","confidence":"Medium","size":11,"edges":29,"triangles":34,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0043093","count":5},{"id":"GO:0007049","count":5},{"id":"GO:0055114","count":4},{"id":"GO:1905792","count":4},{"id":"GO:0051258","count":4}]},{"hash":"2070293322712385935","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":13,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0016042","count":4},{"id":"GO:2000884","count":4},{"id":"GO:0007283","count":4},{"id":"GO:0045493","count":4},{"id":"GO:0016239","count":4}]},{"hash":"1931314394988478162","title":"Immune signaling and cytoskeleton remodeling","description":"This cluster combines strong signals for adaptive immune processes (adaptive immune response, T cell receptor signaling, NF-kappaB regulation, type I interferon signaling) with indications of cytoskeletal dynamics (actin filament branching, Rho signaling) and ubiquitination, suggesting a coordinated module where immune activation is linked to cytoskeletal remodeling and cellular movement. The vascular morphogenesis term may reflect downstream or contextual roles in immune-related signaling or tissue remodeling.","confidence":"High","size":11,"edges":49,"triangles":122,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":11},{"id":"GO:0002250","count":11},{"id":"GO:0051092","count":9},{"id":"GO:0010954","count":8},{"id":"GO:0032271","count":8}]},{"hash":"1641403948917802860","title":"Ubiquitin-Dependent ERAD and Immune Regulation","description":"The cluster is driven by ubiquitin-related processes (protein ubiquitination and deubiquitination) and ER-associated degradation (ERAD), with several terms pointing to modulation of innate immune signaling (negative regulation of TLR3, type I IFN, and IL-1\u03b2 production). A secondary term on nucleotide-excision repair is present but less central. This points to a shared theme of ubiquitin-mediated protein quality control coupled with immune signaling regulation.","confidence":"Medium","size":11,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0034140","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0016567","count":1},{"id":"GO:0071947","count":1}]},{"hash":"2302275402529794415","title":"Chromatin modification and transcription regulation","description":"The GO terms center on histone post-translational modifications (H3-K23 acetylation, H3-K27 methylation), nucleosome assembly, and transcriptional regulation, suggesting a role in chromatin state and gene expression control. The presence of negative regulation of transcription by RNA polymerase II and chromatin-related processes supports a chromatin-modifying function, with spindle assembly indicating involvement in cell division contexts. Some terms are obsolete, but the core theme remains chromatin remodeling and transcriptional control.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010216","count":1},{"id":"GO:0043972","count":1},{"id":"GO:0097536","count":1},{"id":"GO:0061086","count":1},{"id":"GO:0045869","count":1}]},{"hash":"1557583553391363578","title":"Immune Receptor Signaling and Neural Morphogenesis","description":"The cluster shows strong representation of adaptive immune signaling (T cell receptor signaling, B cell receptor signaling, B cell affinity maturation) and NK regulation, alongside morphogenesis terms for midbrain, cerebellum, and mammary gland branching, suggesting a group of proteins involved in signaling during immune responses and organ development. The common thread is signaling activity across immune and developmental contexts; pathways like Rho signaling and ER stress-related translation may underlie these processes.","confidence":"Medium","size":11,"edges":52,"triangles":140,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:1904693","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0045953","count":6},{"id":"GO:0036493","count":6}]},{"hash":"1621102626097538979","title":"Diversified Transmembrane Transporters","description":"The GO terms show a consistent theme of transmembrane transport across a wide range of substrates (galactose, vitamins, ions, nitrite/nitrate, sialic acid, xenobiotics, etc.), indicating a cluster of membrane transporter proteins with diverse cargo.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":8},{"id":"GO:0035461","count":8},{"id":"GO:1900754","count":8},{"id":"GO:0035435","count":8},{"id":"GO:0071805","count":8}]},{"hash":"1159016864240041974","title":"Bone and cartilage development and mineralization","description":"This cluster is enriched for skeletal-related processes, notably positive regulation of chondrocyte differentiation andBone mineralization, suggesting a cohesive theme around bone and cartilage formation and mineralization during development. While there are some additional developmental terms (lung alveolus and embryonic digestive tract) and metabolism/traf\ufb01cking terms, the strongest, recurrent signals center on skeletal tissue development and mineralization.","confidence":"Medium","size":11,"edges":10,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032332","count":2},{"id":"GO:0048286","count":2},{"id":"GO:0030501","count":2},{"id":"GO:0042997","count":2},{"id":"GO:0048566","count":2}]},{"hash":"485701967506660132","title":"Golgi retention and vesicle trafficking proteins","description":"Most of the top GO terms point to Golgi apparatus retention (GO:0045053) and endosomal vesicle fusion (GO:0034058), suggesting a shared role in intracellular trafficking and Golgi maintenance. A few other terms (meristem maintenance, premeiotic DNA replication, etc.) are sparse and seem unrelated, so the core theme remains Golgi trafficking. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045053","count":2},{"id":"GO:0010073","count":1},{"id":"GO:0006279","count":1},{"id":"GO:0000381","count":1},{"id":"GO:0080009","count":1}]},{"hash":"1175215388034988796","title":"T and B cell receptor signaling","description":"Dominant terms are T cell receptor signaling, B cell receptor signaling, and B cell affinity maturation, with NF-kappaB-related regulation and cytokine amplification, supporting a theme of adaptive immune receptor signaling and lymphocyte activation; other terms like Wnt signaling and angiogenesis may reflect broader signaling cross-talk but do not redefine the core function.","confidence":"High","size":11,"edges":48,"triangles":123,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":10},{"id":"GO:0050852","count":10},{"id":"GO:0045401","count":10},{"id":"GO:1900086","count":10},{"id":"GO:0060444","count":10}]},{"hash":"1784961576349496292","title":"Organogenesis and neural development","description":"The terms cluster around morphogenesis and organ development across multiple tissues (kidney, lymphatic, ovary, lung, nipple) with additional neural development components (axon extension and fasciculation), suggesting a general organogenesis theme rather than a single pathway.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0072287","count":9},{"id":"GO:0072237","count":9},{"id":"GO:0036303","count":9},{"id":"GO:0048846","count":7},{"id":"GO:0060658","count":6}]},{"hash":"459033942553443868","title":"Arabinogalactan Protein glycosylation and root hair development","description":"The top GO terms are dominated by arabinogalactan protein (AGP) metabolism and glycosylation processes (arabinogalactan protein metabolic process, poly-N-acetyllactosamine biosynthetic process, Lewis a epitope biosynthetic process, and related O-linked glycosylation terms) along with plant-related developmental processes such as root hair cell development and seed mucilage biosynthesis. This pattern points to a cluster of plant cell surface glycoproteins (AGPs) and their glycosylation pathways, tied to cell wall biosynthesis and root/seed development rather than other organisms. ","confidence":"High","size":11,"edges":50,"triangles":125,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":8},{"id":"GO:0006486","count":5},{"id":"GO:0042248","count":5},{"id":"GO:0010405","count":5},{"id":"GO:0048354","count":5}]},{"hash":"1708436774889939911","title":"Developmental ECM remodeling and angiogenesis regulation","description":"The top GO terms cluster around developmental processes, notably collagen fibril organization and limb bud formation, as well as atrial septum morphogenesis and negative regulation of angiogenesis and endothelial chemotaxis. This points to a theme of coordinated tissue remodeling during organogenesis where ECM structure and blood vessel formation are tightly controlled. Additional terms on engulfment of apoptotic cells and immune signaling suggest broader tissue homeostasis during development, but the core signal is developmental ECM/angiogenesis regulation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001558","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0010751","count":3},{"id":"GO:0060174","count":3},{"id":"GO:0060413","count":3}]},{"hash":"2220621681947418020","title":"Unknown","description":"The GO terms span diverse processes: immune signaling (TLR1, IL-18 production, antibacterial peptide biosynthesis, defense against Gram-positive bacteria), endocrine signaling (luteinizing hormone and thyroid-stimulating hormone pathways), neuronal development (axonogenesis), and developmental axis patterning. There is no single cohesive theme tying these terms together, suggesting either multifunctional proteins or broad/overlapping annotations. ","confidence":"","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071373","count":11},{"id":"GO:0032741","count":11},{"id":"GO:0006963","count":11},{"id":"GO:0051901","count":11},{"id":"GO:1905279","count":11}]},{"hash":"876829637686294883","title":"Macrophage Lipid Handling and Innate Immunity","description":"The cluster centers on macrophage-related innate immune activities (innate immune response, inflammatory cytokine production, apoptotic cell clearance, receptor-mediated endocytosis) and lipid-related processes (lipoprotein transport, cholesterol storage, foam cell differentiation). While a developmental term appears, the dominant signals point to macrophage-driven immune responses coupled with lipid metabolism, justifying this label as representative and specific.","confidence":"High","size":11,"edges":25,"triangles":24,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":11},{"id":"GO:0021510","count":11},{"id":"GO:0070207","count":11},{"id":"GO:0042953","count":11},{"id":"GO:0006898","count":11}]},{"hash":"1386030473947356982","title":"Cardiovascular development and vascular remodeling","description":"The cluster\u2019s top GO terms strongly point to heart and vessel biology: pericardium morphogenesis, sprouting angiogenesis, smooth muscle proliferation, PDGF production, and regulation of blood pressure and GPCR-mediated signaling related to autonomic control of the cardiovascular system. A minor outlier term on keratinocyte differentiation is likely incidental. Overall, the terms cohere around cardiovascular development and vascular remodeling processes, with inflammatory/chemokine signaling modulation as a supporting theme.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043154","count":10},{"id":"GO:0003344","count":10},{"id":"GO:0048661","count":10},{"id":"GO:0061476","count":10},{"id":"GO:0090050","count":10}]},{"hash":"1649733446521854713","title":"Neurodevelopment and organogenesis","description":"The terms point to differentiation and development across neural lineages (spinal cord neuron and oligodendrocyte fate, GABAergic interneurons) and broader organogenesis processes (bronchiole, pancreas development, cartilage morphogenesis, EMT in heart development). This suggests a general developmental program spanning neural differentiation and tissue morphogenesis, hence a label that combines neurodevelopment with organogenesis. ","confidence":"High","size":11,"edges":20,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060435","count":4},{"id":"GO:0021530","count":4},{"id":"GO:0006366","count":4},{"id":"GO:0021520","count":4},{"id":"GO:0021892","count":4}]},{"hash":"1959287457969633371","title":"Synaptic signaling and vesicle trafficking","description":"The cluster aggregates proteins linked to synaptic function (long-term potentiation, receptor localization to the synapse) and signaling (cAMP biosynthesis), with several vesicular and Golgi-related processes (vesicle fusion with Golgi, Golgi ribbon formation) and autophagosome maturation. This combination suggests roles in modulating synaptic transmission through vesicle trafficking and secretory pathways, rather than a single, narrow function. ","confidence":"Medium","size":11,"edges":23,"triangles":23,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006171","count":2},{"id":"GO:0003031","count":2},{"id":"GO:1902685","count":1},{"id":"GO:0060291","count":1},{"id":"GO:0010811","count":1}]},{"hash":"1491197870940337480","title":"Complement-ECM Interaction in Angiogenesis","description":"This cluster is enriched for immune-related processes (complement activation) alongside extracellular matrix remodeling (collagen fibril organization, cell-matrix adhesion) and cells\u2019 adhesive interactions, with both promotion and inhibition of angiogenesis described (sprouting angiogenesis, negative regulation of angiogenesis). The common thread appears to be immune-ECM cross-talk that shapes vascular remodeling and leukocyte recruitment during tissue repair or inflammation.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":5},{"id":"GO:0030199","count":5},{"id":"GO:0001867","count":3},{"id":"GO:0007160","count":3},{"id":"GO:0050901","count":3}]},{"hash":"677566339106411585","title":"Complement-Activated Innate Immune Response","description":"This cluster is dominated by GO terms for innate immunity and complement pathways (complement activation classical pathway and innate immune response) along with phagocytic clearance (receptor-mediated endocytosis, apoptotic cell clearance) and inflammatory signaling (cytokine production). Lipid handling terms may reflect macrophage involvement in inflammation. A spinal cord development term appears tangential. Overall, the core theme is innate immune defense and clearance, likely related to macrophage/dendritic cell functions.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":11},{"id":"GO:0045087","count":10},{"id":"GO:0021510","count":10},{"id":"GO:0070207","count":10},{"id":"GO:0042953","count":10}]},{"hash":"1666630966904155558","title":"Fatty acid elongation and vesicle transport","description":"The main signals are lipid-related: very long-chain fatty acid biosynthesis, multiple fatty acid elongation terms (saturated and polyunsaturated), and long-chain fatty-acyl-CoA biosynthesis, pointing to fatty acid biosynthesis and elongation as a central theme. The presence of post-Golgi vesicle-mediated transport and endosome-to-vacuole transport terms suggests a link between lipid metabolism and membrane trafficking. Some organism-level terms (swim bladder development, courtship behavior, pheromone metabolism) may reflect species-specific contexts or downstream phenotypes, but the core cluster appears to revolve around lipid production and vesicle trafficking.","confidence":"Medium","size":11,"edges":31,"triangles":45,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042761","count":3},{"id":"GO:0006892","count":2},{"id":"GO:0019367","count":2},{"id":"GO:0035338","count":2},{"id":"GO:0042810","count":2}]},{"hash":"847334367787988344","title":"Renal development and innate immune signaling","description":"The cluster is enriched for metanephric kidney development terms (ascending limb, proximal tubule, mesonephric duct) alongside innate immune and leukocyte trafficking signals (complement activation, Fc-gamma receptor signaling, leukocyte tethering/rolling, NK cell chemotaxis regulation, arachidonate signaling). This suggests a cohesive module linking kidney morphogenesis with local immune and endothelial interactions.","confidence":"Medium","size":11,"edges":23,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":4},{"id":"GO:0072218","count":4},{"id":"GO:0072237","count":4},{"id":"GO:0060355","count":4},{"id":"GO:0090238","count":4}]},{"hash":"1316883339527557704","title":"Neuronal Synaptic Transmission and Plasticity","description":"The cluster is dominated by GO terms related to synaptic activity and plasticity, including long-term synaptic potentiation, neurotransmitter secretion, regulation of synaptic vesicle exocytosis, and calcium ion signaling, pointing to neuronal communication and activity-dependent plasticity. Some accompanying terms (PI signaling, VEGF signaling) may reflect broader signaling roles but do not override the central synaptic theme.","confidence":"High","size":11,"edges":9,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0030948","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0009738","count":3},{"id":"GO:0071277","count":3}]},{"hash":"1242173584799526935","title":"Neuronal Axon Guidance and Adhesion","description":"The GO terms cluster around neuronal connectivity, including Roundabout signaling and retinal ganglion cell axon guidance, peripheral nervous system axon regeneration, and interneuron migration chemorepulsion, plus multiple adhesion-related terms (cell\u2013cell and cell\u2013matrix adhesion, hemidesmosome assembly) and synapse assembly. This combination points to a cohesive function in axon pathfinding, migration, and synapse formation governed by adhesion mechanisms.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035385","count":4},{"id":"GO:0031290","count":4},{"id":"GO:0014012","count":4},{"id":"GO:0007156","count":4},{"id":"GO:0048692","count":4}]},{"hash":"1119389280378733871","title":"Neuroendocrine signaling and organ development","description":"The GO terms show a blend of signaling and developmental processes: corticotropin secretion and cAMP-related signaling point to neuroendocrine communication; membrane hyperpolarization suggests neural activity; and the development terms (lung morphogenesis, seminiferous tubule development, maintenance of organ identity, BBB establishment) indicate broader tissue and organogenesis roles. This pattern supports a theme around neuroendocrine regulation intersecting with organ development, though the terms are diverse enough to prevent a single narrowly defined function.","confidence":"Medium","size":11,"edges":14,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001954","count":2},{"id":"GO:0060081","count":2},{"id":"GO:0051867","count":1},{"id":"GO:0051458","count":1},{"id":"GO:0006171","count":1}]},{"hash":"643574926720208739","title":"Membrane Transporters for Nutrients","description":"These proteins cluster around GO terms for transmembrane transport of small molecules and vitamins (glucose, inositol, biotin, pantothenate) and ion export, suggesting a shared role in moving nutrients across membranes. The acetylcholine biosynthetic process is a related neural metabolism term and does not contradict the dominant transport theme; overall, the group is best described as nutrient/solute transporters.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":11},{"id":"GO:0071436","count":11},{"id":"GO:0015798","count":11},{"id":"GO:0015878","count":11},{"id":"GO:0015887","count":11}]},{"hash":"1908469141450497429","title":"GPCR-Mediated Signaling and Cardiovascular Regulation","description":"The cluster is enriched for GPCR-related signaling terms, including dopamine receptor signaling, trans-synaptic endocannabinoid signaling, histamine-induced gastric acid secretion, and regulation of vasoconstriction and cardiac contraction, suggesting a cohesive theme around GPCR-driven communication affecting neural and cardiovascular physiology. Some terms touch on immune or stress responses, but the dominant pattern centers on receptor-mediated signaling across tissues.","confidence":"Medium","size":11,"edges":51,"triangles":131,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":11},{"id":"GO:0035106","count":11},{"id":"GO:0055117","count":11},{"id":"GO:0031649","count":11},{"id":"GO:1902239","count":11}]},{"hash":"2201768566978391605","title":"Mitochondrial Transporters and Metabolic Shuttles","description":"The cluster centers on transport across mitochondrial membranes (ADP, phosphate, CoA, ornithine) and the malate-aspartate shuttle, with related regulation of mitochondrial membrane permeability. Additional terms reflect mitochondrial-associated stress responses and metabolism (amino acid starvation, thermogenesis, liver regeneration) and necroptosis regulation, pointing to a cohesive theme of mitochondrial transport/metabolism.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0015866","count":9},{"id":"GO:0035435","count":9},{"id":"GO:0034198","count":9},{"id":"GO:0000066","count":9},{"id":"GO:0046902","count":9}]},{"hash":"426738854235411074","title":"Translational control and RNA silencing","description":"The proteins here are enriched for mRNA regulation and translation-related GO terms (regulation of translational initiation, formation of the preinitiation complex, translation reinitiation, miRNA/ncRNA-mediated gene silencing, mRNA modification, and stress-related mRNA stability). The strongest signals center on controlling translation initiation and RNA-guided silencing, indicating a cohesive theme of post-transcriptional gene expression regulation at the RNA level.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0006446","count":4},{"id":"GO:0016556","count":4},{"id":"GO:0097010","count":4},{"id":"GO:0006376","count":4}]},{"hash":"799317409450845252","title":"Genome maintenance and chromatin remodeling","description":"This cluster is enriched for DNA replication and repair (NER, transcription-coupled repair, translesion synthesis) and chromatin organization (subtelomeric heterochromatin formation), suggesting a core role in genome maintenance and chromatin dynamics, with some cytoskeletal associations reflected by actin-related terms.","confidence":"High","size":10,"edges":37,"triangles":77,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006289","count":3},{"id":"GO:0006283","count":3},{"id":"GO:0006366","count":3},{"id":"GO:0006348","count":3}]},{"hash":"1684387330692728317","title":"DNA Repair and Transcription Regulation","description":"This cluster centers on DNA damage response and transcription control, with terms for nucleotide-excision repair, DNA topology changes, and RNA polymerase II promoter initiation/clearance. The presence of SOS response and DNA repair annotations supports a damage-response theme, while transcription-related terms tie in the regulation of gene expression during stress. Some other terms (immune signaling, hypoxia, development) hint at broader stress roles but do not override the core connection to DNA repair and transcription machinery.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":5},{"id":"GO:0032508","count":5},{"id":"GO:0001111","count":4},{"id":"GO:0006265","count":4},{"id":"GO:0006289","count":4}]},{"hash":"2248460671863285064","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":15,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0006541","count":2},{"id":"GO:0070981","count":2},{"id":"GO:0006189","count":2},{"id":"GO:0033050","count":2}]},{"hash":"243603659748396751","title":"Embryonic patterning and organogenesis","description":"The set centers on early development and tissue formation, with several GO terms for left-right patterning, mesoderm and heart cushion EMT, cartilage morphogenesis, placenta/embryonic development, and pancreas endocrine development, indicating a coherent theme of embryogenesis and organ morphogenesis. General processes like mRNA splicing and p53-mediated DNA damage response may support these programs but are not the core theme.","confidence":"High","size":10,"edges":26,"triangles":31,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0060972","count":5},{"id":"GO:0060707","count":3},{"id":"GO:0003198","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0035270","count":3}]},{"hash":"1073207119210508500","title":"Aminoacyl-tRNA Synthetases and Translation Fidelity","description":"The cluster is dominated by tRNA aminoacylation terms for multiple amino acids (Met, Leu, Val, Ile, Cys) and overarching translation and regulation of translational fidelity, pointing to a core set of translation machinery components. A minor presence of Group I intron splicing and mycothiol biosynthesis suggests additional but weaker connections, but the strongest signal is tRNA charging and protein synthesis. ","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006431","count":10},{"id":"GO:0006429","count":10},{"id":"GO:0006438","count":9},{"id":"GO:0006412","count":9},{"id":"GO:0006450","count":9}]},{"hash":"2268914938686241989","title":"MAPK signaling in development and cell fate","description":"This cluster\u2019s terms cluster around ERK/MAPK cascade regulation and associated phosphorylation, with downstream links to cell fate decisions such as apoptosis, neural development (axonogenesis), and skeletal development (cartilage condensation). Immune-response terms also appear, which is consistent with MAPK pathways\u2019 roles in stress and defense signaling. Overall, the common theme is MAPK/ERK\u2013driven signaling coordinating development and cell fate outcomes.","confidence":"High","size":10,"edges":18,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0032092","count":4},{"id":"GO:0033138","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0007601","count":4}]},{"hash":"848051121412854435","title":"Histone modification and chromatin assembly","description":"The terms point to chromatin regulation: histone acetylation (H3/H4), nucleosome assembly, heterochromatin formation, replication fork protection, and regulation of transcription elongation, all reflecting chromatin organization and control of gene expression.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":4},{"id":"GO:0043982","count":3},{"id":"GO:0048478","count":3},{"id":"GO:0043966","count":3},{"id":"GO:0043981","count":3}]},{"hash":"410771808048664732","title":"Unknown","description":"The top GO terms cover a mix of development (lung development, neuron differentiation), DNA repair (NHEJ), RNA processing and translation regulation (exosome-dependent transcription termination, eIF2\u03b1 dephosphorylation), and metabolism (AMP catabolic process, adenosine biosynthesis, mevalonate pathway). There is no single cohesive biological theme linking these functions, suggesting the proteins do not share a common, interpretable role as a cluster beyond being annotated to diverse processes.  ","confidence":"","size":10,"edges":13,"triangles":5,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030324","count":4},{"id":"GO:1903244","count":3},{"id":"GO:2001034","count":3},{"id":"GO:0006196","count":3},{"id":"GO:0046086","count":3}]},{"hash":"1761335584973690767","title":"Nuclear transcription regulation","description":"The cluster is dominated by GO terms for DNA-templated transcription, negative regulation of transcription by RNA polymerase II, and regulation of DNA binding, alongside terms related to nuclear transport and ER stress response. This points to a cohesive set of proteins involved in controlling gene expression within the nucleus, with a possible stress-responsive regulatory aspect. ","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045454","count":10},{"id":"GO:0006351","count":9},{"id":"GO:0018401","count":9},{"id":"GO:0043388","count":9},{"id":"GO:0000122","count":9}]},{"hash":"1923273034359781509","title":"RNA Methylation and Translation","description":"The most represented GO terms center on methylation (peptidyl-arginine and rRNA base methylation) and translation, suggesting a cluster tied to RNA modification and ribosome-associated protein synthesis. Other biosynthetic terms appear less cohesive with this core theme, likely representing peripheral annotations.","confidence":"Medium","size":10,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019919","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0090398","count":2},{"id":"GO:0043985","count":2},{"id":"GO:0009236","count":2}]},{"hash":"2248848192820879882","title":"Translation Initiation Regulation and Protein Turnover","description":"The cluster is dominated by GO terms involving regulation and formation of translation initiation complexes, including IRES-dependent initiation, pointing to a core theme of translational control. Supporting terms highlight protein turnover (proteasomal and modification-dependent catabolic processes) and protein trafficking to mitochondria and the ER, suggesting coordinated proteostasis with translation. Some terms are context-specific (germ-line cyst encapsulation) but do not override the central translation/proteostasis theme. Confidence: Medium","confidence":"","size":10,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0048140","count":3},{"id":"GO:0000338","count":3},{"id":"GO:0075522","count":3}]},{"hash":"741941823519565242","title":"Neuronal signaling and sensory perception","description":"The top GO terms cluster around neuronal signaling and sensory processes, including ion transmembrane transport (Na+/K+ channels), GPCR glutamate receptor signaling, detection of chemical stimuli, visual learning, and regulation of short-term synaptic plasticity. Together these suggest a coherent theme of neuronal communication and sensory perception, despite a couple of metabolic terms that appear in the set.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010157","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0010226","count":2}]},{"hash":"54411655178968798","title":"Unknown","description":"The top GO terms span immune complement activation, blood pressure regulation, renal sodium handling, collagen organization, neural development, endocytosis, cholesterol storage, and protein deamination. This broad mix suggests no single cohesive function for the cluster, likely due to diverse annotations or multi-functional proteins, so a specific functional label isn\u2019t justifiable.","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006958","count":9},{"id":"GO:0003050","count":6},{"id":"GO:0001867","count":6},{"id":"GO:0030199","count":6},{"id":"GO:0035813","count":5}]},{"hash":"361425739011093812","title":"Signaling Pathway Inhibitors and Synaptic Regulation","description":"The GO terms collectively point to proteins that dampen signaling across multiple pathways (MAPK/ERK, PI3K/AKT) and immune signaling (T cell receptor). The inclusion of peptidyl-tyrosine dephosphorylation suggests phosphatase-mediated inhibition, while postsynaptic density assembly and negative regulation of synaptic vesicle clustering indicate regulation of synaptic structure and neurotransmission. This convergence supports a label for inhibitors of signaling with a synaptic regulation focus.","confidence":"High","size":10,"edges":32,"triangles":48,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":8},{"id":"GO:2000808","count":7},{"id":"GO:0050860","count":7},{"id":"GO:0097107","count":7},{"id":"GO:0000200","count":7}]},{"hash":"954522370730382516","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":23,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001680","count":5},{"id":"GO:0006203","count":5},{"id":"GO:0015969","count":5},{"id":"GO:0006808","count":5},{"id":"GO:0006402","count":5}]},{"hash":"819511314734682452","title":"Endosomal trafficking and GTPase regulation","description":"This cluster\u2019s top GO terms point mainly to endosomal trafficking and vesicle secretion (protein localization to endosome; exosomal secretion) plus regulatory control of trafficking via GTPases (positive regulation of GTPase activity). Other terms are more disparate, but the strongest signals converge on intracellular transport through endosomes and related regulation.","confidence":"Medium","size":10,"edges":29,"triangles":38,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000060","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0071230","count":4},{"id":"GO:0036010","count":3},{"id":"GO:1990182","count":3}]},{"hash":"2075636498229132934","title":"Plant cell division and microtubule dynamics","description":"Top GO terms cluster around microtubule-based processes critical for plant cell division and nuclear/cytoplasmic movements: nuclear migration along microtubules, regulation of microtubule-based processes, mitotic spindle elongation, meiotic spindle orientation, minus-end directed microtubule sliding, and chloroplast movement; plus cell plate\u2013associated cytokinesis and conjugation-related nuclear migration, suggesting a cohesive cytoskeleton-driven division/movement program in plant cells.","confidence":"High","size":10,"edges":41,"triangles":90,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030473","count":6},{"id":"GO:0032886","count":6},{"id":"GO:0000911","count":6},{"id":"GO:0051296","count":6},{"id":"GO:0000022","count":6}]},{"hash":"1359005411050187714","title":"Unknown","description":"There are no GO terms to anchor a functional theme, and the cluster has very low connectivity (one edge, degree 1). Without a shared biological function signal, a reliable label cannot be assigned.","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"1203609839869204033","title":"Innate immunity, apoptosis, and ubiquitination","description":"This cluster is enriched for innate immune response, pyroptotic inflammatory response, and apoptotic processes, with strong representation of protein ubiquitination, pointing to a group of proteins that regulate immune signaling and programmed cell death via ubiquitin pathways. The mitotic spindle assembly term is a potential outlier suggesting a secondary link to cell cycle processes, but the core theme remains immune signaling and apoptosis regulation.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0016567","count":10},{"id":"GO:0090307","count":10},{"id":"GO:0070269","count":10},{"id":"GO:1990001","count":10}]},{"hash":"1044494102365668748","title":"Neural development and immune signaling","description":"The terms include brain development-related processes (corpus callosum development, positive regulation of synapse assembly) along with neural activity (response to dopamine) and innate immune responses (innate immune response, cellular response to lipopolysaccharide, response to exogenous dsRNA). There are also stress/metabolic signals (cellular response to amino acid starvation, negative regulation of TORC1 signaling) and telomere maintenance, suggesting a cluster where neural development is modulated by immune and metabolic stress pathways. ","confidence":"Medium","size":10,"edges":34,"triangles":58,"max_degree":9,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0034198","count":6},{"id":"GO:1904262","count":6},{"id":"GO:0014068","count":6},{"id":"GO:0022038","count":6},{"id":"GO:0032212","count":6}]},{"hash":"2115960038483338129","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":15,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001680","count":3},{"id":"GO:0006203","count":3},{"id":"GO:0015969","count":3},{"id":"GO:0006808","count":3},{"id":"GO:0006402","count":3}]},{"hash":"421059080821249522","title":"Ubiquitin-Proteasome System","description":"This cluster is dominated by ubiquitination and proteasomal degradation themes (autoubiquitination, K48/K11 linkages, SCF), ER-associated degradation, and peroxisomal import involving ubiquitin signaling, with supporting roles in neddylation and cell-cycle regulation. Together these terms point to a cohesive function in ubiquitin-mediated protein turnover.","confidence":"High","size":10,"edges":41,"triangles":92,"max_degree":9,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0051865","count":10},{"id":"GO:0030433","count":10},{"id":"GO:0070911","count":8},{"id":"GO:0031145","count":6},{"id":"GO:0070979","count":6}]},{"hash":"1963067261168810910","title":"DNA Damage Response and Transcription Regulation","description":"The cluster is dominated by GO terms for DNA repair and DNA damage response, along with multiple terms tied to RNA polymerase II transcription initiation and regulation (preinitiation complex assembly, open complex formation, promoter-directed transcription). This suggests a functional theme where DNA damage signaling influences transcriptional control, with some associated kinase activation.","confidence":"High","size":10,"edges":14,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0006301","count":1},{"id":"GO:2001022","count":1},{"id":"GO:0035556","count":1},{"id":"GO:0006351","count":1}]},{"hash":"2135702370569150055","title":"Microtubule-driven division and neuronal development","description":"The cluster's GO terms cluster around cytoskeletal control of microtubules, including microtubule nucleation, spindle pole body duplication, mitotic cytokinesis, and cell cycle, indicating a core role in cell division. It also includes neuron differentiation and neuron migration, pointing to neuronal development where microtubule dynamics are essential. Some terms like cellular response to interleukin-4 are less directly related but may reflect broader signaling contexts; overall the common thread is cytoskeletal regulation that spans mitosis and neural development.","confidence":"Medium","size":10,"edges":37,"triangles":84,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:1905792","count":9},{"id":"GO:0051258","count":9},{"id":"GO:1903087","count":9},{"id":"GO:0071353","count":9},{"id":"GO:0030182","count":9}]},{"hash":"1822096533013826779","title":"Xenobiotic and heavy-metal stress response","description":"This cluster centers on GO terms for responding to toxic substances, xenobiotics, and lead ions, complemented by related metabolic processes (fatty acid oxidation, flavonoid metabolism) and signaling roles (guanylate cyclase activity, heart contraction regulation). The dominant theme is cellular defense and metabolic adjustment to chemical stress, with some signaling terms possibly reflecting broader cross-species processes. Overall, the label captures the core function of the cluster, though a few terms may reflect additional, broader roles. ","confidence":"Medium","size":10,"edges":25,"triangles":26,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006814","count":5},{"id":"GO:0009636","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0010288","count":4},{"id":"GO:0019395","count":3}]},{"hash":"1897254872002000613","title":"Innate immune clearance and lipid transport","description":"This cluster is driven by GO terms for apoptotic cell clearance, innate immune response, receptor-mediated endocytosis, and cytokine production in inflammation, all pointing to phagocytic/immune activity. Lipoprotein transport and cholesterol storage terms further support a link to lipid handling in immune cells. Some terms like spinal cord development, collagen fibril organization, and thyroid hormone generation may reflect broader developmental or metabolic roles in the same proteins, but the dominant signal is immune clearance and lipid processing, supporting this label.","confidence":"Medium","size":10,"edges":13,"triangles":7,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043277","count":6},{"id":"GO:0030199","count":6},{"id":"GO:0045087","count":5},{"id":"GO:0021510","count":5},{"id":"GO:0070207","count":5}]},{"hash":"619683786804307209","title":"Mitochondrial fission and mitophagy under stress","description":"GO terms cluster around mitochondrial fission, mitophagy, and mitochondrial protein turnover in the context of cellular stress, with links to apoptotic and necroptotic regulation and ubiquitination, suggesting a cohesive mitochondrial quality-control program.","confidence":"High","size":10,"edges":8,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000266","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0035694","count":2},{"id":"GO:0033554","count":2},{"id":"GO:0035695","count":2}]},{"hash":"801658793083509038","title":"Multisystem Development and Neurogenesis","description":"Terms cluster around developmental morphogenesis across multiple organs (mouth roof, urogenital, digestive tract, optic nerve) and neural connectivity (dendritic spine development, motor neuron axon fasciculation, synaptic plasticity). Immune-related terms are present but secondary; the core signal is developmental and neurodevelopmental processes.","confidence":"Medium","size":10,"edges":35,"triangles":60,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002042","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0060996","count":3},{"id":"GO:0001655","count":3},{"id":"GO:0048546","count":3}]},{"hash":"2239243288818236856","title":"Neuronal axon guidance and adhesion","description":"The listed GO terms cluster around neural wiring: Slit-Robo signaling, axon guidance (retinal ganglion, peripheral nervous system), axon fasciculation, chemorepulsion, regeneration regulation, and cell\u2013substrate adhesion and hemidesmosome assembly. Together they point to proteins that coordinate axon pathfinding, neuron migration, and adhesion to substrates during neural development and regeneration.","confidence":"High","size":10,"edges":10,"triangles":10,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035385","count":8},{"id":"GO:0002175","count":8},{"id":"GO:0031290","count":8},{"id":"GO:0014012","count":8},{"id":"GO:0007156","count":8}]},{"hash":"2082120831708089123","title":"Integrin-mediated adhesion and migration in development and immunity","description":"The top GO terms point to adhesion and integrin signaling (integrin-mediated signaling pathway, heterotypic cell-cell adhesion, substrate-dependent cell migration, cellular extravasation) coupled with development and immune processes (smooth muscle and heart development, endoderm differentiation, T cell activation, TGF-beta receptor complex assembly), suggesting a cluster of proteins coordinating adhesion-driven signaling during tissue formation and immune cell movement/activation.","confidence":"Medium","size":10,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048745","count":3},{"id":"GO:0034113","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0006929","count":2},{"id":"GO:0045123","count":2}]},{"hash":"1231939785108663900","title":"Cardiac muscle calcium signaling and stress pathways","description":"This cluster's terms largely center on cardiac/muscle physiology, especially regulation of contraction via release of sequestered calcium ions and responses to muscle stretch, with accompanying stress signaling roles via NF-kappaB and apoptotic pathways (TRAIL). A few outliers relate to development or chemokine regulation, but the dominant pattern is calcium-driven muscle signaling linked to stress/apoptosis signaling.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010881","count":3},{"id":"GO:0043123","count":2},{"id":"GO:0006919","count":2},{"id":"GO:0035994","count":2},{"id":"GO:0051092","count":1}]},{"hash":"2098889984552499100","title":"Immune signaling and cell cycle regulation","description":"This cluster is enriched for immune-related signaling terms (NF-kappaB transcription factor activity regulation and interleukin-2\u2013mediated signaling) and several cell cycle-associated terms (meiotic cell cycle, spindle-kinetochore attachment, and negative regulation of mitotic ubiquitin ligase activity), suggesting a set of proteins that participate in signaling that coordinates immune responses with cell-cycle control. Other terms like chemotaxis, sterol import, and rhythmic processes are present but appear peripheral to the core theme, reinforcing a primary link to signaling and cell-cycle regulation rather than a single straightforward pathway. ","confidence":"Medium","size":10,"edges":12,"triangles":8,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":10},{"id":"GO:0035376","count":10},{"id":"GO:0006935","count":10},{"id":"GO:0051436","count":10},{"id":"GO:0046826","count":10}]},{"hash":"3562299800492270","title":"Ubiquitin-dependent proteolysis and cell cycle regulation","description":"The GO terms are dominated by ubiquitin-related processes (autoubiquitination and ubiquitin-dependent protein catabolic process, plus regulation of protein catabolic process) and by a cell cycle term, pointing to a core module where protein turnover governs cell growth and division. Several developmental and neuronal apoptosis-related terms may reflect broader roles of ubiquitin pathways, but the central theme is ubiquitin-mediated proteolysis linked to cell cycle regulation.","confidence":"High","size":10,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0061051","count":3},{"id":"GO:0051865","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0043525","count":2},{"id":"GO:0007049","count":2}]},{"hash":"1782749814870115555","title":"Nervous system myelination and muscle development regulators","description":"Top GO terms cluster around peripheral nervous system myelination, myoblast differentiation, and regulatory processes in vasculature and cardiac muscle, with transcriptional regulation signals, suggesting a regulatory role linking nerve myelination to muscle and vascular development.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0042265","count":2},{"id":"GO:0045663","count":2},{"id":"GO:0061428","count":2}]},{"hash":"1199831336962509913","title":"Unknown","description":"The top GO terms span mitosis, oxidative stress response, innate immunity, viral replication regulation, unfolded protein response, development, metabolic signaling, body plan asymmetry, blood pressure regulation, and histone modification, showing no single cohesive function or pathway linking all proteins. Therefore a concise, specific label isn\u2019t apparent.","confidence":"","size":10,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0070301","count":3},{"id":"GO:0045087","count":2},{"id":"GO:0045070","count":2},{"id":"GO:0006986","count":2}]},{"hash":"1040820857265473078","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":11,"triangles":7,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0048702","count":8},{"id":"GO:0006068","count":8},{"id":"GO:0009812","count":8},{"id":"GO:0030205","count":8},{"id":"GO:0050427","count":8}]},{"hash":"371337641930213313","title":"Embryogenesis and Organ Morphogenesis","description":"The GO terms highlight embryonic development, tissue differentiation, and morphogenesis across diverse organs (placenta, heart cushions, cartilage, pancreas, palate, hair). This supports labeling the cluster with a developmental, morphogenesis-focused theme rather than a specific protein activity.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4},{"id":"GO:0060806","count":4}]},{"hash":"1312825502442920735","title":"Neurovascular and immune development","description":"The cluster includes neural development terms (optic nerve morphogenesis, retinal ganglion cell axon guidance, corpus callosum development), vascular/heart development (heart development, angiogenesis), and immune-related processes (apoptotic and neutrophil clearance, T cell receptor signaling, STAT tyrosine phosphorylation). This combination suggests a cohesive theme of developmental remodeling coordinating neural, vascular, and immune signaling.","confidence":"Medium","size":10,"edges":21,"triangles":21,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043277","count":9},{"id":"GO:0050852","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0021631","count":8},{"id":"GO:0031290","count":8}]},{"hash":"634919269618410682","title":"cAMP GPCR signaling in neuroendocrine development","description":"The cluster is enriched for cAMP biosynthetic processes and adenylate cyclase-activating GPCR signaling, alongside corticotrOpin secretion and synapse assembly, suggesting a cohesive role for cAMP-mediated signaling in neuroendocrine regulation and neural development across involved tissues.","confidence":"Medium","size":10,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019933","count":8},{"id":"GO:0051965","count":7},{"id":"GO:0051867","count":6},{"id":"GO:0051458","count":6},{"id":"GO:0006171","count":6}]},{"hash":"605209079721332744","title":"Vertebrate organogenesis and neural development","description":"The top GO terms span neural development (spinal cord neuron differentiation, forebrain patterning, neural crest, retina) and development of various organs (pancreas, pituitary gland, ureteric bud, muscle). This mix suggests a vertebrate embryonic development program focused on tissue formation and patterning rather than a single pathway, so a label like Vertebrate organogenesis and neural development fits best.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090190","count":8},{"id":"GO:0021983","count":8},{"id":"GO:0021527","count":7},{"id":"GO:0007517","count":7},{"id":"GO:0031016","count":7}]},{"hash":"681984214650223565","title":"Organ morphogenesis and vascular development","description":"This cluster centers on developmental and morphogenetic processes across multiple organs, with a clear emphasis on vascular formation (sprouting angiogenesis, vasculogenesis, coronary vascular morphogenesis) and heart-related structures (pericardium). Additional terms point to signaling regulation (JAK-STAT), extracellular remodeling (plasminogen activation), and neural/epithelial differentiation during organ development, suggesting a cohesive theme of developmental patterning rather than a single biochemical function. Some terms (e.g., immune response) may be incidental rather than core to the cluster.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0003344","count":8},{"id":"GO:0090050","count":8},{"id":"GO:0007262","count":8},{"id":"GO:0032495","count":8},{"id":"GO:0060979","count":8}]},{"hash":"735020339191894529","title":"Glycan biosynthesis and cell wall/ECM formation","description":"The top GO terms cluster around glycosylation processes (UDP-glucose metabolism, O-linked glycosylation) and polysaccharide/ECM-related activities (cell wall organization, hyaluronan and lactose biosynthesis, infection-structure formation). Although some terms relate to mammalian development and fertilization, the dominant theme is glycan synthesis and extracellular structural components, suggesting proteins in this cluster participate in polysaccharide assembly and cell surface architecture. Confidence: Medium","confidence":"","size":10,"edges":36,"triangles":58,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":5},{"id":"GO:0006011","count":5},{"id":"GO:0075015","count":5},{"id":"GO:0006486","count":4},{"id":"GO:0021680","count":4}]},{"hash":"1424705187317610408","title":"Complement Activation Pathways","description":"The strongest GO signals are complement activation across lectin, alternative, and classical pathways, plus regulation of the membrane attack complex, pointing to a cluster centered on the complement system and innate immunity. Other developmental or neuronal terms appear less central and may reflect broader annotations. Confidence: High","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001867","count":10},{"id":"GO:0006957","count":9},{"id":"GO:0001970","count":9},{"id":"GO:0006958","count":9},{"id":"GO:0001701","count":9}]},{"hash":"2046767187740679875","title":"Cardiovascular GPCR signaling and energy metabolism","description":"This cluster centers on GO terms for GPCR signaling with adenylate cyclase activation, regulation of blood pressure, and cardiac muscle contraction, plus energy production processes like the electron transport chain and heat generation. Together, they point to cardiovascular signaling coupled to metabolic output. Some terms are more disparate (behavioral, gastric secretion, cell wall processes), likely reflecting annotation breadth, but the core theme remains cardiometabolic signaling.","confidence":"High","size":10,"edges":41,"triangles":92,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":9},{"id":"GO:0045777","count":9},{"id":"GO:0022900","count":9},{"id":"GO:0035025","count":9},{"id":"GO:0001697","count":8}]},{"hash":"873215412243092379","title":"Stress-Related GPCR-cAMP Signaling","description":"Several top GO terms point to GPCR signaling that activates adenylate cyclase and produces cAMP (GO:0010579, GO:0006171) and downstream hormonal responses (GO:0051458 corticotropin secretion; GO:0045777 positive regulation of blood pressure; GO:0051867 general adaptation syndrome). This indicates a cohesive theme around endocrine signaling and stress response mediated by cAMP. While other terms touch on energy metabolism and development (electron transport chain, lung morphogenesis, seminiferous tubule development, maintenance of organ identity), the dominant signal is GPCR-cAMP\u2013driven hormonal signaling linked to stress and blood pressure regulation.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010579","count":7},{"id":"GO:0045777","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0051867","count":5},{"id":"GO:0051458","count":5}]},{"hash":"836800523218067092","title":"Cardiac Membrane Potential and Potassium Channels","description":"The cluster\u2019s top GO terms center on membrane potential regulation, potassium ion homeostasis/transport, and depolarization/repolarization in cardiac cells (atrial and AV node), plus stabilization of membrane potential. This points to ion channels governing cardiac electrical activity as the common theme; a couple terms reference mechanosensation, but they do not outweigh the cardiac ion-channel focus. ","confidence":"High","size":10,"edges":38,"triangles":85,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0098914","count":10},{"id":"GO:0050976","count":10},{"id":"GO:0060075","count":9},{"id":"GO:0030007","count":9},{"id":"GO:0071805","count":9}]},{"hash":"1911074156365079880","title":"Innate Immunity and Leukocyte Recruitment","description":"The top GO terms converge on innate immune activation and leukocyte interactions, including complement activation (lectin pathway), Fc-gamma receptor signaling, leukocyte tethering/rolling, and regulation of NK cell chemotaxis, plus adhesion molecule production and arachidonate secretion. While there are a few kidney development terms present, the dominant pattern is immune signaling and leukocyte trafficking, suggesting this cluster reflects innate immune responses and cell recruitment. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":10},{"id":"GO:0072218","count":10},{"id":"GO:0072237","count":10},{"id":"GO:0060355","count":10},{"id":"GO:0090238","count":10}]},{"hash":"1355121187728099612","title":"Neural and Cardiovascular Signaling","description":"This cluster centers on signaling pathways that regulate neural communication (dopamine receptor signaling, endocannabinoid signaling, trans-synaptic signaling) and autonomic/cardiovascular processes (histamine-induced gastric acid secretion, vasoconstriction, cardiac contraction), with additional modulation of IL-1\u03b2 production and stress responses. Some terms are less directly connected (cell wall macromolecule catabolic process, operant conditioning), but the dominant pattern is signaling in neural and cardiovascular contexts.","confidence":"Medium","size":10,"edges":9,"triangles":2,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":9},{"id":"GO:0035106","count":9},{"id":"GO:0055117","count":9},{"id":"GO:0031649","count":9},{"id":"GO:1902239","count":9}]},{"hash":"1071206023856666360","title":"Nuclear import and pore assembly","description":"The cluster is enriched for GO terms describing import of proteins into the nucleus (NLS-bearing and ribosomal protein import) and assembly of the nuclear pore complex, indicating a shared function in nuclear transport and NPC organization. Additional terms related to mitotic nuclear membrane reassembly and related nuclear processes support a theme of nuclear envelope dynamics during cell division.","confidence":"High","size":9,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000060","count":4},{"id":"GO:0060188","count":4},{"id":"GO:0006607","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051292","count":4}]},{"hash":"1383011001277341038","title":"Embryogenesis with Chromatin Modification and DNA Repair","description":"This cluster centers on embryonic development themes (multicellular organism development, spinal cord development, gastrulation, and gonad development). The presence of histone methylation terms indicates chromatin regulation, while mitotic cohesion, cell cycle checkpoint regulation, and homologous recombination repair point to genome maintenance during rapid cell division in development and early tissue formation. Together they suggest a cohesive theme of development coupled with chromatin and genome regulation.","confidence":"High","size":9,"edges":20,"triangles":15,"max_degree":7,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0008584","count":4},{"id":"GO:0021510","count":4},{"id":"GO:0007369","count":4},{"id":"GO:0070734","count":4}]},{"hash":"1987859017041769502","title":"RNA processing and metabolism","description":"The dominant GO terms point to RNA processing and turnover, including mRNA splicing via spliceosome, regulation of splicing, mitochondrial mRNA polyadenylation, and miRNA catabolism. Some terms touch host-virus interactions (host-mediated perturbation of viral RNA genome replication and intracellular transport of viral material), suggesting a role in RNA metabolism with antiviral context. A few terms (chemotropism, neuronal action potential) appear peripheral. Overall, the cluster centers on RNA processing and regulation.","confidence":"Medium","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0044830","count":3},{"id":"GO:1901254","count":3},{"id":"GO:0043577","count":3},{"id":"GO:0048024","count":3},{"id":"GO:0045716","count":3}]},{"hash":"1074468400613886069","title":"Embryogenesis and Developmental Signaling","description":"The top GO terms are dominated by embryonic and developmental processes (embryogenesis, neural tube closure, in utero development, multicellular organism development, growth) and signaling pathways (Wnt signaling, PI3K-related annotations). There are also adhesion/morphogenesis-related terms (cell spreading, cuticle/molting) that fit developmental processes, while an immune Defense term appears less central. Overall, the cluster centers on developmental signaling and morphogenesis. ","confidence":"High","size":9,"edges":8,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":5},{"id":"GO:0001843","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0035264","count":4}]},{"hash":"813684566115959526","title":"Plant lipid and sugar catabolism with autophagy","description":"This cluster centers on catabolic metabolism, including glycerol and glycerophospholipid breakdown and maltose catabolism, alongside autophagy-related processes (macroautophagy and glycophagy). The guard cell morphogenesis term hints at a plant-specific context, reinforcing a theme of metabolic turnover in plant cells with autophagy involvement. Confidence: Medium","confidence":"","size":9,"edges":13,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034478","count":4},{"id":"GO:0030643","count":4},{"id":"GO:0006071","count":4},{"id":"GO:0010442","count":4},{"id":"GO:0043609","count":2}]},{"hash":"1834422363890016377","title":"Chromatin regulation and RNA processing in development","description":"The cluster shows enrichment for RNA processing (splicing, translation initiation) and chromatin modification (histone methylation), along with cell cycle and DNA repair processes, plus development-related terms (gonad, spinal cord, gastrulation). This pattern suggests a module where gene expression control via chromatin state and RNA processing is linked to genome maintenance and developmental programs. The name captures the core themes without overcommitting to a single pathway.","confidence":"Medium","size":9,"edges":35,"triangles":77,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0008584","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0007369","count":2}]},{"hash":"2224920206435642207","title":"Isoprenoid and Sterol Biosynthesis","description":"The dominant GO terms point to biosynthetic pathways for isoprenoids and related lipids, including geranyl, farnesyl, and geranylgeranyl diphosphates, monoterpenes, cholesterol, and quinone biosynthesis. This suggests the proteins cluster around terpenoid/sterol biosynthesis processes. A few terms concern general protein transport or RNA processing assembly, which are peripheral to the main theme, but do not override the clear biosynthetic signal.","confidence":"Medium","size":9,"edges":10,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015031","count":2},{"id":"GO:0033386","count":2},{"id":"GO:0033384","count":2},{"id":"GO:0045337","count":2},{"id":"GO:0043693","count":2}]},{"hash":"1099196195291395731","title":"Mitochondrial Energy Metabolism and Redox Homeostasis","description":"This cluster is dominated by mitochondrial energy pathways, especially oxidative phosphorylation (NADH to ubiquinone), and redox-related processes (cell redox homeostasis, protein glutathionylation). The presence of related metabolic terms (2-oxoglutarate, tetrahydrofolate, leucine catabolism, nitrate assimilation) supports a broader mitochondria-associated metabolism theme. A couple of developmental or gamete-related terms appear as noise rather than core drivers.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006120","count":4},{"id":"GO:0007369","count":3},{"id":"GO:0006212","count":3},{"id":"GO:0006103","count":3},{"id":"GO:0043046","count":3}]},{"hash":"230526548678981901","title":"TGF-beta/BMP signaling regulation","description":"This cluster centers on regulation of TGF-beta and BMP signaling, as indicated by GO terms for negative regulation of TGF-beta receptor signaling, negative regulation of BMP signaling, and cellular response to TGF-beta stimulus. Cross-talk with SMAD and NF-kappaB signaling supports a broader theme of signaling modulation. A couple of outliers (meristem identity maintenance and photosystem-related terms) may reflect annotation noise, but the dominant pattern is TGF-beta/BMP pathway regulation.","confidence":"High","size":9,"edges":21,"triangles":22,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":4},{"id":"GO:0010074","count":4},{"id":"GO:0000173","count":4},{"id":"GO:0030514","count":4},{"id":"GO:0080005","count":4}]},{"hash":"617626302173815051","title":"Regulation of Synaptic Transmission","description":"Most terms point to synapse organization and modulation of signaling: regulation of NMDA receptor activity, negative regulation of excitatory postsynaptic potential, negative regulation of synaptic transmission (cholinergic), and positive regulation of inhibitory postsynaptic potential, along with general synapse organization. A few non-neuronal terms (floral organ morphogenesis, raffinose biosynthesis) likely reflect annotation noise, but the dominant theme clearly centers on neuronal communication and postsynaptic signaling, with protein tetramerization supporting receptor assembly.","confidence":"High","size":9,"edges":17,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0090394","count":7},{"id":"GO:0048444","count":6},{"id":"GO:0010325","count":6},{"id":"GO:0042136","count":6},{"id":"GO:2000331","count":6}]},{"hash":"1924691971616906762","title":"Innate Immunity and Microtubule Dynamics","description":"The cluster is enriched for innate immune signaling terms (innate immune response, IL-2 signaling, NF-kappaB-related activity) and for microtubule-associated processes (localization to microtubules, spindle-kinetochore attachments). This suggests a theme where immune signaling interfaces with cytoskeletal dynamics, possibly in immune cell behavior or intracellular trafficking. Some terms (sterol import, Ap4A biosynthesis) are less cohesive but may reflect broader cellular signaling. Overall, the consolidated theme is innate immune signaling linked to cytoskeletal function.","confidence":"Medium","size":9,"edges":18,"triangles":12,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":6},{"id":"GO:0035372","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0035376","count":5},{"id":"GO:0006935","count":5}]},{"hash":"1075992377954035552","title":"Symbiotic nitrogen fixation and host interaction","description":"The cluster shows a clear theme around bacterial nitrogen metabolism and symbiotic interaction with a host: nitrogen fixation, nitrogen catabolite repression, and host-symbiont interaction terms appear alongside proteolysis and transcription regulation. Although some terms are obsolete or noisy, the dominant signal points to bacteria engaging in nitrogen metabolism within a symbiotic context and modulating gene expression to coordinate this lifestyle and host immune evasion.","confidence":"Medium","size":9,"edges":10,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0009399","count":1},{"id":"GO:0009749","count":1},{"id":"GO:0006542","count":1},{"id":"GO:0009405","count":1}]},{"hash":"537254051827388428","title":"NF-kB\u2013driven immune signaling and chemokine regulation","description":"The cluster\u2019s GO terms point to immune and inflammatory processes, including regulation of NF-kB transcription factor activity, regulation of chemokine production, IL-12 production, and TRAIL-activated apoptotic signaling, as well as chemokine (CXCL2) production. This suggests a cohesive theme around immune signaling and cytokine/chemokine regulation, with a few outlier terms related to hair follicle development and odontogenesis. Overall, the predominant pattern supports an inflammatory/immune communication role.","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:0051092","count":1},{"id":"GO:0042489","count":1},{"id":"GO:0051798","count":1},{"id":"GO:2000341","count":1}]},{"hash":"994196561619682048","title":"Neural membrane trafficking and cytoskeleton dynamics","description":"Dominant terms include endocytosis, endosomal vesicle fusion, and actin filament branching, along with adherens junction organization and melanosome transport, pointing to a core theme of membrane trafficking and cytoskeletal remodeling in neural contexts. The presence of oligodendrocyte differentiation and neuron apoptotic regulation aligns with neural development and cell-survival processes that depend on vesicle trafficking and cell adhesion. A few terms (cell wall glucan biosynthesis, collagen biosynthesis regulation) appear less directly related and may reflect broader ECM or cross-species annotations, but the shared pattern centers on endocytosis/trafficking and cytoskeletal dynamics in neural cells.","confidence":"Medium","size":9,"edges":25,"triangles":34,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048714","count":9},{"id":"GO:0006897","count":9},{"id":"GO:0034058","count":9},{"id":"GO:0090135","count":9},{"id":"GO:0043525","count":9}]},{"hash":"1800930619544539499","title":"Ribosome Biogenesis & rRNA Transcription","description":"The top GO terms cluster around RNA polymerase I\u2013driven rRNA transcription in the nucleolus and ribosome biogenesis (large rRNA transcription, preinitiation complex assembly, transcription elongation), suggesting a shared role in ribosome production. While inflammatory and developmental terms appear, they are less consistently represented, making ribosome biogenesis the most coherent theme.","confidence":"Medium","size":9,"edges":18,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0050718","count":2},{"id":"GO:0061303","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0007289","count":2},{"id":"GO:0042790","count":1}]},{"hash":"1306040986620115423","title":"Rho GTPase\u2013driven cell migration","description":"The cluster is enriched for regulation of Rho protein signal transduction and small GTPase\u2013mediated signaling, with a strong representation of cell migration, suggesting a core theme of cytoskeletal remodeling and motility governed by Rho family GTPases. Additional terms like immune signaling and insulin pathways may reflect broader signaling roles of the included proteins, but the central thread appears to be Rho-mediated control of movement.","confidence":"Medium","size":9,"edges":29,"triangles":47,"max_degree":8,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0016477","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0016082","count":5},{"id":"GO:0007507","count":5}]},{"hash":"314940685711806278","title":"Developmental differentiation and tissue organization","description":"The top GO terms include keratinocyte differentiation, Wnt signaling, and regulation of apoptosis, along with cell cycle and ubiquitin-dependent protein catabolism. Additional terms touch on tissue structure (muscle attachment, olfactory nerve organization) and neuron-specific apoptosis regulation, suggesting a cluster of proteins involved in developmental differentiation and the organization of multiple tissues, coordinated by ubiquitin-mediated turnover.","confidence":"Medium","size":9,"edges":26,"triangles":37,"max_degree":8,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0030216","count":6},{"id":"GO:0051865","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0007049","count":5},{"id":"GO:0043524","count":5}]},{"hash":"188966525370776485","title":"Embryonic axis formation and BMP/Wnt signaling","description":"The cluster shows enrichment for embryonic development and signaling pathways, including in utero embryonic development and ventral spinal cord development, as well as BMP signaling and (obsolete) Wnt signaling involved in dorsal-ventral axis specification. While a few terms relate to lipid transport and immune functions (cholesterol traffic, complement activation), the dominant theme is developmental signaling and axis patterning.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044332","count":7},{"id":"GO:0001970","count":6},{"id":"GO:0034392","count":6},{"id":"GO:0030509","count":6},{"id":"GO:0001701","count":6}]},{"hash":"1750775165562007272","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0030574","count":3},{"id":"GO:0034724","count":3},{"id":"GO:0035551","count":3},{"id":"GO:0010815","count":3},{"id":"GO:0034396","count":3}]},{"hash":"702040645671738989","title":"DNA Repair and Cell Cycle Regulation","description":"The top GO terms cluster around genome maintenance (base-excision repair, DNA recombination) and control of cell cycle progression (positive regulation of G1/S transition), suggesting proteins involved in DNA damage response and cell-cycle coordination. Some additional terms hint at stress and transcriptional regulation, indicating a broader genome-stability\u2013stress response module.","confidence":"Medium","size":9,"edges":14,"triangles":7,"max_degree":6,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1900087","count":7},{"id":"GO:0043488","count":7},{"id":"GO:0071375","count":7},{"id":"GO:0006284","count":7},{"id":"GO:0046856","count":7}]},{"hash":"135272248729469751","title":"Stress-induced apoptosis and inflammatory signaling","description":"The top terms cluster around apoptotic processes, DNA damage response, death-inducing signaling, JNK cascade, IL-1 signaling, and GM-CSF response, all pointing to stress-activated pathways that lead to cell death and inflammatory signaling. A few terms involve cell cycle (G2/M) or obsolete GO terms, but the core theme is apoptosis together with inflammatory signaling.","confidence":"High","size":9,"edges":13,"triangles":8,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000086","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0048148","count":6},{"id":"GO:0070926","count":6},{"id":"GO:0006977","count":6}]},{"hash":"1758067873071709480","title":"Small-Molecule Metabolism: Isoprenoids, NAD+, Nucleotides","description":"The terms cluster around catabolic and biosynthetic processes for small metabolites, including IPP/DMAPP and farnesyl diphosphate in isoprenoid pathways, as well as turnover of NAD+, CoA, and nucleotides. This suggests a general role in metabolic turnover of energy carriers and metabolite precursors, with a few peripheral terms like snoRNA catabolism and DNA repair possibly reflecting multifunctional proteins; thus the label Small-Molecule Metabolism is a reasonable, though not perfect, summary.","confidence":"Medium","size":9,"edges":11,"triangles":3,"max_degree":4,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071544","count":4},{"id":"GO:0006281","count":4},{"id":"GO:0046709","count":4},{"id":"GO:0045337","count":4},{"id":"GO:0050992","count":4}]},{"hash":"470104669058822970","title":"Cell wall and polysaccharide biosynthesis","description":"The cluster's GO terms cluster around cell wall construction and extracellular carbohydrate production: cell wall mannoprotein biosynthetic process, slime layer polysaccharide biosynthetic process, cell wall organization, and biosynthesis of GDP-mannose/UDP-N-acetylglucosamine. Together they point to proteins involved in assembling and modifying the cell wall and surface polysaccharides rather than core metabolism. Some \"obsolete\" terms appear but don't change the overall theme.","confidence":"High","size":9,"edges":23,"triangles":29,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000902","count":3},{"id":"GO:0019877","count":2},{"id":"GO:0009089","count":2},{"id":"GO:0000032","count":2},{"id":"GO:0045228","count":2}]},{"hash":"282269570672888709","title":"Synapse Organization and GTPase/JNK Signaling","description":"The top GO terms point to synapse organization and regulation of signaling pathways that control the cytoskeleton, including GTPase activity, Rho signaling, and JNK cascade. The presence of Wnt signaling and morphine response hints at broader neuronal signaling roles, while auditory receptor stereocilium organization suggests cytoskeletal remodeling in sensory synapses. Together these terms imply a cluster enriched for proteins involved in synaptic structure and signaling dynamics, rather than a single isolated pathway.","confidence":"Medium","size":9,"edges":28,"triangles":50,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:2000009","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0050821","count":4},{"id":"GO:0050808","count":4}]},{"hash":"1919694777126783673","title":"Nervous and cardiac development/signaling","description":"The GO terms point to processes in both the nervous and cardiac systems (PNS myelination, heart development, cardiac hypertrophy signaling) along with cytoskeletal and membrane organization (actin crosslinking, Kv channel clustering) and transcriptional regulation. This suggests a cluster of proteins involved in development and signaling in excitable tissues, with cytoskeletal remodeling as a common thread, rather than a single narrowly defined function. Some terms are obsolete or broad, but the overarching theme remains nervous/cardiac development and signaling.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0022011","count":7},{"id":"GO:0007507","count":6},{"id":"GO:0045163","count":6},{"id":"GO:0032516","count":6},{"id":"GO:0000754","count":5}]},{"hash":"1653628305962362443","title":"Vascular inflammation and coagulation signaling","description":"The top GO terms cluster around inflammatory processes (inflammatory response, response to LPS, sensory pain) and coagulation, alongside vascular regulation (blood pressure, vasoconstriction, smooth muscle contraction) and GPCR/Rho signaling, suggesting a cohesive theme of inflammation-influenced vascular tone and clotting. A few terms like electron transport chain may be outliers or broad annotations, but the dominant signal supports this vascular-inflammatory/coagulation role.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":9},{"id":"GO:0045777","count":9},{"id":"GO:0022900","count":9},{"id":"GO:0045907","count":8},{"id":"GO:0045986","count":8}]},{"hash":"1529473739272788999","title":"Iron-Sulfur Cluster Biogenesis","description":"The dominant GO terms are about [2Fe-2S] cluster assembly and protein maturation via iron-sulfur cluster transfer, which points to a core function in iron-sulfur biogenesis. Several terms are obsolete or contextually broad (e.g., transcriptional regulation in response to iron), and a few unrelated terms (shoot system development, telomere maintenance) likely reflect annotation noise. Overall, the cluster appears to center on Fe-S cluster assembly and related regulatory responses to iron, supporting this label.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0044571","count":1},{"id":"GO:0051220","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0034396","count":1},{"id":"GO:1903026","count":1}]},{"hash":"732267366514258792","title":"Leukocyte chemotaxis and inflammatory signaling","description":"Proteins in this cluster are enriched for immune cell recruitment (macrophage, neutrophil, lymphocyte chemotaxis), acute-phase response, and regulation of IL-1 production, along with NF-kB pathway activity (I-kappaB phosphorylation) and calcium signaling. Together these terms point to a cohesive theme of innate inflammatory signaling and leukocyte migration, with a possible broader stress-response context (stilbenoid response). ","confidence":"High","size":9,"edges":8,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048246","count":2},{"id":"GO:0050716","count":2},{"id":"GO:0035634","count":2},{"id":"GO:0007204","count":2},{"id":"GO:0006953","count":2}]},{"hash":"990876346991487140","title":"Interferon-responsive signaling with neuromuscular and skeletal development","description":"The cluster contains interferon-alpha/beta response terms and responses to biotic stimuli, alongside neural functions (synaptic vesicle clustering, neuromuscular control) and skeletal processes (bone morphogenesis, bone mineralization). The presence of trafficking-related and metabolic terms (endosome-to-plasma membrane transport; glucose import in response to insulin) suggests a cohesive signaling/trafficking module that spans immune, neural, and skeletal regulation.","confidence":"Medium","size":9,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035455","count":4},{"id":"GO:0044381","count":4},{"id":"GO:0099638","count":4},{"id":"GO:0009607","count":4},{"id":"GO:0050884","count":4}]},{"hash":"1028673950741105844","title":"Innate Immunity and Lipid Handling","description":"This cluster is driven by terms tied to innate immune responses and inflammatory cytokine production, along with endocytic uptake and clearance processes, and lipid transport/storage. Specifically, prominent terms include innate immune response, positive regulation of cytokine production in inflammation, receptor-mediated endocytosis, apoptotic cell clearance, lipoprotein transport, and cholesterol storage, suggesting a cohesive theme of immune activity intersecting with lipid handling. A few outlier terms (renal sodium excretion regulation, spinal cord development) are less central to this core theme, but do not override the dominant immune-lipid/endocytic signal.","confidence":"Medium","size":9,"edges":13,"triangles":6,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035813","count":6},{"id":"GO:0046598","count":6},{"id":"GO:0045087","count":6},{"id":"GO:0021510","count":6},{"id":"GO:0070207","count":6}]},{"hash":"1969940946871859055","title":"Cardiovascular development and organogenesis","description":"The top terms point to embryonic organ formation, especially heart/vasculature-related processes (pericardium morphogenesis, animal organ development, vasoconstriction), along with responses to shear stress that are characteristic of endothelial/vascular biology. While there are also patterning and axon guidance terms (Wnt signaling, dorsal/ventral axon guidance), these reflect broader developmental processes accompanying organogenesis. Overall, the cluster appears to group proteins involved in early development with a focus on cardiovascular tissues and organ formation.","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0044332","count":9},{"id":"GO:0033563","count":7},{"id":"GO:0043154","count":7},{"id":"GO:0071461","count":7},{"id":"GO:0071498","count":7}]},{"hash":"863687599751285208","title":"Neural development: axon guidance and synapse formation","description":"This cluster\u2019s terms cluster around neural development: axon guidance (Roundabout signaling, retinal ganglion cell axon guidance), interneuron migration (chemorepulsion), and synapse assembly regulation, with BMP signaling and cell-ECM adhesion contributing to connectivity and extracellular remodeling; angiogenesis and collagen organization appear as related developmental contexts but are less central.","confidence":"High","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043277","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0002040","count":3},{"id":"GO:0035385","count":2},{"id":"GO:0031290","count":2}]},{"hash":"668440890158936713","title":"Unknown","description":"The terms span reproductive tissue development, extracellular matrix organization, immune and hormone signaling, lipid-derived (epoxygenase/oxylipin) pathways, and miscellaneous metabolic processes, with no clear unifying function tying all entries together. This diversity makes it hard to assign a specific, cohesive label to the cluster beyond Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":4},{"id":"GO:0033280","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0071260","count":3}]},{"hash":"1392967402740726820","title":"Lipid and Quinone Biosynthesis","description":"This cluster's top GO terms cluster around membrane lipid biosynthesis (phosphatidylglycerol, phosphatidylserine, phosphatidylethanolamine) and quinone biosynthesis (plastoquinone, menaquinone) plus heme O biosynthesis, with an additional lipid mediator term. This points to a cohesive lipid/quinone biosynthetic module across organisms, making the proposed label representative. Confidence: Medium","confidence":"","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006655","count":3},{"id":"GO:0006659","count":3},{"id":"GO:0010512","count":3},{"id":"GO:1905711","count":3},{"id":"GO:0070317","count":3}]},{"hash":"272495454174870450","title":"Unknown","description":"The GO terms span diverse and largely unrelated contexts (plant immune response, bile acid transport, tail spike morphogenesis, adiponectin signaling, wound healing, NF-kB regulation, ceramide metabolism, unfolded protein response). There isn\u2019t a clear, common function tying these proteins together, so a specific label isn\u2019t justifiable.","confidence":"","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0015721","count":2},{"id":"GO:0009626","count":2},{"id":"GO:0006882","count":1},{"id":"GO:0019835","count":1},{"id":"GO:1990522","count":1}]},{"hash":"858725453861927849","title":"Innate Immune and Inflammatory Signaling","description":"Based on the top GO terms, the cluster is enriched for innate immune response and inflammatory cytokine regulation, with entries for receptor-mediated endocytosis, apoptotic cell clearance, and cytokine production, suggesting a core theme around immune surveillance and inflammatory signaling. Additional terms related to lipid transport and cholesterol storage appear; these may reflect immune-lipid interactions or shared protein functions, but the dominant signal is innate immunity rather than a single metabolic or developmental pathway. Some terms seem less connected (renal sodium excretion, spinal cord development), which could reflect multi-function proteins or annotation noise.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0035813","count":2},{"id":"GO:0046598","count":2},{"id":"GO:0021510","count":2},{"id":"GO:0070207","count":2}]},{"hash":"356727604706350151","title":"Meiotic Cell Cycle and Spindle Attachment Regulation","description":"The strongest signals come from meiotic-specific terms: attachment of meiotic spindle microtubules to kinetochore and the meiotic cell cycle, indicating a theme around meiosis and spindle dynamics. Other terms touch on broader cell cycle, signaling, and transport functions, suggesting the cluster centers on meiosis-related regulation with some ancillary processes. Confidence: Medium","confidence":"","size":8,"edges":8,"triangles":2,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":8},{"id":"GO:0035376","count":8},{"id":"GO:0006935","count":8},{"id":"GO:0051436","count":8},{"id":"GO:0046826","count":8}]},{"hash":"88121850898363777","title":"Immune signaling and cell fate regulation","description":"This cluster is dominated by T cell\u2013related signaling (T cell receptor signaling pathway, beta selection) and apoptosis terms, with additional regulatory signals such as mast cell degranulation, Wnt signaling, and focal adhesion regulation. The combination suggests a core theme of immune signaling coupled to cell fate decisions and regulatory pathways, despite some broader terms present. ","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071375","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0043366","count":2}]},{"hash":"736077579017827218","title":"Ribosome biogenesis and cytoplasmic translation","description":"This cluster is dominated by GO terms related to ribosome assembly and function: small subunit biogenesis, cytoplasmic translation, and large subunit export from the nucleus, pointing to a core theme of ribosome production and protein synthesis. Some cell cycle/division terms appear but are likely secondary to the primary ribosome-focused functions.","confidence":"High","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:1901001","count":1},{"id":"GO:1903833","count":1},{"id":"GO:0042274","count":1},{"id":"GO:0055072","count":1},{"id":"GO:0007049","count":1}]},{"hash":"1669748130384120522","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning lipid catabolism, innate immune signaling (NOD2 pathway), cytokine regulation (IL-12), RNA stability, cell cycle and growth, telomere-related regulation, and ADP-ribosylation. There isn\u2019t a single, dominant functional theme tying these proteins together, so a specific, cohesive label isn\u2019t supported.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046475","count":7},{"id":"GO:1901594","count":7},{"id":"GO:0070431","count":7},{"id":"GO:0043488","count":7},{"id":"GO:0007049","count":7}]},{"hash":"1752700218258553497","title":"Stress-induced apoptosis and autophagy","description":"These proteins cluster around cellular stress responses and cell fate decisions: extrinsic apoptotic signaling, autophagosome maturation, and programmed cell death cues are prominent, alongside responses to oxidative and chemical stress (lead, morphine, hydrogen peroxide) and nutrient deprivation. The mix suggests a cohesive theme of stress-triggered apoptosis and autophagy, with ancillary membrane-related processes like protein lipidation. ","confidence":"Medium","size":8,"edges":16,"triangles":16,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010288","count":5},{"id":"GO:0043278","count":5},{"id":"GO:0070301","count":5},{"id":"GO:0034198","count":4},{"id":"GO:0008625","count":4}]},{"hash":"671144903199853587","title":"Developmental cell adhesion and trafficking","description":"GO terms cluster around development (neural tube patterning, multicellular growth) and cellular organization (adherens junctions). Trafficking-related processes (ER-Golgi transport, ribosomal export, secretory pathway regulation) plus organelle dynamics (mitochondrial fission) and cell division control (spindle orientation checkpoint) suggest a theme of developmental cellular organization mediated by trafficking and adhesion.","confidence":"Medium","size":8,"edges":6,"triangles":4,"max_degree":3,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0021532","count":3},{"id":"GO:0034332","count":3},{"id":"GO:0000055","count":3},{"id":"GO:1903434","count":3},{"id":"GO:0097327","count":3}]},{"hash":"6227826387775132","title":"Immune development and hematopoiesis","description":"This cluster centers on immune system development and blood/immune cell differentiation, with GO terms for leukocyte adhesion, erythrocyte/hemocyte differentiation, GM-CSF response, and MHC II biosynthesis regulation. Additional embryonic/developmental terms appear, which can accompany immune cell maturation in some contexts, supporting a theme of immune cell development and hematopoiesis rather than a single specialized pathway.","confidence":"Medium","size":8,"edges":14,"triangles":9,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001824","count":4},{"id":"GO:0097011","count":4},{"id":"GO:0045347","count":3},{"id":"GO:0060033","count":3},{"id":"GO:1904996","count":3}]},{"hash":"1260600660264909639","title":"RNA Pol II transcription regulation and chromatin remodeling","description":"The cluster centers on transcription regulation by RNA polymerase II, including preinitiation complex assembly and chromatin-associated processes (histone acetylation, nucleosome dynamics), suggesting a cohesive set of factors modulating transcription through chromatin state and initiation steps.","confidence":"Medium","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":5},{"id":"GO:1900446","count":4},{"id":"GO:0043457","count":4},{"id":"GO:0045898","count":4},{"id":"GO:2000306","count":4}]},{"hash":"2296314644488323694","title":"Translational Initiation and RNA Regulation","description":"The top GO terms cluster around controlling translation initiation (regulation of translational initiation, eIF4F complex assembly, preinitiation complex formation, translation reinitiation) and broader RNA processing/regulation (mRNA modification, splice-site recognition, poly(A) tail regulation, miRNA-mediated silencing), indicating a cohesive theme of translational control coupled with RNA metabolism.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006446","count":8},{"id":"GO:0016556","count":8},{"id":"GO:0097010","count":8},{"id":"GO:0006376","count":8},{"id":"GO:0002188","count":8}]},{"hash":"894799671047516759","title":"Embryogenesis and Reproductive Development","description":"The top GO terms strongly point to developmental and reproductive processes, with spinal cord development, gastrulation, male gonad development, and single fertilization suggesting a developmental/reproductive theme. Supporting terms like cell division and protein homooligomerization fit general cellular processes during development, while a couple of terms appear tangential (cadmium response, Gram-positive defense), possibly reflecting broader annotations. Overall, the cluster seems best described by embryogenesis and reproduction.","confidence":"Medium","size":8,"edges":16,"triangles":20,"max_degree":5,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0021510","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0051301","count":5}]},{"hash":"270814828124753416","title":"Unknown","description":"The GO terms are highly diverse (environmental responses to fungicide, ethanol, aluminum; development processes like pituitary gland development and gastrulation; chromatin regulation; hormone biosynthesis; capsule polysaccharide biosynthesis; uracil catabolic process). There isn\u2019t a single cohesive function tying these proteins together, so a precise thematic label isn\u2019t supported.","confidence":"","size":8,"edges":7,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060992","count":3},{"id":"GO:0045471","count":3},{"id":"GO:0021983","count":3},{"id":"GO:0051573","count":2},{"id":"GO:0046886","count":2}]},{"hash":"2279794129764863066","title":"Ciliary Signaling and Growth Regulation","description":"The cluster centers on signaling control rather than a single pathway: positive regulation of GTPase activity, TOR signaling, and NF-kappaB\u2013related signals all point to modulating cellular growth and responses. The presence of intraciliary transport in cilium assembly suggests a link to ciliary signaling contexts, tying together nutrient- and growth-sensing with spatial regulation. Some development-related terms appear but are likely broader context rather than core functions of this cluster. Overall, the shared theme appears to be regulation of growth-related signaling, including ciliary transport aspects.","confidence":"Medium","size":8,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0000186","count":3},{"id":"GO:0032008","count":3},{"id":"GO:0071230","count":3},{"id":"GO:0043123","count":3}]},{"hash":"1441168771755615710","title":"Ribosome Biogenesis and Cell Cycle","description":"The cluster is dominated by ribosome-related processes (ribosome biogenesis, cytoplasmic translation, ribosomal subunit export) and cell division-related GO terms (cell cycle, cell division, septum assembly). Some terms hint mating/conjugation, but the core theme is coordination of ribosome production with cell cycle progression.","confidence":"High","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:1901001","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0042274","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0002181","count":3}]},{"hash":"298509317237051836","title":"Unknown","description":"GO terms span immune response, hormone signaling, neuron development, and vesicle trafficking, with no single shared function, so a cohesive cluster label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071373","count":8},{"id":"GO:0032741","count":8},{"id":"GO:0006963","count":8},{"id":"GO:0051901","count":8},{"id":"GO:1905279","count":8}]},{"hash":"2126871961977087651","title":"Iron-sulfur cluster biogenesis and iron response","description":"Although several terms are unrelated or obsolete, there are clear signals tied to iron-sulfur biology: [2Fe-2S] cluster assembly, maturation by Fe-S cluster transfer, and transcriptional responses to iron, including negative regulation of RNA polymerase II in response to iron. This points to a core theme of Fe-S cluster biogenesis and iron-regulated gene expression, despite noise from developmental and other signaling terms. Confidence: Medium","confidence":"","size":8,"edges":11,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010738","count":1},{"id":"GO:0061055","count":1},{"id":"GO:0001966","count":1},{"id":"GO:0042226","count":1},{"id":"GO:0044571","count":1}]},{"hash":"2084816449096756906","title":"Diverse Metabolic and Organelle Processes","description":"TheTopTerms show multiple catabolic and metabolic activities (fatty acids, lactate, methanol, nylon, cytokinin) alongside organelle-related functions (mitochondrial translation, ER organization) and a note on cell shape regulation. This spread suggests the cluster reflects broad cellular maintenance rather than a single pathway, so a label capturing both metabolism and organelle function best represents the group.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0008360","count":2},{"id":"GO:0070681","count":2},{"id":"GO:0019876","count":2},{"id":"GO:0007029","count":2},{"id":"GO:0009062","count":2}]},{"hash":"424671647273451169","title":"Cross-kingdom Development and Morphogenesis","description":"This cluster centers on broad developmental processes across species, including gastrulation-related morphogenesis, cilium assembly, Wnt signaling regulation, and plant flowering development, suggesting a general theme of development and morphogenesis rather than a single precise function.","confidence":"Medium","size":8,"edges":14,"triangles":9,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060027","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0030111","count":1},{"id":"GO:0048240","count":1},{"id":"GO:0030154","count":1}]},{"hash":"296084795836292770","title":"Unknown","description":"The top GO terms are highly diverse, spanning fungal lipid metabolism (ergosterol and MIPC), nitrogen metabolism (nitric oxide and nitrate assimilation), RNA modification (pseudouridine synthesis), and vertebrate-specific processes (CNS myelin maintenance, sebaceous gland differentiation). There isn\u2019t a single coherent biological function or theme tying all terms together, so a concise, representative label isn\u2019t feasible. ","confidence":"","size":8,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006809","count":2},{"id":"GO:0032443","count":2},{"id":"GO:0032286","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0001949","count":2}]},{"hash":"1750448131380505236","title":"Innate Immunity and Endocytosis","description":"The cluster is dominated by innate immune terms (innate immune response, cytokine production in inflammatory response) and endocytic processes (receptor-mediated endocytosis, apoptotic cell clearance), suggesting proteins involved in immune sensing and uptake/clearance. Additional terms related to lipid metabolism and development appear but do not override the core immune-endocytic theme.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0035813","count":6},{"id":"GO:0046598","count":6},{"id":"GO:0021510","count":6},{"id":"GO:0070207","count":6}]},{"hash":"1458107560748330300","title":"Bacterial metabolism and envelope biosynthesis","description":"The cluster\u2019s GO terms cluster around bacterial metabolism and biosynthesis, including menaquinone biosynthesis, lipoteichoic acid biosynthesis (Gram-positive envelope), various catabolic and fermentation pathways, NRPS-related amino acid activation, and even bioluminescence. This suggests a cohesive theme of metabolic versatility in bacteria with a focus on envelope construction, rather than a single narrow function.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":7},{"id":"GO:0019427","count":7},{"id":"GO:0070395","count":7},{"id":"GO:0009698","count":7},{"id":"GO:0019654","count":7}]},{"hash":"825769735807637061","title":"Unknown","description":"The GO terms are highly diverse, including transsulfuration, molybdenum cofactor biosynthesis, glycerol metabolism, redox homeostasis, tRNA wobble thiolation, and development-related processes (spinal cord development, epithelial differentiation), plus cell cycle signaling terms. With only a single edge and no coherent shared function across these terms, there is no clear theme tying the proteins together. ","confidence":"","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019346","count":1},{"id":"GO:0035335","count":1},{"id":"GO:0000087","count":1},{"id":"GO:0006777","count":1},{"id":"GO:0030855","count":1}]},{"hash":"1859890378732581754","title":"Vestibular development and gravity sensing","description":"This cluster is driven by terms tied to inner-ear development and gravity sensing, notably otolith development and detection of gravity, suggesting a vestibular function theme. Additional terms point to related developmental signaling and morphogenesis processes, plus some stress-related or remodeling activities, but the strongest signal centers on vestibular development. ","confidence":"Medium","size":8,"edges":7,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045730","count":3},{"id":"GO:0048840","count":3},{"id":"GO:0045453","count":3},{"id":"GO:0031284","count":3},{"id":"GO:0009590","count":3}]},{"hash":"1809715979765791741","title":"RNA Processing and Transcription Termination","description":"This cluster shows a clear signal of RNA metabolism, with multiple terms tied to RNA catabolic processes, rRNA processing, and transcription termination of RNA polymerase II. While other GO terms point to various metabolic and stress-related activities, the strongest and most coherent theme is RNA processing and regulation of transcription, suggesting core involvement in RNA metabolism. Confidence: Medium.","confidence":"","size":8,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006401","count":2},{"id":"GO:0018189","count":2},{"id":"GO:0019700","count":2},{"id":"GO:0070291","count":2},{"id":"GO:0070292","count":2}]},{"hash":"1827011363700953059","title":"TLR1\u2013NF-\u03baB Innate Immune Signaling","description":"This cluster shows multiple GO terms centered on innate immune recognition and signaling, including toll-like receptor 1 signaling, non-canonical NF-\u03baB signaling, defense against Gram-positive bacteria, and positive regulation of inflammatory mediators like IL-18 and antibacterial peptides. While a few terms relate to development or intracellular transport, the immune signaling terms are the most representative of the cluster\u2019s function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032741","count":1},{"id":"GO:0006963","count":1},{"id":"GO:0051901","count":1},{"id":"GO:1905279","count":1},{"id":"GO:0007409","count":1}]},{"hash":"140344829465712357","title":"Embryonic Organogenesis and Morphogenesis","description":"This cluster centers on developmental processes involved in organ and tissue formation. The top GO terms cover eye morphogenesis (embryonic eye morphogenesis, camera-type eye development), brain development, hypothalamic cell migration, and muscle/mesenchymal development, all tied together by transcriptional programs (RNA polymerase II) active during embryogenesis. ","confidence":"High","size":8,"edges":26,"triangles":44,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":5},{"id":"GO:0060441","count":5},{"id":"GO:0048048","count":5},{"id":"GO:0043010","count":5},{"id":"GO:0060038","count":4}]},{"hash":"1714878389654736800","title":"Cell cycle control and ubiquitination","description":"Most represented terms are cell cycle (GO:0007049) and protein ubiquitination (GO:0016567), suggesting a cluster of proteins involved in cell cycle regulation and ubiquitin-mediated protein turnover; other shared terms point to post-transcriptional control and some immune signaling context, but the two dominant themes anchor the label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0046475","count":3},{"id":"GO:1901594","count":3},{"id":"GO:0070431","count":3}]},{"hash":"1217578989604393615","title":"Unknown","description":"There is no GO term enrichment or interaction data to define a common function for this group. With zero edges and no top terms, the proteins show no clear shared pathway or process, so a meaningful label cannot be assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2283126473316436625","title":"Diverse substrate transmembrane transporters","description":"The GO terms are all about transporting various substrates across membranes (galactose, vitamins, nitrate/nitrite, phosphate, potassium, sialic acid, xenobiotics, etc.), indicating these proteins likely function as membrane transporters with broad substrate specificity rather than a single pathway. Confidence: High","confidence":"","size":8,"edges":11,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":2},{"id":"GO:0035461","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0071805","count":2}]},{"hash":"2028503366309034878","title":"DNA replication and cell fusion/competence","description":"The top GO terms point to DNA replication, karyogamy (cell fusion), and transformation competence, suggesting a shared function in genome processing and DNA exchange, with actin remodeling supporting fusion/chromosomal events; a few terms appear less related but do not override the core theme.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0001824","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0030420","count":2},{"id":"GO:0000754","count":1},{"id":"GO:0051764","count":1}]},{"hash":"1782372336651223952","title":"Oxylipin-Mediated Immune Signaling","description":"This cluster is driven by GO terms related to lipid mediator synthesis (epoxygenase P450 pathway and oxylipin biosynthesis) and immune functions (phagolysosome assembly and classical complement activation), suggesting a theme of lipid-derived signaling modulating immune responses. Other terms like angiogenesis and cell cycle regulation appear ancillary, possibly reflecting broader cellular processes rather than a single cohesive function. ","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090050","count":3},{"id":"GO:0001845","count":3},{"id":"GO:0071625","count":3},{"id":"GO:2001241","count":3},{"id":"GO:0060244","count":3}]},{"hash":"1800288017911240774","title":"Muscle and neural development signaling","description":"These proteins are enriched for terms related to muscle differentiation and neural development, including positive regulation of myoblast differentiation, striated muscle myosin thick filament assembly, axonogenesis, neurogenesis, and Slit/Robo guidance signals, alongside shared growth pathways like PI3K/Akt and prolactin signaling. This combination points to a cohesive theme of coordinated muscle and nervous system development signaling.","confidence":"High","size":8,"edges":13,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045663","count":4},{"id":"GO:0043491","count":4},{"id":"GO:0055072","count":3},{"id":"GO:0038161","count":3},{"id":"GO:0071688","count":3}]},{"hash":"456834580104318458","title":"Complement- and antibody-driven immune activation","description":"The top GO terms cluster around complement activation (classical and alternative), immunoglobulin-mediated immune responses, MAC activation, and regulation of leukocyte signaling and chemotaxis, along with apoptotic cell clearance and a macrophage lineage process (osteoclast fusion). This pattern reflects coordinated innate and adaptive immune activity, including antibody interactions, complement cascades, immune cell recruitment, and clearance of dying cells.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":3},{"id":"GO:0090197","count":2},{"id":"GO:0010760","count":2},{"id":"GO:0016064","count":2},{"id":"GO:0001798","count":2}]},{"hash":"1611960858005410717","title":"Unknown","description":"The cluster's GO terms are diverse and include defense response to bacterium, actin cytoskeleton regulation, cardiac development and conduction, ERK signaling, xenobiotic response, and various metabolic transport processes. There isn't a single cohesive biological theme tying these together, suggesting multifunctional proteins or heterogeneous annotations. Hence I cannot assign a specific, representative label.","confidence":"","size":8,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":4},{"id":"GO:0090138","count":3},{"id":"GO:0086091","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0070374","count":3}]},{"hash":"1554329484540450964","title":"DNA Damage Response and Cell Cycle Regulation","description":"This cluster centers on functions tied to genome maintenance and cell-cycle control, notably base-excision repair and DNA recombination, alongside positive regulation of G1/S transition. It also includes related processes such as mRNA stability regulation and cellular stress responses (xenobiotic and hormone signaling), suggesting a coordinated response integrating DNA repair, cell-cycle progression, and gene regulation under stress.","confidence":"Medium","size":8,"edges":25,"triangles":41,"max_degree":7,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1900087","count":7},{"id":"GO:0043488","count":7},{"id":"GO:0071375","count":7},{"id":"GO:0006284","count":7},{"id":"GO:0046856","count":7}]},{"hash":"1890487841196833774","title":"ECM remodeling and complement regulation in development","description":"The top GO terms emphasize collagen fibril organization, cell-matrix adhesion, cartilage condensation, and in utero embryonic development, pointing to extracellular matrix remodeling during development. Concurrently, several terms relate to complement activation (classical and alternative pathways) and its regulation, suggesting a cluster where ECM dynamics intersect with immune modulation during embryogenesis. Taken together, the proteins likely participate in tissue remodeling while modulating complement activity.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051918","count":7},{"id":"GO:0006957","count":6},{"id":"GO:0001970","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0001701","count":6}]},{"hash":"1415166320693299928","title":"Diverse catabolic pathways","description":"The cluster is dominated by various catabolic GO terms, including triglyceride, uracil, prostaglandin, stilbene, beta-ketoadipate, and 1,2-dichloroethane catabolism, suggesting proteins involved in broad degradation of lipids, nucleotides, aromatic compounds, and xenobiotics. A couple of biosynthetic terms appear (strigolactone and biotin), but the prevalent theme is catabolic metabolism across diverse substrates. ","confidence":"High","size":8,"edges":22,"triangles":26,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":6},{"id":"GO:0042952","count":5},{"id":"GO:0006212","count":5},{"id":"GO:1905344","count":5},{"id":"GO:0019260","count":5}]},{"hash":"986490041700538523","title":"Secretory vesicle trafficking and exocytosis","description":"The terms indicate vesicle handling and fusion events across cell types: synaptic vesicle exocytosis, Golgi-related vesicle fusion, autophagosome docking, vacuole fusion, and immune cell degranulation/histamine release. The presence of Golgi ribbon formation and regulation of targeting to vacuolar membranes further supports organization of the secretory pathway, suggesting these proteins participate in secretory vesicle trafficking and exocytosis across neuronal, immune, and epithelial contexts.","confidence":"High","size":8,"edges":25,"triangles":40,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0016079","count":2},{"id":"GO:0060291","count":2},{"id":"GO:0090161","count":2},{"id":"GO:1900483","count":2},{"id":"GO:0043312","count":2}]},{"hash":"1332469988854360722","title":"Angiogenesis and vascular development signaling","description":"The cluster shows GO terms centered on positive regulation of PI3K/AKT and MAPK signaling, plus positive regulation of endothelial proliferation and angiogenesis, indicating a function in vascular development and angiogenic signaling. Additional terms touch on heart asymmetry and craniofacial morphogenesis, consistent with developmental signaling networks shaping cardiovascular and facial structures, while cadherin-mediated cell adhesion supports tissue organization required for vessels. Some terms (luteolysis, spore germination) are outliers, but the core theme is angiogenesis-related signaling.","confidence":"Medium","size":8,"edges":9,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":1},{"id":"GO:0043410","count":1},{"id":"GO:0001938","count":1},{"id":"GO:0014068","count":1},{"id":"GO:0045766","count":1}]},{"hash":"767499540342235659","title":"Sterol and lipid biosynthesis","description":"Most GO terms in this cluster point to lipid and sterol metabolism: cholesterol biosynthetic process via lathosterol, ergosterol biosynthetic process, fatty acid biosynthetic process, ether lipid metabolic process, and glycosphingolipid metabolism (mannosyl-inositol phosphorylceramide). This suggests the proteins function together in sterol and lipid synthesis and processing. Some terms appear tangential (e.g., CNS myelin maintenance, sebaceous gland differentiation, B cell chemotaxis), which may reflect broader or tissue-specific roles of lipids but do not override the central lipid biosynthesis signal.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035754","count":8},{"id":"GO:0032286","count":8},{"id":"GO:0080065","count":8},{"id":"GO:0046485","count":8},{"id":"GO:0001949","count":8}]},{"hash":"1224218230196308946","title":"Cranial neural crest and cranial nerve development","description":"Most terms describe neural crest\u2013derived structures and cranial nerves: migration of neural crest cells, development of trigeminal and facioacoustic (facial) ganglia, facial nerve organization, sympathetic ganglion development, and axon pathfinding with fasciculation and regulation of axon extension. Although a single term mentions branching in blood vessels, the dominant pattern is neural crest\u2013driven cranial nerve and autonomic neuron development.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001569","count":4},{"id":"GO:0036486","count":3},{"id":"GO:0060666","count":3},{"id":"GO:0061551","count":3},{"id":"GO:0021612","count":3}]},{"hash":"1513919986016033016","title":"Pancreatic endocrine signaling with immune links","description":"The top GO terms focus on pancreatic cells and glucose-responsive processes (response to glucose, regulation of insulin secretion in response to glucose, pancreatic cell development/proliferation), pointing to pancreatic endocrine signaling. Several other terms point to immune-related functions (MHC class II antigen processing, its regulation) and host\u2013pathogen interaction processes (dsRNA transport, ubiquitin-like protein modification perturbation), suggesting additional immune associations. Because the core theme appears to center on pancreatic endocrine signaling with ancillary immune-related functions rather than a single cohesive pathway, this label captures the dominant pattern while acknowledging the outliers.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900490","count":2},{"id":"GO:0009749","count":1},{"id":"GO:0033227","count":1},{"id":"GO:0044342","count":1},{"id":"GO:1905419","count":1}]},{"hash":"24855035371757592","title":"Mitochondrial Protein Import","description":"The top GO terms are largely about importing proteins into the mitochondrion (matrix and inner membrane) and inserting them into the inner membrane, with related themes of mitochondrial energy production; despite a few obsolete or outlier terms, the core signal is mitochondrial protein targeting/import machinery.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045039","count":3},{"id":"GO:0006626","count":3},{"id":"GO:0072321","count":2},{"id":"GO:0032094","count":1},{"id":"GO:0030150","count":1}]},{"hash":"2055757507251470575","title":"P450-driven xenobiotic and lipid metabolism","description":"These proteins cluster around cytochrome P450\u2013related processes: epoxygenase P450 pathway and oxylipin biosynthesis strongly imply P450-mediated lipid metabolism, while androgen metabolism, retinoic acid biosynthesis, and xenobiotic-related terms (insecticide, alkaloid metabolism, aldosterone regulation) suggest diverse metabolic transformations and signaling governed by P450 enzymes. The set points to a coherent theme of metabolic processing and lipid signaling rather than a single, narrow function.","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":8},{"id":"GO:0019373","count":8},{"id":"GO:0031408","count":8},{"id":"GO:1900087","count":8},{"id":"GO:0017143","count":8}]},{"hash":"1231459874915260662","title":"Zinc Ion Homeostasis and Transport","description":"This cluster is dominated by GO terms related to zinc handling: import across the plasma membrane, cellular response to zinc ion starvation, detoxification of zinc ion, and intracellular zinc ion homeostasis, along with associated cadmium transport. These collectively point to a cohesive function in maintaining zinc levels and managing metal ion stress, with a minor note of limb development appearing peripherally. Confidence: High","confidence":"","size":8,"edges":13,"triangles":10,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006882","count":4},{"id":"GO:0070574","count":4},{"id":"GO:0034224","count":4},{"id":"GO:0006830","count":4},{"id":"GO:0044749","count":4}]},{"hash":"1985062049544627849","title":"Ion transport and mineralized tissue development","description":"This cluster centers on ions and ion transport (chloride and bicarbonate homeostasis, secretion) and on mineralized tissue processes (odontogenesis, osteoclast differentiation, kidney development) with estrogen-responsive regulation, suggesting a shared theme of ion homeostasis linked to bone/teeth formation and kidney function. The outlier GO term (GABAergic synaptic transmission) is less tied to this core theme, so the overall label emphasizes ion transport and mineralization.","confidence":"Medium","size":8,"edges":19,"triangles":20,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0055064","count":3},{"id":"GO:0032230","count":3},{"id":"GO:0042475","count":3},{"id":"GO:0015701","count":3},{"id":"GO:0046903","count":3}]},{"hash":"2006810087946722084","title":"Developmental transcriptional regulation and epigenetic marks","description":"The top terms center on development (spleen, odontogenesis, hair follicle) and transcription (DNA-templated transcription), with epigenetic regulation suggested by histone methylation marks. Additional terms touch on NF-kappaB signaling, chemokine production, and a necroptosis-related process, implying a broader role in gene expression control during development and immune responses. Although some GO terms are historical/obsolete, the core theme remains regulation of transcription and chromatin state in developmental contexts. Confidence: Medium","confidence":"","size":7,"edges":13,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1901026","count":2},{"id":"GO:0048536","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0034729","count":2}]},{"hash":"1949941413091962290","title":"Embryonic axis formation and tissue development","description":"This cluster\u2019s top GO terms center on dorsal-ventral axis specification, maternal specification, and neural boundary development (e.g., midbrain-hindbrain boundary development), alongside other development-related processes like osteoblast differentiation and cell adhesion. While some terms pertain to general ER functions or membrane trafficking, the shared theme appears to be embryonic development and tissue patterning, with axis specification as a unifying thread. ","confidence":"Medium","size":7,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0007311","count":1},{"id":"GO:0032367","count":1},{"id":"GO:0033622","count":1},{"id":"GO:0009951","count":1}]},{"hash":"1798201701841334079","title":"Adaptive immunity and inflammatory lipid signaling","description":"These proteins cluster around adaptive immune functions (antigen processing/presentation via MHC I; adaptive immune response) and inflammatory signaling (leukotriene biosynthesis; cell signaling), with additional hints of tissue remodeling (angiogenesis regulation and multicellular development). The dominant terms point to immune activation with lipid-mediated inflammation, justifying the label.","confidence":"Medium","size":7,"edges":15,"triangles":20,"max_degree":5,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0007275","count":7},{"id":"GO:0019370","count":6},{"id":"GO:0002003","count":6},{"id":"GO:0007267","count":6},{"id":"GO:0030154","count":6}]},{"hash":"199052874662901050","title":"CD8 T cell activation and cytotoxic regulation","description":"The terms point to immune tuning of T cells, especially negative regulation of TCR signaling, positive regulation of CD8+ T cell proliferation, and granzyme B production, with concurrent modulation of IL-2 and interferon-\u03b1 pathways and some B cell signaling effects, indicating a cluster of proteins involved in T cell activation and cytotoxic response regulation.","confidence":"High","size":7,"edges":8,"triangles":3,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":4},{"id":"GO:0050860","count":3},{"id":"GO:2000566","count":3},{"id":"GO:0051045","count":3},{"id":"GO:0071663","count":3}]},{"hash":"2192169920029969429","title":"Regulation of transcription and translation in development","description":"These GO terms cluster around control of gene expression at both transcriptional and translational levels (translational initiation, transcriptional regulation, RNA surveillance, transcription-coupled repair), with several development-related processes (neuron and muscle differentiation, germarium cystoblast division) and cell-cycle aspects. The common theme is regulation of gene expression during development and related cellular processes.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":1},{"id":"GO:0035914","count":1},{"id":"GO:0090052","count":1},{"id":"GO:0010972","count":1},{"id":"GO:0006283","count":1}]},{"hash":"1662748075424217745","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":16,"triangles":15,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0019700","count":2},{"id":"GO:0048678","count":2},{"id":"GO:0006046","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0019381","count":2}]},{"hash":"942269200236337754","title":"Sensory Epithelia Polarity and Neural Signaling","description":"The top GO terms point to sensory epithelial features like stereocilium organization and photoreception, along with epithelial polarity processes such as basolateral membrane localization and barrier establishment. There\u2019s also emphasis on synapse organization and Rho-regulated cytoskeletal dynamics, suggesting coordinated sensory signaling at polarized epithelial interfaces. Some terms (myelin localization, kidney transport) are less directly related but may reflect broader neuronal-epithelial interfaces; overall, the cluster seems to capture sensory epithelia with polarity and neural signaling aspects.","confidence":"Medium","size":7,"edges":12,"triangles":10,"max_degree":6,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0060088","count":5},{"id":"GO:0090557","count":5},{"id":"GO:0035750","count":5},{"id":"GO:0032416","count":5},{"id":"GO:0050808","count":5}]},{"hash":"907585587715793154","title":"ER-Golgi trafficking and enteric signaling","description":"Most terms converge on vesicle transport between the ER and Golgi, endosome-to-Golgi routing, and regulation of small GTPases and ERK signaling, with additional hints of enteric nervous system development and peristalsis. The skeletal development term is less aligned with the core trafficking/signaling theme, but overall the cluster appears centered on intracellular trafficking combined with GI nervous system signaling. Confidence reflects coherent linking of the majority of terms to ER-Golgi trafficking and enteric signaling.","confidence":"High","size":7,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0001501","count":3},{"id":"GO:0030432","count":3},{"id":"GO:0042493","count":3}]},{"hash":"1673997089954591500","title":"Steroid Hormone Response and Immune Regulation","description":"This cluster is driven by GO terms for responses to steroid hormones (estradiol, glucocorticoid) and associated physiological/immune effects (cardiac muscle relaxation, negative regulation of TNF signaling and IL-1\u03b2 production). Additional terms point to broader stress responses (nucleotide-excision repair, ROS-related regulation), suggesting a theme of cellular stress signaling with hormone-mediated immune modulation. Confidence isMedium.","confidence":"Medium","size":7,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032355","count":5},{"id":"GO:2000469","count":5},{"id":"GO:0055119","count":5},{"id":"GO:0071385","count":5},{"id":"GO:0006289","count":5}]},{"hash":"1646838280937362058","title":"Developmental transcriptional regulation and BMP signaling","description":"This cluster centers on transcriptional control (DNA-templated transcription, regulation of transcription, RNA Pol III regulation) and developmental patterning signals (BMP signaling, wing disc pattern formation, epidermis development, intestinal stem cell homeostasis, skeletal muscle development). The presence of chromatin modification (histone acetylation) alongside these developmental terms supports a cohesive theme of gene regulation guiding development, with BMP as a key signaling node. Some terms (like T cell activation) may reflect broader regulatory roles, but the overall pattern points to developmental gene regulation.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0043984","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0008101","count":1},{"id":"GO:0070236","count":1}]},{"hash":"2000116905353326752","title":"Innate immune signaling and programmed cell death","description":"This cluster is dominated by GO terms such as innate immune response, pyroptotic inflammatory response, apoptotic process, and protein ubiquitination, indicating a core function in immune signaling and regulated cell death. The inclusion of mitotic spindle assembly and various organellar RNA processing terms may reflect secondary or housekeeping roles or generic stress responses, but do not redefine the main theme. Overall, the proteins appear to function in immune response with tight regulation by ubiquitination and cell death pathways.","confidence":"Medium","size":7,"edges":8,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0070269","count":2},{"id":"GO:1990001","count":2}]},{"hash":"2298090748340892809","title":"Membrane Transport and Stress Response","description":"This cluster shows a strong emphasis on transport processes across membranes (abscisic acid transport, teichoic acid transport, phospholipid translocation, lipoprotein transport, methionine transport) combined with stress-related responses (SOS response, nucleotide-excision repair, mercury ion response), suggesting a group of proteins involved in membrane transport tied to environmental stress adaptation and genome maintenance. ","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0080168","count":7},{"id":"GO:0015777","count":7},{"id":"GO:0009432","count":7},{"id":"GO:0006289","count":7},{"id":"GO:0045332","count":7}]},{"hash":"744676070120464130","title":"Unknown","description":"The top GO terms span immune signaling (interleukin-2 signaling, NF-kappaB regulation), cell cycle and meiosis (meiotic spindle attachment, meiotic cell cycle), metabolism (sterol import, diadenosine tetraphosphate biosynthesis), and other processes (chemotaxis, rhythmic processes, nuclear export regulation). There isn\u2019t a single cohesive function tying these proteins together, suggesting the cluster is functionally heterogeneous. ","confidence":"","size":7,"edges":9,"triangles":5,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0035376","count":4},{"id":"GO:0006935","count":4},{"id":"GO:0051436","count":4},{"id":"GO:0046826","count":4}]},{"hash":"1517602463037336594","title":"Steroid and retinoid biosynthesis","description":"This cluster is characterized by GO terms for biosynthetic and metabolic processes of steroid hormones (androgen, glucocorticoid, estrogen) and retinoids (retinoic acid, retinol), with a related pigment biosynthesis term. Despite a term for receptor clustering, the dominant theme is production of steroid and retinoid compounds, suggesting enzymes and factors involved in lipid-derived hormone and vitamin A pathways. ","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043113","count":3},{"id":"GO:0008209","count":2},{"id":"GO:0006729","count":2},{"id":"GO:0002138","count":2},{"id":"GO:0031427","count":2}]},{"hash":"1812055756674824575","title":"Nuclear import and pore assembly","description":"The cluster shows strong representation of GO terms related to importing proteins into the nucleus (including NLS-bearing and ribosomal proteins) and nuclear pore complex assembly, suggesting a shared role in nuclear transport and nuclear envelope dynamics, with some cell-cycle related envelope events. ","confidence":"High","size":7,"edges":15,"triangles":14,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000060","count":4},{"id":"GO:0060188","count":4},{"id":"GO:0006607","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051292","count":4}]},{"hash":"1147790120282897141","title":"Visual system development and photoreceptor maintenance","description":"The terms cluster around vision-related biology: visual perception, retinal and photoreceptor development, and photoreceptor maintenance, suggesting a functional group tied to visual system function. A few terms touch broader cellular processes (endosome-Golgi transport, actomyosin ring contraction, meiosis), but they appear subordinate to the vision signal.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0034498","count":2},{"id":"GO:0021987","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0045494","count":2},{"id":"GO:0007601","count":2}]},{"hash":"575151174399962193","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0034427","count":3},{"id":"GO:0071039","count":3},{"id":"GO:0071028","count":3},{"id":"GO:0090503","count":3},{"id":"GO:0090502","count":3}]},{"hash":"1946776949455669992","title":"Unknown","description":"The terms are scattered across transcription, metabolism, redox regulation, and stress responses, with several obsolete GO entries, giving no clear shared function to anchor a specific label. Therefore a generic Unknown is appropriate.","confidence":"","size":7,"edges":12,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042219","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0006662","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0080058","count":1}]},{"hash":"1201043085553616264","title":"Ubiquitin-Dependent Cell Cycle Regulation","description":"This cluster is dominated by GO terms linking ubiquitin conjugation and degradation (K11-linked ubiquitination; ubiquitin-dependent protein catabolic process; ERAD pathway) with mitotic control (cell division; metaphase/anaphase transition). Together they point to a set of proteins that regulate mitosis via ubiquitin-mediated proteolysis. Additional immune-related terms (innate immune response, dsRNA/interferon response) appear but are secondary, possibly reflecting cross-talk between ubiquitin pathways and antiviral signaling. A minor term about box C/D snoRNP assembly is present but not central. Overall, the coherent theme is ubiquitin-dependent regulation of the cell cycle.","confidence":"High","size":7,"edges":15,"triangles":16,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000492","count":4},{"id":"GO:0070979","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0007091","count":4},{"id":"GO:0042787","count":4}]},{"hash":"161624579661357304","title":"Telomere Maintenance and Translation","description":"The GO terms show strong involvement in translation-related processes (aspartyl-/phenylalanyl-tRNA charging, tRNA processing, translation) along with telomere-associated and genome stability roles (telomere capping, localization to telomeres, DNA repair, mitotic checkpoint). This suggests a cluster where translation machinery intersects with telomere maintenance and genome integrity pathways, rather than a single narrow function. Confidence: Medium","confidence":"Medium","size":7,"edges":11,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006422","count":2},{"id":"GO:0016233","count":2},{"id":"GO:0070156","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0072581","count":2}]},{"hash":"1050739026354748533","title":"Translational Regulation and RNA Processing","description":"This cluster centers on regulators of translation initiation and RNA processing. Key terms include regulation of translational initiation, formation of the translation preinitiation complex, and eIF4F complex assembly, as well as mRNA splicing recognition and poly(A) tail regulation, and miRNA-mediated silencing by inhibition of translation. The co-occurrence of these terms suggests a coordinated role in controlling when and how mRNAs are translated, with concurrent RNA maturation steps.","confidence":"Medium","size":7,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006446","count":5},{"id":"GO:0016556","count":5},{"id":"GO:0097010","count":5},{"id":"GO:0006376","count":5},{"id":"GO:0002188","count":5}]},{"hash":"1589697609360138276","title":"Nucleoside Transporters","description":"The cluster is strongly enriched for nucleoside transport terms (pyrimidine, purine, and cytidine transport across membranes), indicating a nucleoside transporter function; a few other terms (DNA repair, vacuole organization, myelin-related processes) appear incidental.","confidence":"High","size":7,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055072","count":2},{"id":"GO:0015864","count":2},{"id":"GO:0015860","count":2},{"id":"GO:0015861","count":2},{"id":"GO:0090305","count":1}]},{"hash":"2293859044596561969","title":"Developmental Signaling and Trafficking","description":"The cluster shows enrichment for signaling pathway terms (Rap and Rho signaling, calcineurin-NFAT regulation) together with intracellular transport/localization terms (intracellular transport, localization to microtubules) and development-related processes (cartilage condensation, Bergmann glial cell differentiation), suggesting a theme where signaling and trafficking coordinate development. ","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":3},{"id":"GO:0032486","count":2},{"id":"GO:0051534","count":2},{"id":"GO:0035372","count":2},{"id":"GO:0001502","count":2}]},{"hash":"1111416587992181880","title":"Membrane Transport and Stress Response","description":"It features several membrane transport processes (teichoic acid transport, phospholipid translocation, lipoprotein transport, methionine transport, glutathione import into vacuole) together with cellular stress responses (SOS response, nucleotide-excision repair, mercury and fenofibrate response). This pattern points to a cluster of proteins that function in membrane-associated transport while also engaging in damage/stress response pathways.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015777","count":7},{"id":"GO:0009432","count":7},{"id":"GO:0045332","count":7},{"id":"GO:0006289","count":7},{"id":"GO:0071996","count":7}]},{"hash":"1846485312980289152","title":"Embryonic Morphogenesis and Signaling","description":"This cluster features strong enrichment for embryonic development terms (in utero embryonic development, inner ear development, tube formation) and key signaling pathways (negative regulation of ERK cascade, positive regulation of TGF-\u03b2 receptor signaling) along with adhesion and morphogenesis processes (adherens junction organization, leading edge differentiation, membrane targeting). The combination suggests proteins coordinating embryonic tissue morphogenesis through ERK and TGF-\u03b2 signaling and cell adhesion.","confidence":"High","size":7,"edges":7,"triangles":4,"max_degree":4,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070373","count":4},{"id":"GO:0030511","count":4},{"id":"GO:0001701","count":4},{"id":"GO:0034332","count":3},{"id":"GO:0048839","count":3}]},{"hash":"464256748716351208","title":"Ribosome Biogenesis and RNA Modification","description":"Based on the GO terms, the proteins cluster around ribosome biogenesis and RNA modification processes: multiple items mention ribosome assembly (cytosolic and preribosome), maturation of LSU-rRNA, rRNA base methylation, and tRNA wobble methylation. A note on mitochondrial translation regulation also appears, supporting a broader link to protein synthesis machinery.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":1},{"id":"GO:0070475","count":1},{"id":"GO:0000463","count":1},{"id":"GO:0070131","count":1},{"id":"GO:0002127","count":1}]},{"hash":"1190178195380847506","title":"Unknown","description":"The top terms span diverse and loosely related areas: RNA and peptidyl-arginine modification, several biosynthetic pathways (phosphatidylcholine, polyamine, biotin), and varied stress responses (hyperosmotic, immobilization, tellurium). There isn\u2019t a single coherent biological function or pathway linking these terms, suggesting the cluster does not reflect one clear theme. ","confidence":"","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030961","count":7},{"id":"GO:0046690","count":7},{"id":"GO:0006972","count":7},{"id":"GO:0006656","count":7},{"id":"GO:0006596","count":7}]},{"hash":"1067220626851857870","title":"Amino acid biosynthesis and peptide degradation","description":"This cluster centers on amino acid metabolism, with multiple GO terms for arginine and lysine biosynthesis (including diaminopimelate routes) and for peptide catabolic processes and proteolysis. Additional terms touch on related metabolism (purine nucleotide pathways, ureide/ allantoin catabolism), suggesting a broader metabolic context with a common theme of amino acid production and protein turnover. A noisy circadian term is present but not explanatory. Overall, the group coherently reflects amino acid biosynthesis and peptide breakdown activities.","confidence":"High","size":7,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006526","count":5},{"id":"GO:0019877","count":5},{"id":"GO:0043171","count":5},{"id":"GO:0006508","count":5},{"id":"GO:0009089","count":5}]},{"hash":"125811830720424414","title":"Sporulation-Linked Biosynthesis","description":"The terms emphasize multiple biosynthetic processes (NAD+-, GMP-, glutamine-, oxaloacetate-, polyamine-, lipoprotein biosynthesis) plus sporulation-related terms, suggesting a theme of metabolic biosynthesis with occasional sporulation involvement. The connectivity is low and the functions are varied, so the label captures a broad, representative theme without implying a single precise pathway.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":1},{"id":"GO:0009435","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0006541","count":1},{"id":"GO:0030436","count":1}]},{"hash":"355404148310330440","title":"Coagulation and fibrinolysis with tissue remodeling","description":"The cluster is dominated by GO terms related to plasminogen activation, regulation of plasminogen activation, fibrinolysis, blood coagulation, and Factor XII activation, indicating involvement in clot formation and breakdown. Additional terms on tissue remodeling, embryo implantation, mammary duct growth, and hepatocyte growth factor receptor signaling suggest roles in extracellular matrix remodeling and growth-factor\u2013driven development. Altogether, the proteins likely participate in coagulation/fibrinolysis coupled with tissue remodeling processes. ","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031639","count":6},{"id":"GO:0014909","count":6},{"id":"GO:0007596","count":6},{"id":"GO:0002542","count":6},{"id":"GO:0010756","count":6}]},{"hash":"1643817856818087593","title":"SMAD-mediated developmental differentiation","description":"The top GO terms center on SMAD signaling and broad developmental differentiation across tissues (lens, tooth, bone, erythrocyte, ureter) and morphogenesis, plus DNA-templated transcription. This suggests proteins in a SMAD-driven transcriptional program coordinating diverse developmental processes, not just a single tissue. ","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060395","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0070306","count":4},{"id":"GO:0030218","count":3},{"id":"GO:0072189","count":3}]},{"hash":"2257820067038280557","title":"Mitochondrial energy metabolism and cofactor biosynthesis","description":"The top GO terms show strong representation of thiamine diphosphate biosynthesis, thiamine biosynthetic/catabolic processes, and heme biosynthesis, alongside mitochondrial-related terms such as mitochondrial depolarization and regulation of apoptotic signaling. This suggests a functional theme connecting cofactor biosynthesis (thiamine/TPP and heme) with mitochondrial energy metabolism and stress-induced apoptotic pathways, with a minor incidental term about endothelial proliferation. ","confidence":"Medium","size":7,"edges":18,"triangles":21,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0009229","count":3},{"id":"GO:0018189","count":3},{"id":"GO:0009230","count":3},{"id":"GO:0009228","count":3},{"id":"GO:0001937","count":1}]},{"hash":"1814393788586683075","title":"Complement activation and leukocyte recruitment","description":"The top GO terms reveal a clear focus on immune signaling, particularly complement activation through lectin and classical pathways, and positive regulation of leukocyte tethering or rolling, which points to roles in innate immunity and leukocyte trafficking. While there are some secondary terms related to development, digestion, and other processes, the dominant signal ties to complement-mediated immune activation and leukocyte recruitment, suggesting the cluster groups proteins involved in initiating immune responses and guiding leukocytes to sites of activity.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009791","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0006958","count":3},{"id":"GO:0014909","count":2},{"id":"GO:1903238","count":2}]},{"hash":"1814743920381245672","title":"NMDA Receptor Regulation and Synaptic Transmission","description":"The cluster centers on synaptic signaling modulation, highlighted by GO terms for regulating NMDA receptor activity, modulating excitatory and inhibitory postsynaptic potentials, and receptor internalization, as well as coordinating terminal button organization. While a couple terms like iodide transport and protein tetramerization appear, the dominant pattern ties to neuronal communication and control of synaptic transmission, suggesting these proteins function together in regulating synaptic signaling. ","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042136","count":7},{"id":"GO:2000331","count":7},{"id":"GO:0090394","count":7},{"id":"GO:2000310","count":7},{"id":"GO:0032223","count":7}]},{"hash":"2215366633653722898","title":"Muscle ECM Remodeling and Inflammatory Response","description":"The terms point to muscle tissue maintenance and remodeling, with emphasis on extracellular matrix disassembly and collagen regulation, alongside hypoxia response and inflammatory signaling (acute-phase and IL-10 related), indicating a cluster of proteins involved in muscle ECM remodeling under stress and inflammatory modulation.","confidence":"Medium","size":7,"edges":12,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046716","count":4},{"id":"GO:1902947","count":4},{"id":"GO:0014910","count":4},{"id":"GO:0001666","count":4},{"id":"GO:0032733","count":4}]},{"hash":"1532061211529878510","title":"Neural migration and oligodendrocyte differentiation","description":"This cluster centers on brain development: tangential neuronal migration to the olfactory bulb, and positive regulation of oligodendrocyte differentiation, with supporting signals about learning, cell polarity, and mechanotransduction that are common in neural development. Some terms (e.g., ossification) are less aligned but may reflect broader developmental signaling contexts.","confidence":"Medium","size":7,"edges":9,"triangles":5,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022028","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0007612","count":7},{"id":"GO:0045197","count":7},{"id":"GO:0043931","count":7}]},{"hash":"993307362969856095","title":"Embryonic Organogenesis and Morphogenesis","description":"The GO terms cluster around development of multiple embryonic tissues and organs (pituitary, palate, limbs, digits, spine, inner ear, motor neurons, skeletal system), indicating a common theme of embryonic organogenesis and patterning, often involving signaling and gene-regulatory regulation. This makes the label representative and specific to the cluster\u2019s function.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021983","count":5},{"id":"GO:0090190","count":4},{"id":"GO:0060021","count":4},{"id":"GO:0021524","count":4},{"id":"GO:0048839","count":4}]},{"hash":"353427208094373899","title":"Neurodevelopment and Complement Activation","description":"The cluster mixes neural development terms (in utero embryonic development, cerebellar Purkinje cell layer development, synapse maturation) with strong signals for all major complement pathways (classical, lectin, alternative) and MAC activation. This pattern suggests proteins involved in brain development that are also related to immune complement activity, possibly reflecting roles in synaptic remodeling or signaling cross-talk between development and immune processes. PKC signaling regulation and apoptotic process modulation add further context to a signaling-influenced developmental network.","confidence":"Medium","size":7,"edges":15,"triangles":16,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001701","count":5},{"id":"GO:0021680","count":5},{"id":"GO:0001970","count":5},{"id":"GO:0090036","count":5},{"id":"GO:0060074","count":5}]},{"hash":"1051862949001294125","title":"Renal Nephron Development","description":"The top GO terms cluster around metanephric/mesonephric kidney development and specific nephron tubule morphogenesis (proximal/distal tubules, ascending limb), indicating a renal development function. A few terms pertain to immune processes, which may reflect contextual or overlapping annotations rather than core activity of the cluster. Overall, the cluster appears to represent nephrogenesis and renal tubule formation.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0072177","count":3},{"id":"GO:0090403","count":3},{"id":"GO:0072287","count":3},{"id":"GO:0010572","count":3},{"id":"GO:0045575","count":3}]},{"hash":"1176554801402279250","title":"Unknown","description":"The top GO terms cover immune signaling (NOD2 pathway, IL-12 regulation), lipid metabolism, stress/ stimulus responses (mechanical, capsazepine), RNA stability, and basic growth/cell cycle, with no single dominant function tying all six proteins. This diversity suggests there isn\u2019t a coherent, shared role for the cluster beyond incidental associations, so a single representative label isn\u2019t evident.","confidence":"","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":5},{"id":"GO:0071260","count":5},{"id":"GO:0046475","count":4},{"id":"GO:1901594","count":4},{"id":"GO:0070431","count":4}]},{"hash":"66283855725117792","title":"Developmental Gene Regulation and Chromatin Modification","description":"The top GO terms point to DNA-templated transcription and multiple developmental processes (gastrulation, spinal cord development, gonad development), alongside chromatin-related activities (histone methylation, sister chromatid cohesion, HR repair). This suggests a cluster of proteins involved in regulating gene expression during development via epigenetic mechanisms.","confidence":"High","size":6,"edges":10,"triangles":5,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0006349","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0008584","count":3},{"id":"GO:0021510","count":3}]},{"hash":"711734591525592430","title":"Proteostasis and Organelle Targeting","description":"This cluster centers on protein quality control and trafficking: aggresome assembly and protein processing, plus organelle import/retention terms for mitochondrial intermembrane space, peroxisomes, and Golgi. While nuclear processes (transcription, replication checkpoints) appear, the dominant theme is proteostasis and subcellular targeting.","confidence":"Medium","size":6,"edges":12,"triangles":11,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070842","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0061166","count":3},{"id":"GO:1903468","count":3},{"id":"GO:0045041","count":3}]},{"hash":"1986608046283804895","title":"Translational Regulation and mRNA Processing","description":"This cluster centers on regulatory control of mRNA fate and translation in eukaryotes, including initiation factor assembly (eIF4F, preinitiation complex), translation initiation and reinitiation, mRNA splicing, polyadenylation regulation, and ncRNA/miRNA-mediated gene silencing that modulates translation.","confidence":"High","size":6,"edges":12,"triangles":10,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006446","count":6},{"id":"GO:0016556","count":6},{"id":"GO:0097010","count":6},{"id":"GO:0006376","count":6},{"id":"GO:0002188","count":6}]},{"hash":"1714572675510335836","title":"Brain and Eye Development","description":"The top GO terms cluster around neural and sensory tissue development: brain and forebrain development, metencephalon development, and retina development, with multicellular organism development also present. This suggests the proteins collectively participate in neural and eye formation, rather than unrelated processes. Some terms like single fertilization and citrulline metabolism appear peripherally but do not dominate the theme. Overall, the cluster is best described as brain and eye neurodevelopment.","confidence":"High","size":6,"edges":8,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0022037","count":2},{"id":"GO:0035948","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0060041","count":2}]},{"hash":"1575804013858042530","title":"Unknown","description":"The cluster\u2019s top GO terms span immune defense, cell cycle and ubiquitination, mechanosensing, various metabolic and detoxification processes, and neuronal localization, with some terms labeled obsolete. This broad, incoherent mix provides no single cohesive theme to name the cluster, so a specific label isn\u2019t defensible.","confidence":"","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0071260","count":2}]},{"hash":"774540173743642554","title":"Cilium Assembly and Centrosome/Cytoskeleton Regulation","description":"This cluster centers on centrosome cycle and microtubule organization (centrosome cycle, microtubule anchoring at spindle poles) and ciliary assembly processes (intraciliary transport for cilium assembly), with Rac signaling implication for cytoskeleton dynamics, indicating a shared function in ciliogenesis and cell division regulation. Some peripheral terms (calcium entry, developmental/demographic terms) appear less central but do not negate the core theme.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035020","count":2},{"id":"GO:0007098","count":2},{"id":"GO:1990810","count":2},{"id":"GO:0035735","count":2},{"id":"GO:1904743","count":1}]},{"hash":"346300624409891909","title":"Unknown","description":"The top GO terms span metal stress response, mitochondrial protein import, inflammatory signaling, viral and host-cell interactions, cell cycle, proteostasis, apoptosis regulation, toxin transport, and sperm binding. This mix shows no single clear function or pathway tying the proteins together, and there are no edges connecting them, so the cluster cannot be confidently labeled beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":6},{"id":"GO:0045041","count":6},{"id":"GO:0050729","count":6},{"id":"GO:0019068","count":6},{"id":"GO:0007049","count":6}]},{"hash":"1326101570705803197","title":"Developmental Regulation and Epigenetic Chromatin Control","description":"The cluster is enriched for developmental processes (brain and gonad development, oogenesis, vitellogenesis) and for chromatin-level regulation (heterochromatin formation, histone methylation). This points to a function in developmental regulation linked to epigenetic control. Some terms like innate immunity and respiration regulation appear, but the dominant theme remains development with epigenetic regulation.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1900446","count":5},{"id":"GO:0031508","count":5},{"id":"GO:0007296","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0061086","count":5}]},{"hash":"103061079541224383","title":"Fungal cell wall biosynthesis and glycosylation","description":"The top GO terms point to fungal-type cell wall biogenesis, beta-glucan biosynthesis, N-linked glycosylation, and oligosaccharide metabolism, indicating a cohesive theme around fungal cell wall construction and glycan processing. Some other terms (e.g., neuron differentiation, IL-4 response, spindle pole body duplication) appear peripheral or reflect broader cellular processes, likely representing annotation noise rather than a dominant alternate function. Overall, the dominant theme supports a classification centered on fungal cell wall synthesis and glycosylation.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015966","count":2},{"id":"GO:0006487","count":1},{"id":"GO:0009272","count":1},{"id":"GO:0009311","count":1},{"id":"GO:0070880","count":1}]},{"hash":"1343281814213485353","title":"Developmental Patterning and Intracellular Transport","description":"The proteins show enrichment for developmental processes (neural tube patterning, multicellular growth) together with various intracellular transport and organelle dynamics terms (ER-Golgi transport, ribosomal export, mitochondrial fission, adherens junction organization), suggesting a theme of coordinating development with vesicle trafficking and organelle function.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021532","count":6},{"id":"GO:0034332","count":6},{"id":"GO:0000055","count":6},{"id":"GO:1903434","count":6},{"id":"GO:0097327","count":6}]},{"hash":"1313776909312554816","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":8,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048702","count":4},{"id":"GO:0006068","count":4},{"id":"GO:0009812","count":4},{"id":"GO:0030205","count":4},{"id":"GO:0050427","count":4}]},{"hash":"331008860027440492","title":"N-acetylglucosamine and amino-sugar metabolism","description":"The cluster centers on catabolic and biosynthetic steps for N-acetylglucosamine and related amino sugars (GlcNAc, glucosamine) and UDP-GlcNAc, with supporting carbohydrate metabolism and pentose phosphate shunt activity, suggesting a cohesive amino sugar metabolic module. Some links to NAD+ biosynthesis and sporulation appear peripheral rather than core to the main theme.","confidence":"Medium","size":6,"edges":8,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019262","count":1},{"id":"GO:0009051","count":1},{"id":"GO:0006046","count":1},{"id":"GO:0006048","count":1},{"id":"GO:0006043","count":1}]},{"hash":"1463761306820610320","title":"RNA and protein methylation","description":"The Top Terms are dominated by methylation-related processes, including RNA methylation (tRNA wobble uridine modification, guanine-N7 methylation, mRNA cap formation) and various protein methylations (peptidyl-arginine/lysine methylation). This suggests a cohesive cluster of methyltransferases and methylation-related activities involved in RNA processing and protein modification. A few terms like antibiotic biosynthesis and tellurium ion response seem tangential, but do not outweigh the central methylation theme.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0046690","count":6},{"id":"GO:0036265","count":6},{"id":"GO:0019919","count":6},{"id":"GO:0002098","count":6},{"id":"GO:1901052","count":6}]},{"hash":"1617771145602531750","title":"Mitotic cell cycle and ubiquitination","description":"Based on GO terms, the cluster centers on cell division and the mitotic cell cycle, with protein ubiquitination as a key regulatory mechanism (GO:0051301, GO:0000278, GO:0016567). While a few terms touch on apoptosis, polarity, or dendrite development, the dominant theme is core cell division and its regulation, suggesting a proliferative/mitotic function for the cluster.","confidence":"Medium","size":6,"edges":4,"triangles":1,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0033028","count":2},{"id":"GO:0016567","count":2}]},{"hash":"392541452449503058","title":"Mitochondrial Respiration and Complex I Assembly","description":"Dominant GO terms are related to mitochondrial function, notably electron transport chain (GO:0022900) and mitochondrial respiratory chain complex I assembly (GO:0032981), suggesting the core theme is mitochondrial energy metabolism. Other terms (e.g., cAMP signaling, brain development, DNA repair) seem incidentally represented, so the strongest signal remains mitochondrial respiration.","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051591","count":1},{"id":"GO:0048146","count":1},{"id":"GO:0007420","count":1},{"id":"GO:0019933","count":1},{"id":"GO:0032981","count":1}]},{"hash":"1558035602709020742","title":"Organelle dynamics and intracellular transport","description":"The top terms span ribosomal export, ER-Golgi trafficking, mitochondrial fission, adherens junction organization, and spindle orientation signaling, with developmental growth terms also present. This suggests a cohesive theme of coordinating cellular architecture, organelle dynamics, and vesicle transport during growth and division.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0021532","count":6},{"id":"GO:0034332","count":6},{"id":"GO:0000055","count":6},{"id":"GO:1903434","count":6},{"id":"GO:0097327","count":6}]},{"hash":"496442987118282058","title":"Muscle and heart development","description":"The majority of top terms point to muscle and heart development, including myoblast fate determination, skeletal muscle fiber development, and cardioblast anterior-lateral migration, suggesting a core theme of muscle/cardiac lineage formation, even though a few terms relate to broader organogenesis or transcriptional regulation.","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007540","count":5},{"id":"GO:0003259","count":5},{"id":"GO:2000678","count":5},{"id":"GO:0007518","count":5},{"id":"GO:0003407","count":5}]},{"hash":"2145587398188235002","title":"Neurite outgrowth and actin remodeling","description":"These proteins share strong enrichment for actin cytoskeleton remodeling and neural development processes (actin filament branching/organization, actin nucleation, neuron projection development, response to nerve growth factor, and Rho signaling regulation). This points to roles in neurite outgrowth and neuronal migration driven by actin dynamics, with a few peripheral terms like chromatin modification or osteoblast differentiation not central to the cluster's main theme.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0010954","count":6},{"id":"GO:1990090","count":6},{"id":"GO:0090135","count":6},{"id":"GO:0002051","count":6},{"id":"GO:0035023","count":6}]},{"hash":"1093121691305082610","title":"Inflammation and Renin-Angiotensin\u2013Mediated Angiogenesis","description":"The cluster includes leukotriene biosynthesis and adaptive immune elements (MHC I antigen processing/presentation, adaptive immune response), alongside angiogenesis and renin-angiotensin\u2013related regulation of blood pressure, plus membrane protein ectodomain proteolysis. This combination points to a set of proteins coordinating inflammatory signaling with vascular remodeling and blood-pressure\u2013related regulation via the renin-angiotensin system.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0019370","count":6},{"id":"GO:0002003","count":6},{"id":"GO:0030154","count":6},{"id":"GO:0002005","count":6},{"id":"GO:0019885","count":6}]},{"hash":"1887952252290394117","title":"Innate immunity and programmed cell death regulation","description":"This cluster centers on GO terms for innate immune response, pyroptotic inflammatory response, and apoptotic process, with ubiquitination as a key regulatory mechanism (GO:0016567). The presence of mitotic spindle assembly suggests a broader role in ubiquitin-mediated regulation of the cell cycle, which can intersect with immune signaling and cell death pathways. Taken together, the proteins likely participate in innate immune responses coupled to programmed cell death, with ubiquitination as a common regulatory thread. ","confidence":"Medium","size":6,"edges":11,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0070269","count":4},{"id":"GO:1990001","count":4}]},{"hash":"2170111745612898833","title":"Auditory Neuron Signaling and Vocalization","description":"The cluster contains terms tied to auditory receptor cell organization and vocalization behavior, pointing to neural and sensory processing. Additional terms related to morphine response and Rho signaling suggest neuronal signaling and cytoskeletal regulation, while some immune/trafficking terms may be ancillary noise. Overall, a theme of neural auditory function and behavior emerges.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0060088","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0071315","count":6},{"id":"GO:1903028","count":6},{"id":"GO:0070433","count":6}]},{"hash":"1056077190142351711","title":"Innate immunity and pyroptotic/apoptotic signaling","description":"The cluster is driven by innate immune response and inflammatory cell death terms (pyroptosis and apoptosis), with protein ubiquitination suggesting regulation of signaling pathways, pointing to a module involved in host defense and inflammatory responses. Some developmental terms appear as noise and do not define the core function. ","confidence":"Medium","size":6,"edges":11,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0016567","count":2},{"id":"GO:1990001","count":2},{"id":"GO:0070269","count":2},{"id":"GO:0090307","count":2}]},{"hash":"1935471939985461992","title":"Gonadal Cytokine and Chemokine Regulation","description":"The top GO terms cluster around positive regulation of cytokine and chemokine production (IL-18, IL-13, CXCL2), with related NF-kappaB activity, plus a signal of male gonad development and LH stimulus response. This suggests a theme of hormone-linked immune/cytokine signaling in gonadal contexts, rather than a purely metabolic or trafficking process. Other terms like antibacterial peptide biosynthesis and endosome-Golgi transport are ancillary but do not redefine the core theme.","confidence":"Medium","size":6,"edges":10,"triangles":7,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071373","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0008584","count":6},{"id":"GO:0032741","count":6},{"id":"GO:2000341","count":6}]},{"hash":"1174089068266255753","title":"TCA Cycle and Fatty Acid Biosynthesis","description":"This cluster is dominated by GO terms linking the proteins to central carbon metabolism, including the TCA cycle and acetyl-CoA\u2013driven fatty acid biosynthesis, indicating a metabolism-focused module; minor transcription-related and redox terms are present but not central.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":2},{"id":"GO:0006104","count":2},{"id":"GO:0006107","count":2},{"id":"GO:0006101","count":2},{"id":"GO:0006085","count":2}]},{"hash":"1508756531387224506","title":"Enamelogenesis and ECM Remodeling","description":"The top GO terms point to enamel formation (amelogenesis) and active extracellular matrix remodeling, including collagen catabolic process, ECM disassembly, and proteolysis, with related digestion and fibrinolysis signals; immune-related terms may reflect remodeling-associated responses but the core theme is enamel development linked to ECM degradation.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0097186","count":4},{"id":"GO:0022617","count":4},{"id":"GO:0030574","count":4},{"id":"GO:0006508","count":3},{"id":"GO:0001867","count":2}]},{"hash":"1368855741867197873","title":"Mitotic Cell Division & Chromatin Regulation","description":"Enriched for mitosis-related processes (spindle assembly, chromatid cohesion) and DNA damage response (HR repair, checkpoint regulation) along with chromatin modification (histone methylation). Actin remodeling aligns with mitotic cytoskeleton dynamics; some developmental terms appear as broader contexts but the dominant theme is cell division and chromatin regulation.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0030042","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0008584","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0007369","count":3}]},{"hash":"2177534792266544577","title":"Neurodevelopment and craniofacial morphogenesis","description":"The top GO terms are dominated by nervous system development (peripheral nervous system neuron development, metencephalon development, visceral motor neuron differentiation, trigeminal ganglion development) and craniofacial structures (roof of mouth development), suggesting a cohesive theme around neural and craniofacial morphogenesis. Some terms also touch on broader embryonic organogenesis (bronchiole, ureteric bud morphogenesis), but the strongest signal is neurodevelopment with craniofacial involvement.","confidence":"Medium","size":6,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090190","count":6},{"id":"GO:0022037","count":6},{"id":"GO:0008584","count":6},{"id":"GO:0048935","count":6},{"id":"GO:0060021","count":6}]},{"hash":"1247903842426322747","title":"NF-kappaB-driven inflammation and apoptotic clearance","description":"The top GO terms cluster around inflammatory response and NF-kappaB signaling, including positive regulation of inflammatory response and apoptotic cell clearance, suggesting a theme of immune regulation. Some terms (nucleotide-excision repair, DNA damage checkpoint) are present but less central to this core theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043277","count":2},{"id":"GO:0060546","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0034260","count":2},{"id":"GO:0006954","count":2}]},{"hash":"1707168280444708927","title":"Unknown","description":"The listed GO terms cover very different biological areas\u2014plant/microbial defense compounds (alkaloids, phytoalexins), pigment-related processes, neurotransmitter biosynthesis, circadian rhythms, migration, and basic cellular regulation. There is no single unifying function, so a specific label cannot be confidently assigned.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042136","count":3},{"id":"GO:0071312","count":3},{"id":"GO:0052314","count":3},{"id":"GO:0043052","count":3},{"id":"GO:0001553","count":3}]},{"hash":"2271066623779841671","title":"B cell signaling and phagocytosis regulation","description":"This cluster is driven by terms focusing on B cell receptor signaling (including differentiation) and regulation of phagocytosis, with supporting lipid and small GTPase signaling (IP3/IP3 biosynthesis, Rho/Ras pathways). The prominent B cell-related terms suggest an immune activation theme centered on B cells and associated phagocytic signaling.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0038028","count":6},{"id":"GO:0035023","count":6},{"id":"GO:0050861","count":6},{"id":"GO:0032959","count":6},{"id":"GO:0009395","count":6}]},{"hash":"1727309445122000081","title":"Lipoprotein remodeling and cholesterol homeostasis","description":"The top GO terms cluster around lipoprotein metabolism and cholesterol handling: LDL remodeling, phospholipid and triglyceride/homeostasis, cholesterol transport/storage, and foam cell differentiation, suggesting a cohesive module of lipid processing and lipoprotein signaling with a potential link to macrophage responses.","confidence":"High","size":6,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050746","count":3},{"id":"GO:0034374","count":3},{"id":"GO:0055091","count":3},{"id":"GO:0090197","count":3},{"id":"GO:0055096","count":3}]},{"hash":"573303566176047639","title":"Plant cell wall biosynthesis and mucilage formation","description":"The cluster centers on plant-specific cell wall processes: homogalacturonan and mucilage biosynthesis, plant-type secondary cell wall biogenesis, and galactose metabolism, plus root hair cell development. These terms point to enzymes and pathways that construct and modify polysaccharide-rich cell walls and secreted mucilage in plants, with possible involvement in root hair formation. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":2},{"id":"GO:0080147","count":2},{"id":"GO:0035269","count":1},{"id":"GO:0006012","count":1},{"id":"GO:0043403","count":1}]},{"hash":"998703514553081582","title":"Unknown","description":"The terms span multiple unrelated areas (protein/post-translational modifications, various biosynthetic pathways, and broad stress responses) with no clear, single function tying the cluster together, so a simple, representative label cannot be confidently assigned.","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030961","count":5},{"id":"GO:0046690","count":5},{"id":"GO:0009234","count":5},{"id":"GO:0006972","count":5},{"id":"GO:0006656","count":5}]},{"hash":"1194222213993379817","title":"Secreted signaling peptides and hormone processing","description":"The terms converge on processing and secretion of signaling molecules (nerve growth factor production, insulin processing, renin secretion, peptide pheromone maturation) and related receptor turnover (LDL receptor catabolic processes), with an implicit developmental signaling context (zygotic axis patterning). This supports a cohesive theme around secreted signals and their maturation/endocytosis pathways.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032902","count":2},{"id":"GO:0032802","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0030070","count":2},{"id":"GO:0002001","count":2}]},{"hash":"20552492915033103","title":"Collagen ECM and Embryonic Morphogenesis","description":"This cluster centers on collagen fibril organization, with multiple terms tied to tissue morphogenesis (aorta smooth muscle, limb bud, atrial septum, palate) and tooth mineralization, suggesting proteins involved in extracellular matrix organization that guide embryonic development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":3},{"id":"GO:0010751","count":2},{"id":"GO:0060414","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0043281","count":2}]},{"hash":"601565921240543938","title":"Macrophage lipid remodeling and foam cell formation","description":"These proteins appear to participate in lipid remodeling and lipid biosynthesis/catabolism (LDL particle remodeling; phosphatidic acid, phosphatidylcholine, and phosphatidylglycerol acyl-chain remodeling) together with innate immune functions, including regulation of macrophage activation and foam cell differentiation, and leukotriene synthesis with ERK signaling. This suggests a theme of macrophage lipid metabolism linked to innate immune responses and inflammatory signaling.","confidence":"High","size":6,"edges":10,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0034374","count":4},{"id":"GO:0019370","count":4},{"id":"GO:0044240","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0002227","count":4}]},{"hash":"1466933124112546765","title":"Innate immunity, complement, and ECM remodeling","description":"This cluster centers on innate immune response and complement activation, with ECM-related terms such as collagen fibril organization and cross-linking, plus coagulation. Additional terms point to cell communication (GPCR signaling, receptor clustering) and developmental processes (embryo implantation, palatal morphogenesis, smooth muscle proliferation), suggesting a theme of immune/coagulation activity linked to extracellular matrix remodeling during development. The sparse connectivity (edge count 1) still supports a cohesive broad theme rather than disparate functions.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0019800","count":2},{"id":"GO:0007596","count":2}]},{"hash":"1098104958226417588","title":"Mitochondrial dynamics and membrane potential regulation","description":"The top GO terms cluster around stress-induced mitochondrial fusion, positive regulation of mitochondrial membrane potential, and inner mitochondrial membrane organization, which together point to mitochondrial dynamics and energy regulation as the core function of this cluster. Some terms like podocyte development and IL-2 production appear less central and may reflect broader or off-target annotations. Overall, the mitochondrial theme is dominant among the shared terms. ","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1990046","count":6},{"id":"GO:0010918","count":6},{"id":"GO:0007588","count":6},{"id":"GO:0072249","count":6},{"id":"GO:0032623","count":6}]},{"hash":"1265039267320604281","title":"Ion and small-molecule transmembrane transporters","description":"These proteins are collectively enriched for transmembrane transport functions across a range of substrates, including inorganic ions (phosphate, potassium, sodium, nitrite), sugars and related metabolites (sialic acid, arabinose, fucose), and xenobiotics, with an additional note on neurotransmitter loading into synaptic vesicles. This points to a shared role as membrane transporters handling diverse substrates rather than a single specific ligand, justifying labeling the cluster as Ion and small-molecule transmembrane transporters.","confidence":"Medium","size":6,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":5},{"id":"GO:0015739","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0006004","count":5},{"id":"GO:0015707","count":5}]},{"hash":"2193279723716182474","title":"Cortical neuron migration and synapse regulation","description":"Based on the top GO terms, the proteins are linked to cortical tangential neuron migration, locomotory behavior, NMDA receptor clustering, and maintenance/regulation of synapses. This combination points to a cluster centered on neural development and synaptic organization, with related behavioral and signaling aspects reflecting broader neural function. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0007626","count":4},{"id":"GO:0043059","count":3},{"id":"GO:0021800","count":3},{"id":"GO:0010751","count":3}]},{"hash":"1411603790131992819","title":"Ion and Sugar Transmembrane Transporters","description":"This cluster is dominated by GO terms for transmembrane transport of ions (phosphate, potassium, sodium, nitrite, xenobiotic) and sugars (fucose, arabinose), with an additional vesicular neurotransmitter loading term, pointing to a general membrane transport function across substrates. The cohesive theme is transmembrane transport rather than a single substrate, supporting a label of ion and sugar transmembrane transporters. ","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":6},{"id":"GO:0015739","count":6},{"id":"GO:0071805","count":6},{"id":"GO:0006004","count":6},{"id":"GO:0015707","count":6}]},{"hash":"2004182011437846207","title":"Developmental remodeling and immune signaling","description":"The cluster combines inflammatory and immune-related terms (inflammatory response, response to nematode) with signaling pathways (cell surface receptor signaling, non-canonical NF-kappaB signaling) and diverse developmental processes (ovulation, metamorphosis, cartilage condensation, bone mineralization, smooth muscle migration, synapse assembly), suggesting a cohesive role in developmental tissue remodeling coordinated with immune signaling.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0042346","count":2},{"id":"GO:0030728","count":2},{"id":"GO:0014909","count":2},{"id":"GO:0051965","count":2}]},{"hash":"2098336511524753337","title":"Acetyl-CoA and Ketone Body Metabolism","description":"The enriched terms are dominated by acetyl-CoA\u2013related processes (acetyl-CoA biosynthesis from acetate, ketone catabolic processes, succinyl-CoA catabolic, propionate metabolism), which together point to a metabolic module centered on acetyl-CoA and ketone metabolism. Some outliers (lipoteichoic acid biosynthesis, heart/brain development) may reflect annotation noise or organism-specific roles, but they do not override the core metabolic theme.","confidence":"Medium","size":5,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0019427","count":2},{"id":"GO:0070395","count":2},{"id":"GO:0042182","count":1},{"id":"GO:0019679","count":1},{"id":"GO:0019552","count":1}]},{"hash":"679352095142567508","title":"Unknown","description":"The terms span DNA replication (unwinding, leading strand elongation, recombination), RNA decay, peroxisomal protein import, microtubule dynamics and centriole elongation, and protein quality control. This mixture does not reveal a single, coherent function tying all proteins together, so a precise label cannot be assigned.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0071712","count":1},{"id":"GO:0016562","count":1},{"id":"GO:0070651","count":1}]},{"hash":"2248821243222086821","title":"Extrinsic apoptosis and Rho GTPase signaling","description":"This cluster is dominated by GO terms for death receptor\u2013mediated extrinsic apoptosis and small GTPase/Rho signaling, with supporting links to phosphatase/PI signaling and barrier-related processes, suggesting a cohesive theme of receptor-driven apoptosis intertwined with cytoskeletal and membrane signaling.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008625","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0006470","count":4},{"id":"GO:0090557","count":4}]},{"hash":"1474767853914611930","title":"Cellular Stress Response and Nucleotide Metabolism","description":"The top GO terms reflect stress-related processes (response to xenobiotic stimulus, regulation of cardiac hypertrophy in response to stress, translation control via eIF2 alpha dephosphorylation, exosome-dependent transcription termination) alongside core metabolism tied to nucleotides (AMP catabolic process, adenosine biosynthesis) and isoprenoid pathway activity. This suggests a cluster centered on cellular adaptation to stress with links to nucleotide/energy metabolism and RNA/DNA processing rather than a single tissue-specific function. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1903244","count":4},{"id":"GO:2001034","count":4},{"id":"GO:0006196","count":4},{"id":"GO:0046086","count":4},{"id":"GO:0030182","count":4}]},{"hash":"1999104513935299190","title":"Embryogenesis and Organ Development","description":"The top GO terms represent broad embryonic development across multiple tissues (in utero development, mesoderm differentiation, organ morphogenesis such as thymus, trachea, hair follicles, and sensory/neuronal structures), suggesting a general developmental program rather than a single tissue-specific function.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":4},{"id":"GO:0048371","count":3},{"id":"GO:0060438","count":3},{"id":"GO:0002897","count":3},{"id":"GO:0097536","count":3}]},{"hash":"1637329264763398614","title":"Mitotic division and vesicle transport","description":"The GO terms cluster around mitosis and microtubule dynamics (chromosome segregation, sister chromatid cohesion, mitotic cell cycle, cell division, regulation of microtubule polymerization/depolymerization) and extend to intracellular trafficking (vesicle fusion regulation, intracellular protein transport, endosome transport, vacuole fusion). This suggests proteins involved in cell division with coordinated vesicle trafficking, hence the combined label.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007059","count":1},{"id":"GO:0007062","count":1},{"id":"GO:0000278","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0031110","count":1}]},{"hash":"657493576049232717","title":"Multiorgan epithelial development with innate immunity","description":"The proteins show GO terms for kidney (metanephric development, proximal tubule), lung epithelium development, and spinal cord development, pointing to organ/tissue development. They also include innate immune activities (innate immune response, cytokine production) and cellular processes like endocytosis and apoptotic cell clearance, suggesting a theme of organ development intertwined with immune and cellular turnover functions. Confidence: Medium","confidence":"","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0072218","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0021510","count":1},{"id":"GO:0072237","count":1},{"id":"GO:0070207","count":1}]},{"hash":"2136096325049875417","title":"Unknown","description":"The top GO terms are highly heterogeneous (immune signaling, meiotic cell cycle/spindle attachment, chemotaxis, sterol import, rhythmic processes, nucleotide biosynthesis) and several are obsolete, with only five proteins and a sparse interaction network. There is no cohesive, shared function that consistently ties these terms together, so a specific, representative label cannot be confidently assigned beyond Unknown.","confidence":"","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051092","count":4},{"id":"GO:0035376","count":4},{"id":"GO:0006935","count":4},{"id":"GO:0051436","count":4},{"id":"GO:0046826","count":4}]},{"hash":"1295284117001273854","title":"Purine salvage and DNA repair","description":"The top GO terms show strong representation of purine salvage pathways (hypoxanthine, IMP, guanine) and base-excision repair, indicating a shared function in nucleotide metabolism and genome maintenance; other terms are less central.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0043103","count":2},{"id":"GO:0032264","count":2},{"id":"GO:0006178","count":2}]},{"hash":"331101447077682663","title":"TLR Signaling and Cytokine Production","description":"These terms collectively point to a module of innate immune signaling centered on TLR2/4 pathways (MyD88-dependent and TIRAP-dependent), leading to NF-kappaB activation and upregulation of inflammatory cytokines such as IL-6 and IL-12, as well as antifungal peptide production. The concordance of TLR signaling and cytokine production across the GO terms supports a function as a TLR-driven inflammatory signaling cluster.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034137","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0034145","count":2},{"id":"GO:0045410","count":2},{"id":"GO:0070671","count":2}]},{"hash":"608802055579143633","title":"Signaling and Neuronal Development","description":"The terms cluster around regulation of signaling pathways (CAMKK-AMPK, Wnt signalosome assembly, Toll-like receptor signaling) and neuronal maturation/polarity, with some cell cycle and trafficking processes also appearing. This suggests a broad role in developmental signaling and neuronal function rather than a single, unified pathway.","confidence":"Medium","size":5,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045842","count":4},{"id":"GO:0071169","count":4},{"id":"GO:1905289","count":3},{"id":"GO:0090394","count":3},{"id":"GO:1905279","count":3}]},{"hash":"663617302950573375","title":"Bacterial stress and envelope processes","description":"The top GO terms cluster around bacterial responses to stress (SOS response, mercury ion response, nucleotide-excision repair) and envelope-related activities (teichoic acid transport, phospholipid translocation, lipoprotein transport), with sporulation and cellulose catabolic process suggesting broader metabolism and development in bacteria. While some terms (phytosterol absorption) are less connected, the dominant theme points to bacterial stress adaptation and cell envelope biology. ","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0030245","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0015777","count":1},{"id":"GO:0009432","count":1},{"id":"GO:0045332","count":1}]},{"hash":"1076842988753117370","title":"Hormone-Responsive Signaling","description":"The GO terms show multiple hormone-related responses (insulin, estradiol, glucocorticoids) and regulation of the ERK/MAPK cascade, indicating a common theme of hormone-mediated signal transduction, with some connectivity to development and cardiovascular contexts. Overall, the cluster appears best described as hormone-responsive signaling, with MAPK regulation as a core feature.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":3},{"id":"GO:0070373","count":3},{"id":"GO:0007417","count":3},{"id":"GO:0051291","count":2},{"id":"GO:0032355","count":2}]},{"hash":"824532291240368248","title":"N-linked glycosylation and glycan processing","description":"The cluster centers on protein glycosylation, especially N-linked glycosylation and N-glycan processing, with supporting terms for glycan metabolism and deglycosylation. The presence of rhodopsin biosynthetic process aligns with glycosylation of photoreceptor proteins, reinforcing a theme of maturation and modification of glycoproteins. Although a couple of terms are obsolete, the dominant signal is a glycosylation/glycan-processing cluster.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035010","count":2},{"id":"GO:0018279","count":1},{"id":"GO:0006487","count":1},{"id":"GO:0006013","count":1},{"id":"GO:0006486","count":1}]},{"hash":"1204550539140414549","title":"Ribosome and Spliceosome Machinery","description":"The top GO terms cluster around translation and ribosome function (translation, mitochondrial translational elongation, ribosome disassembly) together with spliceosome processes (spliceosome conformational change, tri-snRNP complex assembly), indicating a group of proteins tied to RNA processing and protein synthesis rather than a single signaling pathway. Some differentiation terms may reflect cellular contexts but do not define the core function of the cluster.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":4},{"id":"GO:0070125","count":4},{"id":"GO:0002244","count":4},{"id":"GO:2000767","count":4},{"id":"GO:0032790","count":4}]},{"hash":"1934243422158941959","title":"Muscle and heart development (myogenesis)","description":"This cluster is driven by terms tied to transcriptional regulation and lineage specification, with strong enrichment for myoblast fate and skeletal muscle fiber development, as well as cardioblast migration, indicating involvement in muscle formation and cardiac muscle lineage. While some terms point to broader organ development (retina, bronchiole), the most prominent signals converge on muscle differentiation and heart development.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":5},{"id":"GO:0007540","count":4},{"id":"GO:0003259","count":4},{"id":"GO:2000678","count":4},{"id":"GO:0007518","count":4}]},{"hash":"1012066684971665486","title":"Complement activation and necroptosis signaling","description":"The top GO terms center on innate immune responses: complement activation via the lectin pathway, its negative regulation, and necroptotic process, pointing to an immune/death signaling theme. Some other terms (glycogen/alpha-glucan catabolism, Purkinje cell development) seem auxiliary or noisy, so the core cluster label focuses on immune complement activity and necroptosis.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0006015","count":1},{"id":"GO:0070266","count":1},{"id":"GO:0005980","count":1},{"id":"GO:0030980","count":1}]},{"hash":"1909182152834986943","title":"Skeletal muscle differentiation and sarcomere organization","description":"The dominant signals are skeletal muscle differentiation, skeletal muscle tissue development, and sarcomere organization, suggesting a muscle development and contractile apparatus assembly program. A few unrelated terms (nervous system development, germinal center formation, circadian rhythm regulation) are present but less representative, likely annotation spillover.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0035853","count":3},{"id":"GO:0031591","count":3}]},{"hash":"471956754360216917","title":"RNA Methylation Machinery","description":"The top GO terms are dominated by methylation processes: peptidyl-arginine methylation, mRNA capping (7-methylguanosine), RNA guanine-N7 methylation, and tRNA wobble uridine modification. This indicates a cluster of methyltransferases acting on RNA and proteins, i.e., RNA methylation and processing enzymes. Some other terms (chlorophyll/nodulation, metal response) may be ancillary or annotation noise, but the strongest signal is RNA methylation-related functions.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019919","count":2},{"id":"GO:0046690","count":2},{"id":"GO:0006370","count":2},{"id":"GO:0002098","count":2},{"id":"GO:1901052","count":2}]},{"hash":"2135726653089121967","title":"Cellular Stress and Immune Response","description":"The top GO terms cluster around innate immune signaling and cellular stress responses (innate immune response, response to unfolded protein, metal ion responses such as cadmium and lead). There are additional signals related to hormonal signaling and chromatin modification, and even cell cycle components, suggesting a broad stress/immune signaling module rather than a single, tightly defined pathway. Some terms are obsolete, which tempers confidence.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0006986","count":5},{"id":"GO:0016570","count":5},{"id":"GO:0000278","count":5},{"id":"GO:2000324","count":5}]},{"hash":"681757283729405551","title":"Neuronal Development and Signaling","description":"The top GO terms center on nervous system development, neuron migration, and branchiomeric skeletal muscle development, pointing to neural crest\u2013derived neural development and cranial nerve-associated processes. Supporting terms involve signaling pathways (stress-activated MAPK signaling and STAT phosphorylation) and regulation of neuronal survival, suggesting coordinated signaling in neural development. Overall, the cluster appears to group genes involved in neural development and neuronal signaling.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048485","count":1},{"id":"GO:0007399","count":1},{"id":"GO:0014707","count":1},{"id":"GO:1903263","count":1},{"id":"GO:2001240","count":1}]},{"hash":"1233638471502834117","title":"Unknown","description":"The GO terms are a mix of immune/endocytic processes (innate immune response, receptor-mediated endocytosis, apoptotic cell clearance, viral entry regulation) and development/metabolic terms (spinal cord development, lipoprotein transport, thyroid hormone generation, EMT regulation), with no single dominant function linking all proteins. A concise, representative label is not confidently identifiable.","confidence":"","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035813","count":5},{"id":"GO:0046598","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0010719","count":5},{"id":"GO:0021510","count":5}]},{"hash":"284035596718471082","title":"Carbohydrate and amino acid catabolism with stress responses","description":"The top GO terms cluster around catabolic processes for sugars and amino acids (ethanol, xylitol, Ehrlich pathway) and central carbon metabolism (D-xylulose 5-phosphate biosynthesis, NADH oxidation). Added stress-related terms (nitrosative stress, copper ion, antineoplastic agent) suggest a module where metabolism interfaces with redox and metal stress responses. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0051409","count":5},{"id":"GO:0006068","count":5},{"id":"GO:0051160","count":5},{"id":"GO:1901159","count":5},{"id":"GO:0006116","count":5}]},{"hash":"679976389346457141","title":"Macrophage lipid remodeling and inflammatory signaling","description":"The cluster centers on lipid metabolism and remodeling (PC/PG/PA remodeling, lipid biosynthetic and catabolic processes) combined with leukotriene biosynthesis and macrophage activation/foam cell differentiation, plus innate mucosal immune activity and ERK signaling regulation. Together these terms point to coordinated lipid remodeling in macrophages that drives inflammatory signaling and immune responses.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0034374","count":5},{"id":"GO:0019370","count":5},{"id":"GO:0044240","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0002227","count":5}]},{"hash":"71837743144206019","title":"Neuronal and Autonomic Signaling","description":"The top GO terms cluster around signaling processes that coordinate nervous system activity with cardiovascular and systemic regulation: trans-synaptic endocannabinoid signaling, dopamine receptor signaling that modulates adenylate cyclase, and regulation of vasoconstriction and cardiac muscle contraction. Some terms about histamine-induced gastric acid secretion and heat generation suggest broader physiological regulation, but the shared theme is neuromodulatory and autonomic signaling that links neural activity to vascular and metabolic responses. ","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001697","count":4},{"id":"GO:0035106","count":4},{"id":"GO:0055117","count":4},{"id":"GO:0031649","count":4},{"id":"GO:1902239","count":4}]},{"hash":"1814206417208060790","title":"Nutrient and ion transmembrane transport","description":"Most terms point to transmembrane transport across the plasma membrane for a range of small molecules and ions (glucose, D-xylose, myo-inositol, biotin, pantothenate, phosphate, sialic acid) and sodium export, with an additional related term about glucose import in response to insulin. This cohesive theme suggests a cluster of transport proteins facilitating uptake/export of diverse nutrients and ions. A single outlier term (acetylcholine biosynthetic process) does not negate the overall pattern.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":4},{"id":"GO:0071436","count":3},{"id":"GO:0015798","count":3},{"id":"GO:0015878","count":3},{"id":"GO:0015887","count":3}]},{"hash":"882360260805672777","title":"Microtubule-based nuclear migration and mitosis","description":"The GO terms are dominated by microtubule-associated processes: nuclear migration along microtubules, regulation of microtubule-based processes, mitotic spindle elongation and meiosis spindle orientation, plus related nuclear movements in cell fusion and cytokinesis. This points to a cohesive theme of microtubule-driven nuclear positioning and chromosome segregation during cell division, hence a label centered on microtubule-based dynamics.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030473","count":1},{"id":"GO:0032886","count":1},{"id":"GO:0000911","count":1},{"id":"GO:0051296","count":1},{"id":"GO:0000022","count":1}]},{"hash":"1643882025670277490","title":"Carbohydrate salvage and catabolic pathways","description":"The GO terms cluster around salvage processes for nucleotides (AMP and adenosine salvage) and a suite of sugar catabolic and phosphorylation steps (ribose, lactose via tagatose-6-phosphate, fructose, sucrose, glycolysis via fructose-6-phosphate, myo-inositol phosphate biosynthesis, sulfoquinovose catabolism). This combination points to a cohesive module of carbohydrate metabolism, including salvage, phosphorylation, and breakdown of diverse sugars feeding into central metabolism. The clear sugar-centric theme across diverse pathways supports this label.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":1},{"id":"GO:0046835","count":1},{"id":"GO:1902777","count":1},{"id":"GO:0009744","count":1},{"id":"GO:0019303","count":1}]},{"hash":"305803088278333019","title":"Chromatin silencing and transcription regulation","description":"The cluster\u2019s top GO terms cluster around regulation of transcription from RNA polymerase II promoter and heterochromatin formation (negative/positive regulation of silencing at telomeres and rDNA). This points to a shared function in controlling chromatin state and gene expression, rather than a specific metabolic pathway. Some terms appear obsolete or tangential (e.g., substantia nigra development, biofilm adhesion), but the core theme is chromatin-mediated transcriptional regulation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1900375","count":1},{"id":"GO:1900526","count":1},{"id":"GO:0061186","count":1},{"id":"GO:0031939","count":1},{"id":"GO:1900525","count":1}]},{"hash":"2223739964196869205","title":"Viral genome integration and proviral latency","description":"These proteins are annotated with GO terms tied to reverse transcription (RNA-templated DNA biosynthetic process), DNA integration, and establishment of integrated proviral latency, alongside viral entry and DNA replication steps. The common thread is viral genome integration and latency within the host genome, i.e., retroviral-like life cycle steps.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006278","count":1},{"id":"GO:0075732","count":1},{"id":"GO:1903704","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0097043","count":1}]},{"hash":"687128895079955112","title":"Vesicle Fusion and Secretion Regulation","description":"The top GO terms cluster around vesicle fusion, vesicle-mediated transport, and secretion (including positive regulation of vesicle fusion and insulin secretion), with related lipid signaling and Rho-regulated cytoskeletal aspects. This suggests a theme of vesicle trafficking and secretory processes, possibly in neuronal or endocrine contexts, even though a few morphogenesis terms are less central. Confidence: Medium.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048858","count":1},{"id":"GO:0090660","count":1},{"id":"GO:0072114","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0048174","count":1}]},{"hash":"2044616578674555120","title":"Nucleocytoplasmic transport and spindle organization","description":"This cluster is characterized by GO terms for protein localization to the nuclear inner membrane and RNA export, pointing to nucleocytoplasmic transport. The addition of spindle organization (cell-cycle related) and ubiquitin-dependent proteolysis suggests coordinated regulation during mitosis. The combination of transport, nuclear/chromatin-associated processes and spindle functions supports a theme around nuclear trafficking and cell-cycle control.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0036228","count":2},{"id":"GO:1901181","count":2},{"id":"GO:0000061","count":2},{"id":"GO:0035392","count":2},{"id":"GO:0006511","count":2}]},{"hash":"1290267284731356815","title":"Immune signaling and chemokine regulation","description":"The GO terms cluster around immune response pathways: NF-kappaB regulation, chemokine production, IL-12 regulation, and TRAIL-mediated apoptotic signaling, indicating inflammatory and apoptotic signaling as the core theme; the odontogenesis and hair follicle development terms appear as noise or indirect associations. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0042489","count":2},{"id":"GO:0051798","count":2},{"id":"GO:2000341","count":2},{"id":"GO:0071285","count":2}]},{"hash":"1714185438720218294","title":"Chromosome condensation and cohesin function","description":"The cluster is dominated by GO terms related to chromosome condensation during mitosis and meiosis and to sister chromatid cohesion (including mitotic and centromeric cohesion and cohesin-related processes), with additional related chromatin condensation contexts (rDNA) and a note of DNA damage response (SOS). This combination most consistently points to proteins involved in establishing and maintaining higher-order chromatin structure via condensin/cohesin mechanisms during cell division, making the label representative and specific.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0061780","count":4},{"id":"GO:0010032","count":4},{"id":"GO:0007076","count":4},{"id":"GO:0009432","count":4},{"id":"GO:1903342","count":4}]},{"hash":"260802990283399625","title":"Plant hormone signaling and cell cycle regulation","description":"This cluster shows strong representation of plant hormone signaling (auxin, ethylene), development, and cell-cycle processes (G2/M, chromosome segregation), suggesting a shared role in plant growth and division. Additional terms like vacuolar acidification and DNA repair point to broader cellular maintenance contexts; overall, a plant-development and cell-cycle theme fits best.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060542","count":2},{"id":"GO:0007035","count":2},{"id":"GO:0009734","count":2},{"id":"GO:0070911","count":2},{"id":"GO:0007275","count":2}]},{"hash":"1238220609870813604","title":"Neuronal projection maintenance and vesicle trafficking","description":"The enrichment centers on neuronal projection maintenance and axon development, accompanied by transport processes (mitochondrial and general protein transport) and vesicle-related activities (vesicle fusion, endocytic recycling, cholesterol transport). This points to a cohesive role in maintaining neuronal projections through coordinated vesicle trafficking and related signaling. With a small cluster size and modest connectivity, the label is plausible but not highly certain.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1990535","count":1},{"id":"GO:0048929","count":1},{"id":"GO:0006839","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0035023","count":1}]},{"hash":"93270144023966363","title":"Innate Immunity and Apoptosis","description":"The main signal is innate immune response with inflammatory pyroptosis and apoptotic processes, under regulation by protein ubiquitination, with melanization defense supporting immune function. Some terms for mitotic spindle assembly and nervous system development may reflect multifunctional roles, but the core theme centers on immune defense and programmed cell death.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0045087","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0090307","count":4},{"id":"GO:0070269","count":4},{"id":"GO:1990001","count":4}]},{"hash":"468524627733938721","title":"Complement activation and regulation","description":"The cluster is dominated by GO terms related to the complement system, including activation via lectin and alternative pathways, regulation of complement activation, complement receptor signaling, and membrane attack complex activation, suggesting a cohesive theme around immune defense by complement. A couple of terms like photosynthesis and Purkinje cell layer development appear among the top terms, which are likely incidental noise rather than representative of the cluster\u2019s core function. Overall, the network-level signal points to complement system processes as the core identity.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":2},{"id":"GO:0045957","count":2},{"id":"GO:0021680","count":2},{"id":"GO:0051006","count":2},{"id":"GO:0039573","count":2}]},{"hash":"1697939987078010916","title":"Steroid, retinoid, and pigment biosynthesis","description":"The top GO terms are dominated by biosynthetic processes for steroids (androgen, estrogen, glucocorticoid), retinoids (retinoic acid, retinol), and pigment (melanin) biosynthesis, with an additional lipid-related metabolism term (3-keto-sphinganine). This suggests a cluster centered on multiple interconnected biosynthetic pathways rather than a single narrowly defined function, justifying a label that captures steroid, retinoid, and pigment biosynthesis as a cohesive theme.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":2},{"id":"GO:0006729","count":2},{"id":"GO:0002138","count":2},{"id":"GO:0031427","count":2},{"id":"GO:0006704","count":2}]},{"hash":"1136528008585463239","title":"Innate Immune Signaling and Inflammation","description":"The cluster is dominated by GO terms linking innate immune pathways (toll-like receptor 10 signaling, NOD2 signaling, innate immune response) and inflammatory outputs (positive regulation of inflammatory response, IL-6 and IL-18 production) as well as cell migration, suggesting a set of proteins involved in activating innate immunity and promoting inflammation. A couple of terms like RNA import into nucleus and defecation rhythm are less aligned with core innate signaling and may be incidental annotations, but the core theme remains innate immune activation and cytokine production.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034166","count":1},{"id":"GO:0045087","count":1},{"id":"GO:0006404","count":1},{"id":"GO:0070431","count":1},{"id":"GO:0050729","count":1}]},{"hash":"524784706785503008","title":"Steroid, retinoid, and pigment biosynthesis","description":"This cluster is dominated by GO terms for biosynthesis of steroid hormones (androgen, estrogen, glucocorticoid), retinoids (retinoic acid, retinol), and pigment-related processes (melanin), plus related metabolic paths like BH4 biosynthesis and sphingolipid metabolism. The common thread is synthesis of signaling molecules, vitamins, and pigments, suggesting a cohesive focus on hormone/vitamin and pigment biosynthesis, with methotrexate response appearing as a broader cellular reaction. ","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":2},{"id":"GO:0006729","count":2},{"id":"GO:0002138","count":2},{"id":"GO:0031427","count":2},{"id":"GO:0006704","count":2}]},{"hash":"822285264883926306","title":"Endocytosis and Nutrient Transport","description":"The GO terms point to receptor-mediated endocytosis and transferrin transport, with a related role in vacuolar protein degradation, suggesting a group involved in uptake and processing of nutrients; metabolic terms are present but secondary. ","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006526","count":3},{"id":"GO:0006144","count":3},{"id":"GO:0006898","count":3},{"id":"GO:0033572","count":3},{"id":"GO:0010081","count":3}]},{"hash":"488582704707605394","title":"Unknown","description":"The GO terms associated with this small cluster are highly heterogeneous, covering oocyte development, cardiac muscle relaxation, retinal cone cell development, interleukin-2 production, TGF-beta signaling, serotonin metabolism, and sensory perception of smell. This broad mix, along with the presence of obsolete terms and a sparse network (2 edges, 0 triangles), provides no clear, cohesive biological function tying the proteins together. Therefore a specific, intuitive label isn\u2019t supported by the data.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060282","count":2},{"id":"GO:0055119","count":2},{"id":"GO:0046549","count":2},{"id":"GO:0032743","count":2},{"id":"GO:0071560","count":2}]},{"hash":"1115234490750473613","title":"Central metabolism and oxidative stress response","description":"The proteins are associated with core metabolic processes (TCA cycle, NADP+ biosynthesis, leucine biosynthesis, phospholipid metabolism) and with stress responses (oxidative stress, hormone response). This suggests a cluster focused on energy/metabolic activity coupled with redox regulation, hence the label \u201cCentral metabolism and oxidative stress response.\u201d ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060696","count":2},{"id":"GO:0006099","count":2},{"id":"GO:0009098","count":2},{"id":"GO:0006979","count":2},{"id":"GO:0008585","count":2}]},{"hash":"827492916521325455","title":"Steroid and Retinoid Metabolism","description":"The top GO terms cluster around biosynthesis of steroid hormones (androgen, estrogen, glucocorticoid) and retinoids (retinoic acid, retinol), plus related lipid/cofactor metabolism (tetrahydrobiopterin) and pigment/lipid pathways (melanin, sphinganine). This suggests proteins in the cluster participate in lipid-derived metabolite production, especially steroid and vitamin A derivatives, rather than a single narrow function. Thus, Steroid and Retinoid Metabolism is a representative label.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008209","count":4},{"id":"GO:0006729","count":4},{"id":"GO:0002138","count":4},{"id":"GO:0031427","count":4},{"id":"GO:0006704","count":4}]},{"hash":"793445297376683607","title":"Bacterial cell wall and capsule biosynthesis","description":"The GO terms cluster around bacterial envelope biogenesis and surface polysaccharide assembly, including cell wall organization, capsule polysaccharide biosynthesis, teichoic acid and mycolate layer assembly, and related glycosylation processes. These collectively point to proteins involved in constructing and decorating the bacterial cell wall and capsule, rather than intracellular signaling or metabolism. The immunoglobulin production term seems out of place and likely an annotation artifact. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":3},{"id":"GO:0002378","count":2},{"id":"GO:0018243","count":2},{"id":"GO:0045227","count":2},{"id":"GO:0019350","count":2}]},{"hash":"1281221791162719447","title":"Muscle development and signaling networks","description":"The cluster is enriched for terms tied to muscle differentiation and assembly (positive regulation of myoblast differentiation; striated muscle myosin thick filament assembly) and cytoskeletal signaling (regulation of Rho signaling; planar polarity establishment), as well as neural development cues (neurogenesis; regulation of synapse assembly). Together these points suggest a set of proteins involved in developmentally regulated signaling that shapes muscle and neural tissue architecture, with additional signaling context terms that broaden the signaling theme. ","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0045663","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0071688","count":3},{"id":"GO:0035385","count":3}]},{"hash":"53994048736776651","title":"Nutrient Transport and Secretory Pathways","description":"This cluster centers on GO terms for nutrient (retinol/vitamin) transport and secretory/trafficking processes (ER-to-Golgi exit, lysosomal enzyme secretion), plus growth responses under nutrient limitation (pseudohyphal/invasive growth) and mitochondrial dynamics. Together, these terms point to a coordinated nutrient-stress response affecting transport and organelle function.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034633","count":1},{"id":"GO:0051180","count":1},{"id":"GO:0010940","count":1},{"id":"GO:0010917","count":1},{"id":"GO:0035794","count":1}]},{"hash":"1886814939720335062","title":"Plant metal detox and protein turnover","description":"The cluster shows enrichment for phytochelatin biosynthesis, a plant-specific pathway for heavy-metal detox, along with proteolysis and autophagy regulation terms, which point to protein quality control and turnover. The combination suggests a plant stress response theme linking detoxification with protein homeostasis, with a minor role for general regulation of catalytic activity. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043085","count":4},{"id":"GO:0046938","count":4},{"id":"GO:1904715","count":4},{"id":"GO:0006508","count":4}]},{"hash":"432760740137060738","title":"Steroid and lipid metabolism with xenobiotic processing","description":"This cluster centers on metabolism-related GO terms, including androgen metabolic process, oxylipin biosynthesis, epoxygenase P450 pathway, and retinoic acid biosynthesis, indicating lipid/steroid metabolic activity. The presence of insecticide/alkaloid metabolism and xenobiotic-related biosynthetic processes further supports a detoxification/metabolic theme, likely involving cytochrome P450\u2013mediated pathways. A few regulatory terms (G1/S transition, aldosterone-related regulation) point to endocrine/metabolic regulation but do not outweigh the metabolic emphasis. Overall, the dominant theme is metabolic processing of bioactive lipids, steroids, and xenobiotics.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":4},{"id":"GO:0019373","count":4},{"id":"GO:0031408","count":4},{"id":"GO:1900087","count":4},{"id":"GO:0017143","count":4}]},{"hash":"762589478565769008","title":"Diverse substrate membrane transporters","description":"All top terms point to transmembrane transport of a broad set of substrates (sugars, vitamins, ions, xenobiotics). This suggests the cluster groups membrane transporter proteins with diverse substrate specificity, hence \"Diverse substrate membrane transporters.\"","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015757","count":3},{"id":"GO:0035461","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0035435","count":3},{"id":"GO:0071805","count":3}]},{"hash":"2145665257379242674","title":"Arp2/3-driven actin remodeling and endocytosis","description":"The cluster centers on Arp2/3 complex\u2013mediated actin nucleation and endocytosis, supported by terms for actin filament polymerization, cortical patch assembly/localization, and cell polarity\u2013related shape regulation. This points to a cohesive role in actin-driven membrane trafficking and cytoskeletal organization.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":2},{"id":"GO:0034314","count":2},{"id":"GO:0006858","count":1},{"id":"GO:0051654","count":1},{"id":"GO:0071963","count":1}]},{"hash":"965171052329310297","title":"Cardiac and craniofacial development with EMT","description":"Many terms point to heart and craniofacial morphogenesis and EMT processes, including endocardial cushion EMT, blood vessel morphogenesis, ventral identity, roof-of-mouth development, and TGF-beta signaling, all tied together by transcriptional regulation during development. This cohesive theme suggests a cluster centered on cardiac/craniofacial development and epithelial\u2013mesenchymal transitions.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0060021","count":1},{"id":"GO:1902844","count":1},{"id":"GO:0002051","count":1},{"id":"GO:0048859","count":1}]},{"hash":"1985390527476274635","title":"Unknown","description":"The GO terms are highly diverse and do not point to a single coherent function; terms range from innate immunity to retinal development and metabolism, with no shared process. Edges/triangles are zero, suggesting no detectable cluster connectivity. Therefore, no single label can represent this set beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":1},{"id":"GO:0045070","count":1},{"id":"GO:0006986","count":1},{"id":"GO:0046548","count":1},{"id":"GO:0038108","count":1}]},{"hash":"1908959389770894612","title":"Cadmium detox through phytochelatin and glutathione","description":"This cluster is dominated by terms related to heavy metal detoxification, especially cadmium ion handling, along with biosynthesis and transport of glutathione and phytochelatins, which are key plant metal-chelating detox pathways. The presence of phytochelatin biosynthetic process and phytochelatin\u2013metal complex formation, plus glutathione-related terms, suggests a coherent theme of metal detoxification in plants, despite a few general stress-response terms.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0098849","count":1},{"id":"GO:0046686","count":1},{"id":"GO:0009410","count":1},{"id":"GO:0006750","count":1},{"id":"GO:0034612","count":1}]},{"hash":"304234766390315728","title":"Complement Activation and Regulation","description":"The GO terms cluster around complement system functions\u2014lectin and alternative pathway activation, membrane attack complex formation, and receptor signaling\u2014indicating innate immunity involvement. A few terms like Purkinje cell development and photosynthesis appear as noise but do not overshadow the dominant complement-related pattern.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0001867","count":1},{"id":"GO:0045957","count":1},{"id":"GO:0021680","count":1},{"id":"GO:0051006","count":1},{"id":"GO:0039573","count":1}]},{"hash":"1396831888431536003","title":"Mitotic Cell Cycle Regulation","description":"The dominant GO terms point to mitosis and cell-cycle control (mitotic cell cycle, sister chromatid cohesion, spindle assembly checkpoint, mitotic DNA replication). Also, ubiquitin-related processes (ubiquitin-protein ligase activity) appear, indicating regulation of progression through mitosis. A few viral-process terms are present but appear secondary. Therefore, the cluster is best described as mitotic cell cycle regulation with ubiquitin-mediated control.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0031081","count":1},{"id":"GO:1902426","count":1}]},{"hash":"1605075536302392127","title":"Amino Acid Metabolism and Protein Turnover","description":"This cluster's terms cluster around amino acid biosynthesis (arginine, lysine) and protein breakdown (peptide catabolic process, proteolysis), with related nitrogen metabolism concepts (purine base metabolism, ureide catabolic process). The combination suggests a shared theme of amino acid supply and turnover rather than a single specific pathway. A plant-specific term (abscisic acid transport) appears peripheral but does not override the central theme. ","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006526","count":1},{"id":"GO:0019877","count":1},{"id":"GO:0043171","count":1},{"id":"GO:0006144","count":1},{"id":"GO:0009442","count":1}]},{"hash":"1132284403547019136","title":"Unknown","description":"The top GO terms show a mix of membrane transport activities (teichoic acid transport, phospholipid translocation, lipoprotein transport, methionine transport) and stress/DNA damage responses (SOS response, response to mercury ion, nucleotide-excision repair). With only three proteins and no single unifying function apparent across all terms, there isn\u2019t a clear cohesive theme to name the cluster.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046689","count":3},{"id":"GO:0015777","count":2},{"id":"GO:0009432","count":2},{"id":"GO:0045332","count":2},{"id":"GO:0006289","count":2}]},{"hash":"2119768820644615323","title":"Unknown","description":"The set includes glycerophospholipid catabolic process, innate immune signaling (NOD2 pathway), cytokine regulation (IL-12) and antibody isotype switching, plus mRNA stability and DNA damage site localization, spanning metabolism, immunity, gene expression, and genome maintenance with no single clear unifying function.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046475","count":2},{"id":"GO:1901594","count":2},{"id":"GO:1990166","count":2},{"id":"GO:0070431","count":2},{"id":"GO:0043488","count":2}]},{"hash":"1715941704172300816","title":"Sensory organ and skin appendage development","description":"GO terms point to development and differentiation of sensory organs (inner ear receptor cells, sensory perception of sound, avascular cornea) and skin-related structures (hair follicles, sebaceous glands). A cohesive theme centers on organ and tissue development in sensory and integumentary systems, with inflammatory signals appearing less central to the core function. Overall, this label reflects the dominant functional theme of the cluster.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035915","count":1},{"id":"GO:0060113","count":1},{"id":"GO:0036331","count":1},{"id":"GO:0050718","count":1},{"id":"GO:0001949","count":1}]},{"hash":"2152774291218572247","title":"Nucleotide metabolism and RNA editing","description":"The GO terms cohere around nucleoside/nucleotide metabolism (catabolic and biosynthetic processes, UMP salvage) and a specific RNA modification (tRNA wobble inosine editing). A riboflavin biosynthesis term and an antibiotic response term are present but less central, suggesting the primary common theme is nucleotide metabolism and RNA editing rather than a single clear pathway. Confidence: Medium","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006217","count":1},{"id":"GO:0009231","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0019858","count":1},{"id":"GO:0006147","count":1}]},{"hash":"704639793356916362","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019395","count":2},{"id":"GO:0009812","count":2},{"id":"GO:0014740","count":2},{"id":"GO:0031284","count":2},{"id":"GO:0044205","count":2}]},{"hash":"421606605522194725","title":"Unknown","description":"The terms cover a mix of neural development (spinal cord development, midbrain morphogenesis) and various signaling, metabolic, and cellular processes with no single dominant function tying the proteins together. Without a cohesive theme, a specific, representative label isn\u2019t justifiable.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014065","count":1},{"id":"GO:0035655","count":1},{"id":"GO:0021510","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0000266","count":1}]},{"hash":"1780694564868484491","title":"Actin cytoskeleton remodeling and lamellipodium formation","description":"This cluster is dominated by GO terms tied to actin polymerization and protrusive structures: Arp2/3-mediated nucleation, barbed-end capping regulation, lamellipodium assembly, and cell spreading. Together these point to regulation of actin cytoskeleton dynamics and protrusive structures essential for migration and adhesion, with mitochondria distribution and polarity-related terms likely secondary effects. Confidence: High","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000814","count":1},{"id":"GO:0034314","count":1},{"id":"GO:1900026","count":1},{"id":"GO:0010592","count":1},{"id":"GO:0048312","count":1}]},{"hash":"952847934307020884","title":"Unknown","description":"The top GO terms are highly heterogeneous, ranging from immune signaling (IL-2 pathway, NF-kappaB-related) and chemotaxis to sterol import, meiotic spindle attachment, and rhythmic or meiotic cell cycle processes, with several terms labeled obsolete. This lack of a single coherent function or pathway across the cluster suggests no clear shared function to name a specific cluster; thus the label is Unknown.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":2},{"id":"GO:0035376","count":2},{"id":"GO:0006935","count":2},{"id":"GO:0051436","count":2},{"id":"GO:0046826","count":2}]},{"hash":"320872293933477085","title":"Organelle protein import and trafficking","description":"This cluster centers on protein import into mitochondria, peroxisomes, and ER/Golgi trafficking, with related processing and retention steps, as well as ER-associated quality control like ERAD. The common theme is intracellular protein trafficking and processing across organelles, rather than a single pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061166","count":2},{"id":"GO:0045041","count":2},{"id":"GO:0033314","count":2},{"id":"GO:0016485","count":2},{"id":"GO:0045053","count":2}]},{"hash":"1256633647696230406","title":"Translation machinery and RNA processing","description":"The proteins in this cluster are tied to translation and RNA handling, with GO terms for translation, tRNA aminoacylation/processing, and rRNA base methylation pointing to ribosome function and protein synthesis. A lone proteolysis term is peripheral, not core to the theme.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070475","count":1},{"id":"GO:0070156","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0006432","count":1},{"id":"GO:0006412","count":1}]},{"hash":"1602600350393888822","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090502","count":1},{"id":"GO:0001682","count":1},{"id":"GO:0043144","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0006561","count":1}]},{"hash":"2185516722600289313","title":"Bacterial cell wall and LPS biosynthesis","description":"The GO terms are dominated by biosynthetic processes for peptidoglycan, lipopolysaccharide (LPS), lipid A, and the KDO sugar, all key components of the bacterial cell wall and outer membrane. A few terms about cell wall organization and cell shape regulation further support a role in envelope biosynthesis and morphology. Together, these suggest the cluster represents enzymes involved in building and organizing the bacterial cell envelope.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":2},{"id":"GO:1902758","count":1},{"id":"GO:0033468","count":1},{"id":"GO:0000902","count":1},{"id":"GO:0006048","count":1}]},{"hash":"907207095940844326","title":"Glycoprotein glycosylation and AGP pathways","description":"The top GO terms cluster around glycosylation of extracellular proteins and proteoglycans (Hyp-O-Gly, poly-N-acetyllactosamine, arabinogalactan protein metabolism, Lewis A epitopes) and processes linked to seed coat mucilage and root hair development, plus epithelial polarity/adhesion. This suggests a core theme of glycoprotein biosynthesis and cell surface/extracellular matrix components driving plant development and cell\u2013cell interactions; some insect-associated terms may reflect broader glycan biology, but the dominant signal is AGP-related glycosylation and mucilage/root hair pathways.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048354","count":3},{"id":"GO:0080147","count":3},{"id":"GO:0018258","count":3},{"id":"GO:0007299","count":3},{"id":"GO:0042248","count":3}]},{"hash":"952182261970905129","title":"Unknown","description":"The GO terms are diverse, including Wnt signaling regulation, lipid metabolism, retinal and mammary development, vesicle trafficking, protein degradation, and neuromuscular junction assembly. With no edges connecting the proteins and only a few terms scattered across unrelated processes, there is no clear shared function that defines this cluster. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044332","count":2},{"id":"GO:0060828","count":2},{"id":"GO:0010867","count":2},{"id":"GO:0070328","count":2},{"id":"GO:0061304","count":2}]},{"hash":"1763587712937193763","title":"Craniofacial and cardiovascular morphogenesis","description":"Dominant GO terms indicate morphogenesis of craniofacial structures and heart development, including face morphogenesis, craniofacial suture morphogenesis, and left-right asymmetry, along with vascular maturation. Cadherin-mediated cell-cell adhesion supports tissue organization during morphogenesis. Although some terms touch on immune processes and apoptosis, the core signal centers on developmental tissue patterning and morphogenesis, justifying the label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0001554","count":3},{"id":"GO:0061371","count":3},{"id":"GO:0097094","count":3},{"id":"GO:0044331","count":3},{"id":"GO:0010760","count":3}]},{"hash":"1471822237489517804","title":"Broad-spectrum membrane transporters","description":"Top GO terms show transmembrane transport of diverse substrates (ions like Na+, K+, phosphate, nitrite; sugars like arabinose and fucose; sialic acid; xenobiotics) and even neurotransmitter loading into synaptic vesicles, indicating these proteins function as membrane transporters with broad substrate range. This cohesive theme justifies labeling the cluster as broad-spectrum membrane transporters. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0015739","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0006004","count":3},{"id":"GO:0015707","count":3}]}]